Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 119 of 343
Found at i:40047774 original size:40 final size:40
Alignment explanation
Indices: 40047728--40047814 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
40047718 AATTCATTAC
* ** *
40047728 TTCAGTAATTTCACCGTTCAATGCAGTA-TACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACT-CAAAACAATA
*
40047768 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
*
40047808 TTTAGTA
1 TTCAGTA
40047815 TTCCATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
Found at i:40061341 original size:55 final size:52
Alignment explanation
Indices: 40061254--40061487 Score: 221
Period size: 55 Copynumber: 4.4 Consensus size: 52
40061244 ATTAGGGTTT
40061254 AAGGATACCATGTAAGACCATGCCAA-AGCATGGAAATTGGTAAGGTTTCTAAGGG
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGG-AATTGGTAA-GTTTCTAA-GG
* * * *
40061309 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGG
* * * *
40061363 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGG
1 --AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGG
* *
40061416 CAAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA--
1 -AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGG
*
40061466 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
40061488 AAAAGTCATG
Statistics
Matches: 152, Mismatches: 18, Indels: 24
0.78 0.09 0.12
Matches are distributed among these distances:
49 21 0.14
52 7 0.05
53 38 0.25
54 14 0.09
55 67 0.44
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGG
Found at i:40061460 original size:108 final size:110
Alignment explanation
Indices: 40061261--40061461 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
40061251 TTTAAGGATA
*
40061261 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGGAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
40061326 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
40061371 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
40061433 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
40061462 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:40077092 original size:28 final size:28
Alignment explanation
Indices: 40077042--40077132 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
40077032 GTGACAGAAT
*
40077042 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
40077071 CACCAGAATAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
40077099 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
40077127 CACCAG
1 CACCAG
40077133 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:40077286 original size:28 final size:28
Alignment explanation
Indices: 40077238--40077305 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
40077228 AAATTAACCC
* **
40077238 TAGGGGTATAAAGGTCGTTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40077266 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40077294 TAGGGGTATAAT
1 TAGGGGTATAAT
40077306 AGCGCCTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:40084879 original size:28 final size:28
Alignment explanation
Indices: 40084820--40084921 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
40084810 ATACAGAAAA
* * *
40084820 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATAATT
*
40084849 TGTGGCAGTGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
* *
40084877 TGTGGCAGGGCCACCAAAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
* *
40084905 TATGGCAAAGCCACCAG
1 TGTGGCAGAGCCACCAG
40084922 GACGCTTCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 48 0.76
29 15 0.24
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGAACAGATAATT
Found at i:40085074 original size:28 final size:28
Alignment explanation
Indices: 40085027--40085094 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
40085017 AAATTAACCC
* *
40085027 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
40085055 TAGGGGTATAATGGTAATTTTTCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40085083 TAGGGGTATAAT
1 TAGGGGTATAAT
40085095 AGCACCTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:40089986 original size:55 final size:52
Alignment explanation
Indices: 40089899--40090143 Score: 182
Period size: 55 Copynumber: 4.6 Consensus size: 52
40089889 ATTAGGGTTT
* *
40089899 AAGGATACCATGTAAGTCCATGCCAAGGCATGGAAATTGGTTCGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGG-T-GGTTTCTAAGGC
* * * * * *
40089954 AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATATGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGT-GGTT--TCTAAGGC
* * *
40090009 AAAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATTCGTGAG-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGAATTGGTG-GTTTC-TAAGGC
* * *
40090062 AAGGATACCATGGAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGT-GGTTTCTAAGGC
* *
40090111 AAGGATACCATGTAAGACCATGACAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
40090144 CAATGGTAAG
Statistics
Matches: 154, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
49 30 0.19
52 7 0.05
53 36 0.23
54 13 0.08
55 64 0.42
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTGGTTTCTAAGGC
Found at i:40090366 original size:16 final size:16
Alignment explanation
Indices: 40090345--40090375 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40090335 ATAAATTTGA
40090345 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40090361 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40090376 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40095354 original size:22 final size:22
Alignment explanation
Indices: 40095329--40095380 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
40095319 TGGGATTTTG
**
40095329 GGCCAGGCCGTGTGATCCACAC
1 GGCCAGGCCACGTGATCCACAC
* *
40095351 GGCCAAGCTACGTGATCCACAC
1 GGCCAGGCCACGTGATCCACAC
40095373 GGCCAGGC
1 GGCCAGGC
40095381 AACATGGGCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.37, G:0.31, T:0.12
Consensus pattern (22 bp):
GGCCAGGCCACGTGATCCACAC
Found at i:40098351 original size:55 final size:54
Alignment explanation
Indices: 40098264--40098518 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
40098254 ATTAGGGTTT
* *
40098264 AAGGGTACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
40098319 AAGGAAACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
40098374 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGAC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
40098427 AAGGATACCATGTAAAACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* *
40098476 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
40098519 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 38 0.23
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:40098470 original size:108 final size:110
Alignment explanation
Indices: 40098271--40098471 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
40098261 TTTAAGGGTA
* *
40098271 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAAA
*
40098336 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
40098381 CCATGTAAGACCATGCCAAGGCATGAC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAA
* *
40098443 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
40098472 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAAA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:40098731 original size:16 final size:16
Alignment explanation
Indices: 40098710--40098740 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40098700 ATAAATTTGA
40098710 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40098726 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40098741 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40101499 original size:42 final size:43
Alignment explanation
Indices: 40101394--40101545 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 43
40101384 CGAGAAGTGT
* *
40101394 TTACATGTAAGACCATGTCTGAGG-CATTTGCATTGTATTTTGA
1 TTACGTGTAAGACCATGTCTG-GGACATTTGCATTGTATTATGA
40101437 TTACGTGTAAGACCATGTCTGGGACA-TTGACATTGTATTATGA
1 TTACGTGTAAGACCATGTCTGGGACATTTG-CATTGTATTATGA
* * * *
40101480 TT-CGTGTAAGACCCTGTCTGGGACAGTTGCATCG-ATATGTGA
1 TTACGTGTAAGACCATGTCTGGGACATTTGCATTGTAT-TATGA
* * *
40101522 TAACATGTAAGACCATATCTGGGA
1 TTACGTGTAAGACCATGTCTGGGA
40101546 TACAGTATTG
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
41 2 0.02
42 36 0.38
43 57 0.60
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTTGCATTGTATTATGA
Found at i:40106575 original size:15 final size:16
Alignment explanation
Indices: 40106557--40106589 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
40106547 TAAGGTTTAT
40106557 GGATTATGGG-TTAAG
1 GGATTATGGGTTTAAG
40106572 GGATTATGGGTTTAAG
1 GGATTATGGGTTTAAG
40106588 GG
1 GG
40106590 TTGGGGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.33
Consensus pattern (16 bp):
GGATTATGGGTTTAAG
Found at i:40107076 original size:16 final size:16
Alignment explanation
Indices: 40107042--40107087 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
40107032 ATGGCTTTCT
*
40107042 CTAAACCC-TAACCCA
1 CTAAACCCTTAAACCA
*
40107057 CTAAACCCTTAAATCA
1 CTAAACCCTTAAACCA
*
40107073 CTAAACCTTTAAACC
1 CTAAACCCTTAAACC
40107088 GAAATCTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (16 bp):
CTAAACCCTTAAACCA
Found at i:40107248 original size:15 final size:14
Alignment explanation
Indices: 40107203--40107255 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
40107193 ACTAAATCCC
*
40107203 AAACCCTAAACTAT
1 AAACCTTAAACTAT
**
40107217 AAACCTTAAACCCT
1 AAACCTTAAACTAT
40107231 AAACTCTTAAACTAT
1 AAAC-CTTAAACTAT
*
40107246 AAACCCTAAA
1 AAACCTTAAA
40107256 ATCTTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCTTAAACTAT
Found at i:40107248 original size:22 final size:22
Alignment explanation
Indices: 40107203--40107263 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
40107193 ACTAAATCCC
*
40107203 AAACCCTAAACT-ATAAACCTT
1 AAACCCTAAACTCTTAAACCTT
40107224 AAACCCTAAACTCTTAAA-CTAT
1 AAACCCTAAACTCTTAAACCT-T
*
40107246 AAACCCTAAAATCTTAAA
1 AAACCCTAAACTCTTAAA
40107264 AATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 14 0.39
22 22 0.61
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACTCTTAAACCTT
Found at i:40107701 original size:73 final size:73
Alignment explanation
Indices: 40107618--40107776 Score: 214
Period size: 73 Copynumber: 2.2 Consensus size: 73
40107608 GTTTTAAAAA
* * *
40107618 AAAAAGCCGCAAATATGTTTTAA-AAGTGTGCAAAACGCTGTCGTTTTT-TCTAACTATTAGTGT
1 AAAACGCCGCAAATATGTTTTAAGAA-TGTGCAAAACGCTCTCGTTTTTGTCTAACTATTAGTGG
40107681 CATTTTTAAG
65 CATTTTT-AG
* * * *
40107691 AAAACGCCGCAAATATGTTTTAAGCATGTGGAAAACGCTCTTGTTTTTGTCTGACTATTAGTGGC
1 AAAACGCCGCAAATATGTTTTAAGAATGTGCAAAACGCTCTCGTTTTTGTCTAACTATTAGTGGC
*
40107756 GTTTTTAG
66 ATTTTTAG
40107764 AAAACGCCGCAAA
1 AAAACGCCGCAAA
40107777 AAGAAGCCTT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
73 56 0.74
74 20 0.26
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAACGCCGCAAATATGTTTTAAGAATGTGCAAAACGCTCTCGTTTTTGTCTAACTATTAGTGGC
ATTTTTAG
Found at i:40108269 original size:73 final size:71
Alignment explanation
Indices: 40108136--40108274 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 71
40108126 AAATCAGATT
*
40108136 ACCCTGATTTCATACCCCCAATTTCCCAATTTCTTCTCAGATTTTCCCTAACTGCGTCTTCCCCA
1 ACCCTGATTTCATACCCCCAATTTCCCAATTTCTTCTCACATTTTCCCTAACTGCGTCTTCCCCA
40108201 ACTTAA
66 ACTTAA
* * * * * *
40108207 ACCC-GATTTCATTCCCCCCATTTGCCCAATTTCTTTTCTCTCATTTTCTCTAAGTGTGTCTTCC
1 ACCCTGATTTCATACCCCCAATTT-CCCAATTTC--TTCTCACATTTTCCCTAACTGCGTCTTCC
40108271 CCAA
63 CCAA
40108275 ATTATTTTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
70 17 0.29
71 13 0.22
73 28 0.48
ACGTcount: A:0.19, C:0.36, G:0.06, T:0.38
Consensus pattern (71 bp):
ACCCTGATTTCATACCCCCAATTTCCCAATTTCTTCTCACATTTTCCCTAACTGCGTCTTCCCCA
ACTTAA
Found at i:40108741 original size:16 final size:16
Alignment explanation
Indices: 40108720--40108753 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
40108710 AAATACAAAA
40108720 TTAGTCTATCATCTTG
1 TTAGTCTATCATCTTG
40108736 TTAGTCTATCATCTTG
1 TTAGTCTATCATCTTG
40108752 TT
1 TT
40108754 CGATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (16 bp):
TTAGTCTATCATCTTG
Found at i:40109598 original size:42 final size:42
Alignment explanation
Indices: 40109539--40109619 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
40109529 CTCAAAACAC
40109539 ACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAATAT
1 ACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAATAT
40109581 ACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAA
1 ACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAA
40109620 GCAAGCTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (42 bp):
ACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAATAT
Found at i:40110842 original size:24 final size:24
Alignment explanation
Indices: 40110815--40110861 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
40110805 ATTATTATTG
*
40110815 AAATATTCTCG-TCTGTTTTATCAC
1 AAATATTATCGTTC-GTTTTATCAC
40110839 AAATATTATCGTTCGTTTTATCA
1 AAATATTATCGTTCGTTTTATCA
40110862 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (24 bp):
AAATATTATCGTTCGTTTTATCAC
Found at i:40111121 original size:15 final size:15
Alignment explanation
Indices: 40111097--40111151 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
40111087 ATTTGGATTA
*
40111097 ATTTATTTAAATATT
1 ATTTAATTAAATATT
40111112 ATTTAATTAAAATAATT
1 ATTTAATT-AAAT-ATT
40111129 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
40111141 ATTTAATTAAA
1 ATTTAATTAAA
40111152 ATAAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.09
13 7 0.21
14 2 0.06
15 12 0.35
16 7 0.21
17 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:40111124 original size:16 final size:16
Alignment explanation
Indices: 40111105--40111154 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
40111095 TAATTTATTT
40111105 AAATATTATTTAATTA
1 AAATATTATTTAATTA
40111121 AAATA--ATTT--TTA
1 AAATATTATTTAATTA
40111133 TAAATATTATTTAATTA
1 -AAATATTATTTAATTA
40111150 AAATA
1 AAATA
40111155 AAAATTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 3 0.10
13 5 0.17
14 4 0.14
15 4 0.14
16 10 0.34
17 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATATTATTTAATTA
Found at i:40111127 original size:29 final size:29
Alignment explanation
Indices: 40111095--40111155 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
40111085 TAATTTGGAT
40111095 TAATTTATT-TAAATATTATTTAATTAAAA
1 TAATTT-TTATAAATATTATTTAATTAAAA
40111124 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAAAA
40111153 TAA
1 TAA
40111156 AAATTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAAAA
Found at i:40111327 original size:20 final size:20
Alignment explanation
Indices: 40111304--40111367 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
40111294 TATTTAAATA
40111304 TTATATAATTAATATAATTT
1 TTATATAATTAATATAATTT
* * * *
40111324 TTAT-TAATTTATTTAAATA
1 TTATATAATTAATATAATTT
* *
40111343 TTATTTAATTAAAATAATTT
1 TTATATAATTAATATAATTT
40111363 TTATA
1 TTATA
40111368 AATATTATTT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATAATTAATATAATTT
Found at i:40111330 original size:39 final size:39
Alignment explanation
Indices: 40111272--40111379 Score: 155
Period size: 39 Copynumber: 2.8 Consensus size: 39
40111262 CAATTTTTTA
**
40111272 AATT-ATATAATTTAGATTAATTTATTTAAATATTATAT
1 AATTAATATAATTTTTATTAATTTATTTAAATATTATAT
*
40111310 AATTAATATAATTTTTATTAATTTATTTAAATATTATTT
1 AATTAATATAATTTTTATTAATTTATTTAAATATTATAT
* *
40111349 AATTAAAATAATTTTTATAAATATTATTTAA
1 AATTAATATAATTTTTATTAAT-TTATTTAA
40111380 TTAAAATAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 4 0.06
39 51 0.81
40 8 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (39 bp):
AATTAATATAATTTTTATTAATTTATTTAAATATTATAT
Found at i:40111348 original size:15 final size:15
Alignment explanation
Indices: 40111325--40111384 Score: 63
Period size: 15 Copynumber: 4.0 Consensus size: 15
40111315 ATATAATTTT
*
40111325 TATTAATTTATTTAAA
1 TATT-ATTTAATTAAA
40111341 TATTATTTAATTAAAA
1 TATTATTTAATT-AAA
40111357 TAATT-TTT-A-TAAA
1 T-ATTATTTAATTAAA
40111370 TATTATTTAATTAAA
1 TATTATTTAATTAAA
40111385 ATAAATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.08
13 7 0.18
14 2 0.05
15 12 0.32
16 11 0.29
17 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATTTAATTAAA
Found at i:40111357 original size:16 final size:15
Alignment explanation
Indices: 40111325--40111387 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
40111315 ATATAATTTT
*
40111325 TATTAATTTATTTAAA
1 TATT-ATTTATTAAAA
40111341 TATTATTTAATTAAAA
1 TATTATTT-ATTAAAA
40111357 TA--ATTT-TTATAAA
1 TATTATTTATTA-AAA
40111370 TATTATTTAATTAAAA
1 TATTATTT-ATTAAAA
40111386 TA
1 TA
40111388 AATTTTTACC
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
12 3 0.08
13 5 0.12
14 4 0.10
15 8 0.20
16 17 0.43
17 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTTATTAAAA
Found at i:40111361 original size:29 final size:29
Alignment explanation
Indices: 40111328--40111395 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
40111318 TAATTTTTAT
40111328 TAATTTATT-TAAATATTATTTAATTAAAA
1 TAATTT-TTATAAATATTATTTAATTAAAA
40111357 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAAAA
40111386 TAAATTTTTA
1 T-AATTTTTA
40111396 CCATGTGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
28 2 0.05
29 27 0.73
30 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAAAA
Found at i:40111519 original size:235 final size:232
Alignment explanation
Indices: 40111078--40111789 Score: 1159
Period size: 235 Copynumber: 3.1 Consensus size: 232
40111068 TCTTATTTTA
40111078 AATT-ATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTTTATAAATATTA
1 AATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTTTATAAATATTA
*
40111142 TTTAATTAAAATAAAAATTTTTCCATGTGATTTTGCACATCGTCAAATTTTA-TTT-TTATTATT
66 TTTAATTAAAAT--AAATTTTTCCATGTGATTTTCCACATCGTCAAATTTTATTTTATTATT-TT
* *
40111205 TTTTCCAAGGAACAAAGTTGACATTTCATCTCATACGGTTTTCGACTATTTTATACACAATTTTT
128 TTTTCCAAGGAACAAAGTTGACATTTCATCTTATACGGTTTTCGACTTTTTTATACACAATTTTT
*
40111270 TAAATTATATAATTTAGATTAATTTATTTAAATATTATAT
193 TAAATTATATAATTTGGATTAATTTATTTAAATATTATAT
**
40111310 AATTAATATAATTTTTATTAATTTATTTAAATATTATTTAATTAAAATAATTTTTATAAATATTA
1 AATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTTTATAAATATTA
40111375 TTTAATTAAAATAAATTTTTACCATGTGATTTTCCACATCGTCAAATTTTATTTTAATTATTTCT
66 TTTAATTAAAATAAATTTTT-CCATGTGATTTTCCACATCGTCAAATTTTATTTT-ATTATTT-T
* *
40111440 TTTTCCTAGGAACAAAGTTGACATTTCATCTTATACGGTTTTAGACTTTTTTATACACAATTTTT
128 TTTTCCAAGGAACAAAGTTGACATTTCATCTTATACGGTTTTCGACTTTTTTATACACAATTTTT
40111505 TAAATTATATAATTTGGATTAATTTATTTAAATATTA-ATT
193 TAAATTATATAATTTGGATTAATTTATTTAAATATTATA-T
40111545 AATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTTTATAAATATTA
1 AATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTTTATAAATATTA
* *
40111610 TTTAATTAAAATAAATTTTTTCCAGGTGATTTTCCACATCGTTAAATTTTA-TTT-TTATTTTTT
66 TTTAATTAAAATAAA-TTTTTCCATGTGATTTTCCACATCGTCAAATTTTATTTTATTA-TTTTT
*
40111673 TTTCCAAGGAACAAAGTTGACATTTCATCTTATACGGTTTTCTACTTTTTTATACACAA-TTTTT
129 TTTCCAAGGAACAAAGTTGACATTTCATCTTATACGGTTTTCGACTTTTTTATACACAATTTTTT
* *
40111737 AAATTATATAATTTTGGATTAATTTATTTAAATATAATTT
194 AAATTATATAA-TTTGGATTAATTTATTTAAATATTATAT
*
40111777 AATTAAAATAATT
1 AATTAATATAATT
40111790 AAATACATGA
Statistics
Matches: 451, Mismatches: 18, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
231 24 0.05
232 131 0.29
233 76 0.17
234 5 0.01
235 210 0.47
236 5 0.01
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (232 bp):
AATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTTTATAAATATTA
TTTAATTAAAATAAATTTTTCCATGTGATTTTCCACATCGTCAAATTTTATTTTATTATTTTTTT
TCCAAGGAACAAAGTTGACATTTCATCTTATACGGTTTTCGACTTTTTTATACACAATTTTTTAA
ATTATATAATTTGGATTAATTTATTTAAATATTATAT
Found at i:40111526 original size:19 final size:19
Alignment explanation
Indices: 40111504--40111570 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
40111494 ACACAATTTT
40111504 TTAAATTATATAATTTGGA
1 TTAAATTATATAATTTGGA
* * *
40111523 TTAATTTATTTAAATATT-AA
1 TTAAATTATAT-AAT-TTGGA
40111543 TT-AATTAATATAATTTGGA
1 TTAAATT-ATATAATTTGGA
*
40111562 TTAATTTAT
1 TTAAATTAT
40111571 TTAAATATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
18 2 0.06
19 20 0.56
20 12 0.33
21 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
TTAAATTATATAATTTGGA
Found at i:40111547 original size:20 final size:20
Alignment explanation
Indices: 40111522--40111587 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
40111512 TATAATTTGG
40111522 ATTAATTTATTTAAATATTA
1 ATTAATTTATTTAAATATTA
* * *
40111542 ATTAATTAATAT-AAT-TTGG
1 ATTAATTTATTTAAATATT-A
40111561 ATTAATTTATTTAAATATTA
1 ATTAATTTATTTAAATATTA
*
40111581 TTTAATT
1 ATTAATT
40111588 AAAATAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTAATTTATTTAAATATTA
Found at i:40111559 original size:39 final size:39
Alignment explanation
Indices: 40111507--40111597 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
40111497 CAATTTTTTA
40111507 AATT-ATATAATTTGGATTAATTTATTTAAATATTAATT
1 AATTAATATAATTTGGATTAATTTATTTAAATATTAATT
*
40111545 AATTAATATAATTTGGATTAATTTATTTAAATATTATTT
1 AATTAATATAATTTGGATTAATTTATTTAAATATTAATT
*
40111584 AATTAAAATAATTT
1 AATTAATATAATTT
40111598 TTATAAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 4 0.08
39 46 0.92
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (39 bp):
AATTAATATAATTTGGATTAATTTATTTAAATATTAATT
Found at i:40111583 original size:15 final size:15
Alignment explanation
Indices: 40111565--40111619 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
40111555 ATTTGGATTA
*
40111565 ATTTATTTAAATATT
1 ATTTAATTAAATATT
40111580 ATTTAATTAAAATAATT
1 ATTTAATT-AAAT-ATT
40111597 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
40111609 ATTTAATTAAA
1 ATTTAATTAAA
40111620 ATAAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.09
13 7 0.21
14 2 0.06
15 12 0.35
16 7 0.21
17 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:40111596 original size:29 final size:29
Alignment explanation
Indices: 40111563--40111629 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
40111553 TAATTTGGAT
40111563 TAATTTATT-TAAATATTATTTAATTAAAA
1 TAATTT-TTATAAATATTATTTAATTAAAA
40111592 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAAAA
40111621 TAAATTTTT
1 T-AATTTTT
40111630 TCCAGGTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 2 0.06
29 27 0.75
30 7 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAAAA
Found at i:40111774 original size:15 final size:14
Alignment explanation
Indices: 40111756--40111789 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
40111746 AATTTTGGAT
*
40111756 TAATTTATTTAAATA
1 TAATTTAATTAAA-A
40111771 TAATTTAATTAAAA
1 TAATTTAATTAAAA
40111785 TAATT
1 TAATT
40111790 AAATACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTTAATTAAAA
Found at i:40111841 original size:33 final size:35
Alignment explanation
Indices: 40111803--40111883 Score: 123
Period size: 33 Copynumber: 2.4 Consensus size: 35
40111793 TACATGACAT
40111803 CATAACTTACATAATACATAAATATATAAC-T-TA
1 CATAACTTACATAATACATAAATATATAACATATA
* *
40111836 CATAACTTACATAGTACATAAATATATATCATATA
1 CATAACTTACATAATACATAAATATATAACATATA
40111871 -ATAACTTACATAA
1 CATAACTTACATAA
40111884 CTTATGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.65
34 13 0.30
35 2 0.05
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (35 bp):
CATAACTTACATAATACATAAATATATAACATATA
Found at i:40111842 original size:9 final size:9
Alignment explanation
Indices: 40111803--40111994 Score: 64
Period size: 9 Copynumber: 22.1 Consensus size: 9
40111793 TACATGACAT
40111803 CATAACTTA
1 CATAACTTA
40111812 CATAA--TA
1 CATAACTTA
*
40111819 CATAA-ATA
1 CATAACTTA
*
40111827 TATAACTTA
1 CATAACTTA
40111836 CATAACTTA
1 CATAACTTA
*
40111845 CAT-A-GTA
1 CATAACTTA
*
40111852 CATAA-ATA
1 CATAACTTA
* *
40111860 TATATCATATA
1 CATAAC-T-TA
40111871 -ATAACTTA
1 CATAACTTA
40111879 CATAACTTA
1 CATAACTTA
**
40111888 TGTAA--TA
1 CATAACTTA
*
40111895 CATAA-ATA
1 CATAACTTA
* ** *
40111903 TATTTCATA
1 CATAACTTA
*
40111912 TCATAATTTA
1 -CATAACTTA
40111922 CATAACTTA
1 CATAACTTA
*
40111931 CATACCTTA
1 CATAACTTA
*
40111940 CATAAATT-
1 CATAACTTA
* * *
40111948 TATATCATA
1 CATAACTTA
40111957 TCATAACTTA
1 -CATAACTTA
*
40111967 TATAACTTA
1 CATAACTTA
* *
40111976 CAAAACTTT
1 CATAACTTA
*
40111985 CTTAACTTA
1 CATAACTTA
40111994 C
1 C
40111995 GTAATACATA
Statistics
Matches: 132, Mismatches: 39, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
7 17 0.13
8 23 0.17
9 76 0.58
10 14 0.11
11 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:40111883 original size:43 final size:43
Alignment explanation
Indices: 40111824--40111977 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 43
40111814 TAATACATAA
*
40111824 ATAT-ATAACTTACATAACTTACATAGTACATAAATATATATC
1 ATATCATAACTTACATAACTTACATAATACATAAATATATATC
* ** *
40111866 ATATAATAACTTACATAACTTATGTAATACATAAATATATTTC
1 ATATCATAACTTACATAACTTACATAATACATAAATATATATC
* * *
40111909 ATATCATAATTTACATAACTTACATACCTTACATAAATTTATATC
1 ATATCATAACTTACATAACTTACATA--ATACATAAATATATATC
*
40111954 ATATCATAACTTATATAACTTACA
1 ATATCATAACTTACATAACTTACA
40111978 AAACTTTCTT
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
42 4 0.04
43 56 0.58
45 36 0.38
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.38
Consensus pattern (43 bp):
ATATCATAACTTACATAACTTACATAATACATAAATATATATC
Found at i:40117845 original size:31 final size:31
Alignment explanation
Indices: 40117769--40117860 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
40117759 ATCATTTTAG
* * *
40117769 ATTTAATGTTTTTGGTTGTATTTTTTATGCTAC
1 ATTTATTGTTTTTGGTTGGA--TTTAATGCTAC
* * * *
40117802 ATTTGTTATTTTTGGTTGGATTTCATGCTAT
1 ATTTATTGTTTTTGGTTGGATTTAATGCTAC
*
40117833 ATTTATTGTTTTTGGTTAGATTTAATGC
1 ATTTATTGTTTTTGGTTGGATTTAATGC
40117861 AGGAAGGGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
31 33 0.67
33 16 0.33
ACGTcount: A:0.18, C:0.05, G:0.17, T:0.59
Consensus pattern (31 bp):
ATTTATTGTTTTTGGTTGGATTTAATGCTAC
Found at i:40118052 original size:43 final size:43
Alignment explanation
Indices: 40117978--40118114 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 43
40117968 TACAAACACA
* * **
40117978 GCTAAAAGCCATGACTTTTAGTAGCAG-CTCCACCGCAAACGCC
1 GCTAAAAGCCGTCACTTTTAGCGGC-GCCTCCACCGCAAACGCC
* ** * * *
40118021 GTTAAAAGCCGTGGCTTTTAGCGGTGCCTCCACTGCAAATGCC
1 GCTAAAAGCCGTCACTTTTAGCGGCGCCTCCACCGCAAACGCC
* *
40118064 GCTAAAAGCTGTCACTTTTAGCGGCGCTTCTC-CCGCAAACGCC
1 GCTAAAAGCCGTCACTTTTAGCGGCGCCTC-CACCGCAAACGCC
*
40118107 ACTAAAAG
1 GCTAAAAG
40118115 TCATGATCTT
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 1 0.01
43 73 0.97
44 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (43 bp):
GCTAAAAGCCGTCACTTTTAGCGGCGCCTCCACCGCAAACGCC
Found at i:40126060 original size:29 final size:29
Alignment explanation
Indices: 40126012--40126114 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
40126002 CGAATCTCTT
* *
40126012 ATATGGCCCATCCGGTCCAATTCACATTC
1 ATATGGCCCATCAGGCCCAATTCACATTC
*
40126041 ATATGGCCCATCAGGCCCAATTTACATTC
1 ATATGGCCCATCAGGCCCAATTCACATTC
* * *
40126070 ATATGGCCCGTTAGGCCCAA-TCTCA-TC
1 ATATGGCCCATCAGGCCCAATTCACATTC
*
40126097 TATATGGCCCATCCGGCC
1 -ATATGGCCCATCAGGCC
40126115 TAAATCATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 17 0.27
29 44 0.70
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAATTCACATTC
Found at i:40126366 original size:16 final size:16
Alignment explanation
Indices: 40126345--40126382 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
40126335 CAAACTTTTG
*
40126345 GCTTTTCGGTATTTCA
1 GCTTTTCGGCATTTCA
*
40126361 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCA
40126377 GCTTTT
1 GCTTTT
40126383 TCCGATCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.21, G:0.21, T:0.50
Consensus pattern (16 bp):
GCTTTTCGGCATTTCA
Found at i:40132678 original size:18 final size:17
Alignment explanation
Indices: 40132655--40132691 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
40132645 ATTGAAGTAC
40132655 TTTATTGAAAACCTTGTT
1 TTTATTGAAAACCTT-TT
40132673 TTTATTGAAAACCTTTT
1 TTTATTGAAAACCTTTT
40132690 TT
1 TT
40132692 CAAGATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (17 bp):
TTTATTGAAAACCTTTT
Found at i:40133794 original size:28 final size:28
Alignment explanation
Indices: 40133761--40133884 Score: 151
Period size: 28 Copynumber: 4.4 Consensus size: 28
40133751 ACATACATGC
*
40133761 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAATCTCATTT
* *
40133789 ATATGGCCCATTTGGCCCAAT-TCACATT
1 ATATGGCCCATTAGGCCCAATCTCA-TTT
* * *
40133817 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATTAGGCCCAA-TCTCATTT
*
40133846 ATATGGCCCGTTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAATCTCATTT
*
40133874 ATATGACCCAT
1 ATATGGCCCAT
40133885 CCAGCCCAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
27 3 0.04
28 54 0.68
29 20 0.25
30 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCATTT
Found at i:40133876 original size:57 final size:55
Alignment explanation
Indices: 40133761--40133905 Score: 161
Period size: 57 Copynumber: 2.6 Consensus size: 55
40133751 ACATACATGC
* *
40133761 ATATGGCCCA-CTAGGCCCAATCTCATTTATATGGCCCATTTGGCCCAATTCACATT
1 ATATGGCCCATC-AGGCCCAATCACA-TTATATGGCCCATTAGGCCCAATTCACATT
* *
40133817 ATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCGTTAGGCCCAATCTCA-TTT
1 ATATGGCCCATCAGGCCCAA-TCACATT-ATATGGCCCATTAGGCCCAAT-TCACATT
*
40133874 ATATGACCCATCCA-GCCCAAATCACATTATAT
1 ATATGGCCCAT-CAGGCCC-AATCACATTATAT
40133906 CCATGCTTAC
Statistics
Matches: 78, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
56 24 0.31
57 47 0.60
58 7 0.09
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (55 bp):
ATATGGCCCATCAGGCCCAATCACATTATATGGCCCATTAGGCCCAATTCACATT
Found at i:40133903 original size:28 final size:28
Alignment explanation
Indices: 40133761--40133905 Score: 136
Period size: 28 Copynumber: 5.1 Consensus size: 28
40133751 ACATACATGC
*
40133761 ATATGGCCCA-CTAGGCCC-AATCTCATTT
1 ATATGGCCCATC-AGGCCCAAATCACA-TT
** *
40133789 ATATGGCCCATTTGGCCCAATTCACATT
1 ATATGGCCCATCAGGCCCAAATCACATT
*
40133817 ATATGGCCCATCAGGCCCAATTCACATT
1 ATATGGCCCATCAGGCCCAAATCACATT
* * *
40133845 CATATGGCCCGTTAGGCCC-AATCTCATTT
1 -ATATGGCCCATCAGGCCCAAATCACA-TT
*
40133874 ATATGACCCATCCA-GCCCAAATCACATT
1 ATATGGCCCAT-CAGGCCCAAATCACATT
40133902 ATAT
1 ATAT
40133906 CCATGCTTAC
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
28 67 0.69
29 30 0.31
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAAATCACATT
Found at i:40135690 original size:25 final size:25
Alignment explanation
Indices: 40135653--40135744 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
40135643 TTTCCAAAGA
* * *
40135653 ATTCATCATAAAGGCTTTCTAGAGT
1 ATTCACCACAAAGGCTTTCTAGAGG
** *
40135678 ATTTGCCACAAAGGATTTCTAGAGG
1 ATTCACCACAAAGGCTTTCTAGAGG
* *
40135703 ATTCACTACAAAGGCTTTCTAGAGA
1 ATTCACCACAAAGGCTTTCTAGAGG
* *
40135728 AGTCACCACATAGGCTT
1 ATTCACCACAAAGGCTT
40135745 CCCAGAAAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (25 bp):
ATTCACCACAAAGGCTTTCTAGAGG
Found at i:40138966 original size:35 final size:35
Alignment explanation
Indices: 40138917--40139009 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 35
40138907 TTTAACACAG
* * *
40138917 TAGCATGCTTAACATGCGATTCAGAATCATAATAA
1 TAGCATGCTCAACATGCGAATCAGAATAATAATAA
* *
40138952 TAGCATGGTCAACATGCGAATCATAATAATAATAA
1 TAGCATGCTCAACATGCGAATCAGAATAATAATAA
* * *
40138987 TAGCATGCTTAAAATGCAAATCA
1 TAGCATGCTCAACATGCGAATCA
40139010 AAGTATCAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (35 bp):
TAGCATGCTCAACATGCGAATCAGAATAATAATAA
Found at i:40151053 original size:27 final size:25
Alignment explanation
Indices: 40150975--40151053 Score: 63
Period size: 27 Copynumber: 3.0 Consensus size: 25
40150965 AACCCCAAAA
*
40150975 TAGGTAAAATGACTATATTGCCCCTG
1 TAGGTAAAATGACTATA-TGCCCTTG
*
40151001 TAGGATAAAATAACCGTAATAT--CCTTG
1 TAGG-TAAAATGA-C-T-ATATGCCCTTG
40151028 TATGGTAAAATGACTATTATGCCCTT
1 TA-GGTAAAATGACTA-TATGCCCTT
40151054 ATGTTCTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
24 1 0.02
25 4 0.10
26 5 0.12
27 24 0.57
28 3 0.07
29 2 0.05
30 3 0.07
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (25 bp):
TAGGTAAAATGACTATATGCCCTTG
Found at i:40151483 original size:60 final size:59
Alignment explanation
Indices: 40151383--40151516 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 59
40151373 TTGCATTGCT
* * * * *
40151383 CTGTATTGATACTGTATTGGGCTTAGGCCACACTATTACTGTAT-AGGGCTAAGGCCCAGA
1 CTGTACTGAT-CTGAATAGGGCTTAGGCCAAACTATTACTG-ATCAGGGCTAAGGCCCAAA
* * *
40151443 CTGTACTGATCTGAATAGGGCTTAGGCCCAAACTGTTACTGATCTGGGCTTAGGCCCAAA
1 CTGTACTGATCTGAATAGGGCTTAGG-CCAAACTATTACTGATCAGGGCTAAGGCCCAAA
40151503 CTGTTACTGATCTG
1 CTG-TACTGATCTG
40151517 GGCTTAGGCC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
59 16 0.25
60 37 0.59
61 10 0.16
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (59 bp):
CTGTACTGATCTGAATAGGGCTTAGGCCAAACTATTACTGATCAGGGCTAAGGCCCAAA
Found at i:40151491 original size:28 final size:28
Alignment explanation
Indices: 40151392--40151534 Score: 141
Period size: 28 Copynumber: 5.0 Consensus size: 28
40151382 TCTGTATTGA
* *
40151392 TACTGTAT-TGGGCTTAGG-CCACACTAT
1 TACTG-ATCTGGGCTTAGGCCCAAACTGT
* * *
40151419 TACTGTAT-AGGGCTAAGGCCCAGACTG-
1 TACTG-ATCTGGGCTTAGGCCCAAACTGT
40151446 TACTGATCTGAATAGGGCTTAGGCCCAAACTGT
1 TACTGATC----T-GGGCTTAGGCCCAAACTGT
40151479 TACTGATCTGGGCTTAGGCCCAAACTGT
1 TACTGATCTGGGCTTAGGCCCAAACTGT
*
40151507 TACTGATCTGGGCTTAGGCCCAGACTGT
1 TACTGATCTGGGCTTAGGCCCAAACTGT
40151535 GTTATTCTCT
Statistics
Matches: 100, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.02
27 21 0.21
28 52 0.52
29 1 0.01
32 16 0.16
33 8 0.08
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (28 bp):
TACTGATCTGGGCTTAGGCCCAAACTGT
Found at i:40157593 original size:42 final size:43
Alignment explanation
Indices: 40157497--40157596 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
40157487 CCAACATCCT
* * * * * *
40157497 AGACGTGGTCTTACATGTAATCAATTATCGATGGCACTGTCCC
1 AGACATGGTCTTACATGAAATCAAATATCGATGCCAATGTCCA
* * *
40157540 AGATAGGGTCTTACATGAAATCAAATA-CTATGCCAATGTCCA
1 AGACATGGTCTTACATGAAATCAAATATCGATGCCAATGTCCA
40157582 AGACATGGTCTTACA
1 AGACATGGTCTTACA
40157597 AATAAATCAT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 24 0.52
43 22 0.48
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (43 bp):
AGACATGGTCTTACATGAAATCAAATATCGATGCCAATGTCCA
Found at i:40161573 original size:32 final size:32
Alignment explanation
Indices: 40161531--40161618 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 32
40161521 TGATATTGAA
* *
40161531 ATGGGCTAGGCCCAACTGATATTGCTTCTGAT-
1 ATGGGTTAGGCCCAACTGATATTGATTCT-ATG
40161563 ATGGGTTAGGCCCAACTGATATTGATTCTATG
1 ATGGGTTAGGCCCAACTGATATTGATTCTATG
* *
40161595 ATGGGTTAGGCCCAATTGAGATTG
1 ATGGGTTAGGCCCAACTGATATTG
40161619 TGATGGGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 2 0.04
32 49 0.96
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (32 bp):
ATGGGTTAGGCCCAACTGATATTGATTCTATG
Found at i:40167862 original size:30 final size:30
Alignment explanation
Indices: 40167827--40167886 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
40167817 CAAGAAAAAT
* *
40167827 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
40167857 GAATAAAGAAATCCAAAATAAAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
40167887 AGATACGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAAAATAAAGAAACCCA
Found at i:40167887 original size:15 final size:15
Alignment explanation
Indices: 40167828--40167887 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
40167818 AAGAAAAATG
*
40167828 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* * *
40167843 GATAGAGAAACCCAG
1 AATAAAGAAACCCAA
*
40167858 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
40167873 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
40167888 GATACGATAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.10
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:40177541 original size:30 final size:30
Alignment explanation
Indices: 40177507--40177566 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
40177497 ATTTAATATG
40177507 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
40177537 AACTTTTGCATAATTATACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
40177567 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:40178704 original size:43 final size:43
Alignment explanation
Indices: 40178656--40178823 Score: 216
Period size: 43 Copynumber: 4.0 Consensus size: 43
40178646 AGGATTTCCA
* *
40178656 ATATGTG-TTCTCGTGCAAGACCACGTCTAGGACATTGGCATCG
1 ATATGTGATT-TCGTGTAAGACCACGTCTGGGACATTGGCATCG
* *
40178699 ATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATC-
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG
* ** *
40178741 ATATTTGA-TTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG
* *
40178783 ATATGTGATTGCATGTAAGACCACGTCTGGGACATTGGCAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
40178824 TGTATGATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.28
42 14 0.13
43 62 0.57
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:40178811 original size:84 final size:84
Alignment explanation
Indices: 40178666--40178823 Score: 244
Period size: 84 Copynumber: 1.9 Consensus size: 84
40178656 ATATGTGTTC
* * *
40178666 TCGTGCAAGACCACGTCTAGGACATTGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGA
1 TCGTGCAAGACCACGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGA
40178731 CATTGGCATCATATTTGAT
66 CATTGGCATCATATTTGAT
* ** * *
40178750 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTGCATGTAAGACCACGTCTGGGA
1 TCGTGCAAGACCACGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGA
40178815 CATTGGCAT
66 CATTGGCAT
40178824 TGTATGATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (84 bp):
TCGTGCAAGACCACGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCATATTTGAT
Found at i:40182001 original size:47 final size:46
Alignment explanation
Indices: 40181936--40182056 Score: 170
Period size: 47 Copynumber: 2.6 Consensus size: 46
40181926 CATTGGCACT
*
40181936 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATAACATTTAGA
1 AAGACAAGGAT-TCATGTAAGACCATGTTTGGAACATAACATTTAGA
** *
40181983 AAGACAAGGATTCTATGTAAGACCATGTTTGGAACATGGCATTTAGT
1 AAGACAAGGATTC-ATGTAAGACCATGTTTGGAACATAACATTTAGA
*
40182030 AAGATAAGGATATCATGTAAGACCATG
1 AAGACAAGGAT-TCATGTAAGACCATG
40182057 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 1 0.01
47 64 0.96
48 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (46 bp):
AAGACAAGGATTCATGTAAGACCATGTTTGGAACATAACATTTAGA
Found at i:40182110 original size:54 final size:54
Alignment explanation
Indices: 40182035--40182440 Score: 385
Period size: 54 Copynumber: 7.6 Consensus size: 54
40182025 TTAGTAAGAT
* * *
40182035 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* *
40182089 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* *
40182145 AAGG-T-CCTATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC-ATAA-GA
1 AAGGATATC-ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* * ***
40182196 CAAGGATACCATGTAAGACCATATTTGGAACATGGCATT--TG-G-----TAA-GA
1 -AAGGATATCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCTATAAGGA
* * * *
40182243 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 -AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* *
40182298 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* * * * *
40182354 AAGG-TCA-CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-AGAAGGC
1 AAGGAT-ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* * *
40182406 AAGGATACCACGTAAAACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCA
40182441 ATGGTAAGTT
Statistics
Matches: 291, Mismatches: 40, Indels: 43
0.78 0.11 0.11
Matches are distributed among these distances:
46 9 0.03
47 26 0.09
48 1 0.00
49 1 0.00
51 2 0.01
52 12 0.04
53 48 0.16
54 98 0.34
55 84 0.29
56 10 0.03
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:40182343 original size:209 final size:209
Alignment explanation
Indices: 40181983--40182426 Score: 764
Period size: 209 Copynumber: 2.1 Consensus size: 209
40181973 AACATTTAGA
* * *
40181983 AAGACAAGGATTCTATGTAAGACCATGTTTGGAACATGGCATTTAGTAAGATAAGGATATCATGT
1 AAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTAGTAAGATAAGGATATCATGT
40182048 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGTT
66 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGTT
*
40182113 AAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTC-CTATGTAAGACCATGTCAAGACATGG
131 AAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCAC-ATGTAAGACCATGCCAAGACATGG
*
40182177 CATTGGTGAGTTCAT
195 CATTGGTGAGTTCAG
*
40182192 AAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGGTAAGATAAGGATATCATGT
1 AAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTAGTAAGATAAGGATATCATGT
*
40182257 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTT
66 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGTT
* *
40182322 AAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCACATGTAAGACCATGCCAAGGCATGGC
131 AAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCACATGTAAGACCATGCCAAGACATGGC
40182387 ATTGGTGAGTTCAG
196 ATTGGTGAGTTCAG
* * *
40182401 AAGGCAAGGATACCACGTAAAACCAT
1 AAGACAAGGATACCATGTAAGACCAT
40182427 GTCAAGACAT
Statistics
Matches: 222, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
209 221 1.00
210 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (209 bp):
AAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTAGTAAGATAAGGATATCATGT
AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGTT
AAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCACATGTAAGACCATGCCAAGACATGGC
ATTGGTGAGTTCAG
Found at i:40184711 original size:40 final size:40
Alignment explanation
Indices: 40184633--40184856 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
40184623 ACCCAAGTAT
* * * *
40184633 CTTCGGGATTTAG-CCAGATATAG-CAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
40184672 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
40184712 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
40184752 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
40184795 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
40184835 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
40184857 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:40184829 original size:83 final size:80
Alignment explanation
Indices: 40184633--40184856 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
40184623 ACCCAAGTAT
* * * * *
40184633 CTTCGGGATTTAG-CCAGATATAGCAACTCGTACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
40184697 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * * *
40184712 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
40184776 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
40184795 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
40184857 CATCCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.10
80 47 0.38
83 66 0.53
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:40201222 original size:20 final size:21
Alignment explanation
Indices: 40201185--40201223 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40201175 GCACTTCGGT
*
40201185 AATTGGGCCTCGATAGGCTAA
1 AATTGGGCCTCAATAGGCTAA
40201206 AATTGGGCC-CAATAGGCT
1 AATTGGGCCTCAATAGGCT
40201224 TACGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (21 bp):
AATTGGGCCTCAATAGGCTAA
Found at i:40216093 original size:45 final size:45
Alignment explanation
Indices: 40216029--40216185 Score: 230
Period size: 45 Copynumber: 3.5 Consensus size: 45
40216019 TCGTACAGTG
*
40216029 CTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCCGGTGAGATA
1 CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATA
*
40216074 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATA
1 CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATA
* * *
40216119 CTATTTGGGCCTTCGAGCCTAGCAAGCTATAATGCCGGTGAAATGA
1 CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAT-A
*
40216165 -TA-TCTGG-CTTCGAGCCTAGCA
1 CTATTCGGGCCTTCGAGCCTAGCA
40216186 TGCAGAATAC
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
43 14 0.13
44 3 0.03
45 86 0.83
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (45 bp):
CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATA
Found at i:40224456 original size:40 final size:40
Alignment explanation
Indices: 40224412--40224595 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
40224402 GCTCCTCGTT
*
40224412 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
40224452 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
40224492 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
40224531 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
40224572 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
40224596 ACATCATTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 76 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:40224514 original size:79 final size:81
Alignment explanation
Indices: 40224412--40224596 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
40224402 GCTCCTCGTT
* *
40224412 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
40224475 GGATTTAGTAACTCA-CA
64 GGATATAGTAACTCAGCA
* **
40224492 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* * *
40224556 ATATGGTCACTTAGCA
66 ATATAGTAACTCAGCA
40224572 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40224597 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.62
80 32 0.35
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTCAGCA
Found at i:40231093 original size:40 final size:40
Alignment explanation
Indices: 40231012--40231192 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
40231002 AAACCAAGTA
** * *
40231012 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
40231051 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
40231091 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
40231131 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
40231171 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
40231193 CAATCCGAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 26 0.20
40 106 0.80
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:40234820 original size:70 final size:69
Alignment explanation
Indices: 40234700--40234885 Score: 237
Period size: 70 Copynumber: 2.6 Consensus size: 69
40234690 GGGGAATCAT
* *
40234700 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTACATTTCAAAGATACAATGG
40234765 ATATCG
64 ATATCG
***
40234771 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGGA
1 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTT-ACATTTCAAAGATACAATGGA
40234836 TATCG
65 TATCG
* * *
40234841 CACTTAGCACCACCTGAACCGGGGAATCAGCACTTAGCAACCCCT
1 CACTTAGCAAC-CCT---CGGGGGAATCAGCACATAGCAACCCCT
40234886 CGGGGGAATC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
69 7 0.07
70 57 0.56
71 13 0.13
74 25 0.25
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (69 bp):
CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTACATTTCAAAGATACAATGGAT
ATCG
Found at i:40234895 original size:101 final size:103
Alignment explanation
Indices: 40234770--40234988 Score: 356
Period size: 101 Copynumber: 2.2 Consensus size: 103
40234760 AATGGATATC
40234770 GCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTG
* *
40234834 GAT-ATCGCACTTAGCACCA-CC-TGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACCCATAAACCGGGGAATCA
40234870 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTG
*
40234935 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCCATAAACCGGGGAATCA
**
40234973 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
40234989 TTTATATACA
Statistics
Matches: 110, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
100 11 0.10
101 69 0.63
102 3 0.03
103 27 0.25
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCCATAAACCGGGGAATCA
Found at i:40234897 original size:27 final size:27
Alignment explanation
Indices: 40234861--40234912 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
40234851 CACCTGAACC
*
40234861 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
40234888 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
40234913 TTCACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:40235349 original size:30 final size:31
Alignment explanation
Indices: 40235315--40235373 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
40235305 TCCACCACCC
40235315 AACTTTTG-AAAATTACAATTTTGCCCCCCA
1 AACTTTTGCAAAATTACAATTTTGCCCCCCA
* * *
40235345 AACTTTTGCATAATTACACTTTTGTCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCCC
40235374 AAGCTCGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (31 bp):
AACTTTTGCAAAATTACAATTTTGCCCCCCA
Found at i:40242241 original size:26 final size:26
Alignment explanation
Indices: 40242205--40242256 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
40242195 CACCACTGAA
* *
40242205 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
40242231 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
40242257 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:40242333 original size:70 final size:71
Alignment explanation
Indices: 40242217--40242367 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
40242207 GGGGAATCAT
*
40242217 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
40242281 ATATCG
66 ATATCG
* ***
40242287 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
40242352 GATATCG
65 GATATCG
40242359 CACTTAGCA
1 CACTTAGCA
40242368 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:40242411 original size:104 final size:104
Alignment explanation
Indices: 40242286--40242509 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
40242276 AATGGATATC
40242286 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
40242351 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
*
40242390 GCACTTAGCAACCCTTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
40242455 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
40242494 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
40242510 TTATATACAA
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
104 110 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:40242870 original size:29 final size:29
Alignment explanation
Indices: 40242837--40242900 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
40242827 TAATCTACCA
40242837 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
40242866 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
40242896 CCCAA
1 CCCAA
40242901 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:40242874 original size:30 final size:30
Alignment explanation
Indices: 40242844--40242900 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
40242834 CCACCCAACT
40242844 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
40242873 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
40242901 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:40243743 original size:23 final size:23
Alignment explanation
Indices: 40243717--40245781 Score: 1340
Period size: 23 Copynumber: 90.2 Consensus size: 23
40243707 CTGTTACAAC
* * *
40243717 TAAACACTTCAATTTTCAGTACT
1 TAAACACTTCAATTTACAGCATT
*
40243740 TAAACACTTCAATTTGCTA-CATT
1 TAAACACTTCAATTTAC-AGCATT
*
40243763 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
40243786 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40243809 CAAAGACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
40243833 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40243855 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40243879 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40243901 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40243923 AAAACA-TCTCAATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40243946 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
40243969 TAAGCACTTCAACTTACAGTATT
1 TAAACACTTCAATTTACAGCATT
40243992 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
40244015 TAAACACTTCAATTTGCAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40244038 CAAACAATTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
40244062 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40244084 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* **
40244108 T-AACA-TCTCAATTAACAATATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
40244130 TATACACGT-AAATTATAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40244152 AAAACATTTCAATGT-CTAGCAAC
1 TAAACACTTCAATTTAC-AGCATT
* *
40244175 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40244198 TAAGCACTTCAATTTACAGTATT
1 TAAACACTTCAATTTACAGCATT
*
40244221 TAAACACTTCAATATACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40244244 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
40244267 CAAACACTTCAATTTGCAACACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40244291 T-AACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
** * * **
40244313 TATGCACTTTAATTTGCAATACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40244337 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40244359 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40244381 AAAACA-TCTCCATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40244404 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* **
40244427 TAAGCACTTCAATTTACAATATT
1 TAAACACTTCAATTTACAGCATT
40244450 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40244473 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40244496 CAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40244520 T-AACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40244542 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40244566 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40244588 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40244610 AAAACA-TCTCCATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40244633 TAAACACTTCAATTTTCAGTACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40244657 T-AACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40244679 TAAGCACATCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
40244702 TAAACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40244725 CAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40244749 T-AACACTTCAATTTAAAGAATT
1 TAAACACTTCAATTTACAGCATT
* *
40244771 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40244795 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* * *
40244817 TATACACCTCAA-TTATAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40244839 AAAACA-TCTCCATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
40244862 TAAACACTTCAATTTTCAGTACT
1 TAAACACTTCAATTTACAGCATT
* *
40244885 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
*
40244908 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
**
40244931 TAAACACTTCAATTTGTAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40244954 CAAACACTTCAATTTGCAACACTT
1 TAAACACTTCAATTTACAGCA-TT
40244978 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* * * * *
40245000 TAAGCACTTTAACTTGCAGAACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40245024 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40245046 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40245068 AAAACA-TCTCAATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40245091 TAAACACTTCAATTTACAGTACT
1 TAAACACTTCAATTTACAGCATT
* * * *
40245114 TAAACACTTTAATTTGCAGTACT
1 TAAACACTTCAATTTACAGCATT
* *
40245137 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
40245160 TAAGCACATCAATTTACAGCGTT
1 TAAACACTTCAATTTACAGCATT
*
40245183 TAAACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40245206 CAAACACTTTAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
40245230 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40245252 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40245276 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40245298 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40245320 AAAACA-TCTCCATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40245343 TAAACACTTCAATTTTCAGTACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40245367 T-AACACTTCAATTTACAGAATT
1 TAAACACTTCAATTTACAGCATT
* * *
40245389 CAAAGACTTCAATTTGCAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40245412 TAAGCACTTCAATTTGCAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40245435 CAAACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40245458 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40245480 AAAACA-TCTCAATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40245503 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
40245526 TAAGCACTTCAATTTATAGTATT
1 TAAACACTTCAATTTACAGCATT
40245549 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40245572 TAAATACTTCAATTTGCAGCATT
1 TAAACACTTCAATTTACAGCATT
** * * *
40245595 CGAACAATTCAATTTGCTGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40245619 T-AACACTTCAATTTACAGAATT
1 TAAACACTTCAATTTACAGCATT
* * *
40245641 TAAGCACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAGCATT
* * **
40245664 TCAACA-TCTCAATTAACAATATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
40245687 TATACACGT-AAATTATAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40245709 AAAACATTTCAATGT-CTAGCAAC
1 TAAACACTTCAATTTAC-AGCATT
* *
40245732 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
40245755 TAAGCACTTTAATTTACAGTATT
1 TAAACACTTCAATTTACAGCATT
40245778 TAAA
1 TAAA
40245782 GATGTGACAA
Statistics
Matches: 1560, Mismatches: 383, Indels: 198
0.73 0.18 0.09
Matches are distributed among these distances:
22 184 0.12
23 1327 0.85
24 49 0.03
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGCATT
Found at i:40244114 original size:229 final size:229
Alignment explanation
Indices: 40243713--40245432 Score: 2341
Period size: 229 Copynumber: 7.5 Consensus size: 229
40243703 CGGGCTGTTA
** * * *
40243713 CAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCTA-CATTTAAGCACTTCAATT
1 CAACTAAACACTTCAATTTTCAACATTTAAACACTTCAATTTGC-AGTATTTAAACACTTCAATT
* *
40243777 TACAGCATTTAAACACTTCAATTTACAGCATTCAAAGACTTCAATTTGCAGCACTTTAACACTTC
65 TACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTC
40243842 AATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACA
130 AATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACA
40243907 CCTCAATTACAGCGATAAAACATCTCAATGTCCAG
195 CCTCAATTACAGCGATAAAACATCTCAATGTCCAG
* * *
40243942 CAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAACTTACAGTATTTAAACACTTCAATTT
1 CAACTAAACACTTCAATTTTCAACATTTAAACACTTCAATTTGCAGTATTTAAACACTTCAATTT
*
40244007 ACAGCATTTAAACACTTCAATTTGCAGCATTCAAACAATTCAATTTGCAGCACTTTAACACTTCA
66 ACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
*
40244072 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAATATTTATACAC
131 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
* * * * *
40244137 GTAAATTATAGCGATAAAACATTTCAATGTCTAG
196 CTCAATTACAGCGATAAAACATCTCAATGTCCAG
* * *
40244171 CAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTACAGTATTTAAACACTTCAATAT
1 CAACTAAACACTTCAATTTTCAACATTTAAACACTTCAATTTGCAGTATTTAAACACTTCAATTT
* *
40244236 ACAGCATTTAAACACTTCAATTTGCAACATTCAAACACTTCAATTTGCAACACTTTAACACTTCA
66 ACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
* * * ** *
40244301 ATTTATAGCATTTATGCACTTTAATTTGCAATACTTTTACATCTCAATTAACAACATTTATACAC
131 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
*
40244366 CTCAATTACAGCGATAAAACATCTCCATGTCCAG
196 CTCAATTACAGCGATAAAACATCTCAATGTCCAG
* * *
40244400 CAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTACAATATTTAAACACTTCAATTT
1 CAACTAAACACTTCAATTTTCAACATTTAAACACTTCAATTTGCAGTATTTAAACACTTCAATTT
*
40244465 ACAGCATTTAAACACTTCAATTTGCAACATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
66 ACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
* *
40244530 ATTTATAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATTTATACAC
131 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
*
40244595 CTCAATTACAGCGATAAAACATCTCCATGTCCAG
196 CTCAATTACAGCGATAAAACATCTCAATGTCCAG
** * *
40244629 CAACTAAACACTTCAATTTTCAGTAC-TTT-AACACTTCAATTTGCAACATTTAAGCACATCAAT
1 CAACTAAACACTTCAATTTTCA--ACATTTAAACACTTCAATTTGCAGTATTTAAACACTTCAAT
**
40244692 TTACAGCATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTT
64 TTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTT
* *
40244757 CAATTTAAAGAATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATAC
129 CAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATAC
* *
40244822 ACCTCAATTATAGCGATAAAACATCTCCATGTCCAG
194 ACCTCAATTACAGCGATAAAACATCTCAATGTCCAG
** * ** *
40244858 CAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTT
1 CAACTAAACACTTCAATTTTCAACATTTAAACACTTCAATTTGCAGTATTTAAACACTTCAATTT
* *
40244923 ACAGCATTTAAACACTTCAATTTGTAGCATTCAAACACTTCAATTTGCAACACTTTAACACTTCA
66 ACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
* * * *
40244988 ATTTACAGCATTTAAGCACTTTAACTTGCAGAACTTTTACATCTCAATTAACAACATTTATACAC
131 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
40245053 CTCAATTACAGCGATAAAACATCTCAATGTCCAG
196 CTCAATTACAGCGATAAAACATCTCAATGTCCAG
* ** * * *
40245087 CAACTAAACACTTCAATTTACAGTACTTAAACACTTTAATTTGCAGTACTTAAACACTTCAATTT
1 CAACTAAACACTTCAATTTTCAACATTTAAACACTTCAATTTGCAGTATTTAAACACTTCAATTT
* * * * * * * ** * *
40245152 GCAACATTTAAGCACATCAATTTACAGCGTTTAAACACTTCAATTTATAGCA-TTCAAACACTTT
66 ACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTT-TAACACTTC
* * ** *
40245216 AATTTGCAGCACTTTAA-CACTTCAATTTACAGCA-TTTAAGCA-CTTCAATTTGCAGCACTTT-
130 AATTTACAGCA-TTTAAGCACTTCAATTTGCAGCACTTTAA-CATC-TCAATTAACAACA-TTTA
* * * * * *
40245277 TACATCTCAATTAACAAC-ATTTATACACCTCAAT-TACAG
191 TACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCAG
* * * * * ** *
40245316 CGA-TAAA-ACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAGTACTTT-AACACTTCAA
1 CAACTAAACAC-T-TCAATTTTCAACATTTAAACACTTCAATTTGCAGTA-TTTAAACACTTCAA
* * * * *
40245378 TTTACAGAATTCAAAGACTTCAATTTGCAGCATTTAAGCACTTCAATTTGCAGCA
63 TTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCA
40245433 TTCAAACATC
Statistics
Matches: 1352, Mismatches: 124, Indels: 30
0.90 0.08 0.02
Matches are distributed among these distances:
227 2 0.00
228 15 0.01
229 1305 0.97
230 28 0.02
231 2 0.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (229 bp):
CAACTAAACACTTCAATTTTCAACATTTAAACACTTCAATTTGCAGTATTTAAACACTTCAATTT
ACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
CTCAATTACAGCGATAAAACATCTCAATGTCCAG
Found at i:40244574 original size:458 final size:458
Alignment explanation
Indices: 40243713--40245448 Score: 2629
Period size: 458 Copynumber: 3.7 Consensus size: 458
40243703 CGGGCTGTTA
** * * * *
40243713 CAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCTACATTTAAGCACTTCAATTT
1 CAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTGCAACATTTAAGCACATCAATTT
*
40243778 ACAGCATTTAAACACTTCAATTTACAGCATTCAAAGACTTCAATTTGCAGCACTTTAACACTTCA
66 ACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
40243843 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
131 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
*
40243908 CTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAG
196 CTCAATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAG
* *
40243973 CACTTCAACTTACAGTATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATT
261 CACTTCAATTTACAATATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATT
*
40244038 CAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAG
326 CAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAG
* * * * * *
40244103 CACTTTAACATCTCAATTAACAATATTTATACACGTAAATTATAGCGATAAAACATTTCAATGTC
391 CACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTC
*
40244168 TAG
456 CAG
* ** * * *
40244171 CAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTACAGTATTTAAACACTTCAATAT
1 CAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTGCAACATTTAAGCACATCAATTT
* * *
40244236 ACAGCATTTAAACACTTCAATTTGCAACATTCAAACACTTCAATTTGCAACACTTTAACACTTCA
66 ACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
* * * ** *
40244301 ATTTATAGCATTTATGCACTTTAATTTGCAATACTTTTACATCTCAATTAACAACATTTATACAC
131 ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
40244366 CTCAATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAG
196 CTCAATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAG
*
40244431 CACTTCAATTTACAATATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAACATT
261 CACTTCAATTTACAATATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATT
*
40244496 CAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTTCAATTTGCAG
326 CAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAG
*
40244561 CACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCATGTC
391 CACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTC
40244626 CAG
456 CAG
40244629 CAACTAAACACTTCAATTTTCAGTAC-TTTAA-CACTTCAATTTGCAACATTTAAGCACATCAAT
1 CAACTAAACACTTCAATTTTCA--ACATTTAAGCACTTCAATTTGCAACATTTAAGCACATCAAT
*
40244692 TTACAGCATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTT
64 TTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTT
* *
40244757 CAATTTAAAGAATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATAC
129 CAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATAC
* ** *
40244822 ACCTCAATTATAGCGATAAAACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAGTACTTA
194 ACCTCAATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAACATTTA
* * * * *
40244887 AACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCA
259 AGCACTTCAATTTACAATATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCA
* * *
40244952 TTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTTAACTTGC
324 TTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGC
*
40245017 AGAACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATG
389 AGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATG
40245082 TCCAG
454 TCCAG
40245087 CAACTAAACACTTCAATTTACAGTACTTAAACACTTTAATTTGCAGTACTTAAACACTTCAATTT
1 CAACTAAACACTTCAATTT----T-C---AACA-TTT-A-----AG--------CACTTCAATTT
* * *
40245152 GCAACATTTAAGCACATCAATTTACAGCGTTTAAACACTTCAATTTATAGCATTCAAACACTTTA
43 GCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCA
*
40245217 ATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACAT
108 ATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACAT
40245282 CTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAA
173 CTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAA
* * *
40245347 CACTTCAATTTTCAGTAC-TTTAA-CACTTCAATTTACAGA-ATTCAAAGACTTCAATTTGCAGC
238 CACTTCAATTTTCA--ACATTTAAGCACTTCAATTTACA-ATATTTAAACACTTCAATTTACAGC
*
40245409 ATTTAAGCACTTCAATTTGCAGCATTCAAACA-TCTCAATT
300 ATTTAAACACTTCAATTTGCAGCATTCAAACACT-TCAATT
40245449 AACAACATTT
Statistics
Matches: 1164, Mismatches: 83, Indels: 39
0.91 0.06 0.03
Matches are distributed among these distances:
458 859 0.74
459 5 0.00
460 2 0.00
462 1 0.00
463 1 0.00
464 2 0.00
466 4 0.00
467 1 0.00
472 1 0.00
480 1 0.00
481 282 0.24
482 5 0.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (458 bp):
CAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTGCAACATTTAAGCACATCAATTT
ACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCA
ATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAC
CTCAATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAG
CACTTCAATTTACAATATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATT
CAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAG
CACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTC
CAG
Found at i:40245278 original size:252 final size:252
Alignment explanation
Indices: 40244862--40245448 Score: 971
Period size: 252 Copynumber: 2.3 Consensus size: 252
40244852 GTCCAGCAAC
*
40244862 TAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAG
1 TAAACACTTCAATTTACAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAG
*
40244927 CATTTAAACACTTCAATTTGTAGCATTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTT
66 CATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTT
*
40244992 ACAGCATTTAAGCACTTTAACTTGCAGAACTTTTACATCTCAATTAACAACATTTATACACCTCA
131 ACAGCATTTAAGCACTTCAACTTGCAGAACTTTTACATCTCAATTAACAACATTTATACACCTCA
40245057 ATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTACAGTACT
196 ATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTACAGTACT
* * *
40245114 TAAACACTTTAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAG
1 TAAACACTTCAATTTACAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAG
* * *
40245179 CGTTTAAACACTTCAATTTATAGCATTCAAACACTTTAATTTGCAGCACTTTAACACTTCAATTT
66 CATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTT
* *
40245244 ACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCA
131 ACAGCATTTAAGCACTTCAACTTGCAGAACTTTTACATCTCAATTAACAACATTTATACACCTCA
* *
40245309 ATTACAGCGATAAAACATCTCCATGTCCAGCAACTAAACACTTCAATTTTCAGTACT
196 ATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTACAGTACT
* * * * *
40245366 TTAACACTTCAATTTACAG-AATTCAAAGACTTCAATTTGCAGCATTTAAGCACTTCAATTTGCA
1 TAAACACTTCAATTTACAGTACTT-AAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACA
*
40245430 GCATTCAAACA-TCTCAATT
65 GCATTTAAACACT-TCAATT
40245449 AACAACATTT
Statistics
Matches: 311, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
251 4 0.01
252 307 0.99
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (252 bp):
TAAACACTTCAATTTACAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAG
CATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTT
ACAGCATTTAAGCACTTCAACTTGCAGAACTTTTACATCTCAATTAACAACATTTATACACCTCA
ATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTACAGTACT
Found at i:40245583 original size:229 final size:229
Alignment explanation
Indices: 40245343--40245781 Score: 650
Period size: 229 Copynumber: 1.9 Consensus size: 229
40245333 GTCCAGCAAC
* * * * * *
40245343 TAAACACTTCAATTTTCAGTACTT-TAACACTTCAATTTACAG-AATTCAAAGACTTCAATTTGC
1 TAAACACTTCAATTTGCAGCA-TTCGAACAATTCAATTTACAGCAATT-AAACACTTCAATTTAC
* *
40245406 AGCATTTAAGCACTTCAATTTGCAGCA-TTCAAACATCTCAATTAACAACATTTATACACCTCAA
64 AGAATTTAAGCACTTCAATTTGCAGCACTTC-AACATCTCAATTAACAACATTTATACACCTAAA
40245470 TTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAGCACTT
128 TTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAGCACTT
*
40245535 CAATTTATAGTATTTAAACACTTCAATTTACAGCATT
193 CAATTTACAGTATTTAAACACTTCAATTTACAGCATT
* * * * *
40245572 TAAATACTTCAATTTGCAGCATTCGAACAATTCAATTTGCTGCACTTTAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAGCATTCGAACAATTCAATTTACAGCAATTAAACACTTCAATTTACAG
* *
40245637 AATTTAAGCACTTCAATTTGCAGCACTTCAACATCTCAATTAACAATATTTATACACGTAAATTA
66 AATTTAAGCACTTCAATTTGCAGCACTTCAACATCTCAATTAACAACATTTATACACCTAAATTA
* * * *
40245702 TAGCGATAAAACATTTCAATGTCTAGCAACTAAACACTTCAATTTTCAACATTTAAGCACTTTAA
131 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAA
40245767 TTTACAGTATTTAAA
196 TTTACAGTATTTAAA
40245782 GATGTGACAA
Statistics
Matches: 187, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
228 2 0.01
229 179 0.96
230 6 0.03
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (229 bp):
TAAACACTTCAATTTGCAGCATTCGAACAATTCAATTTACAGCAATTAAACACTTCAATTTACAG
AATTTAAGCACTTCAATTTGCAGCACTTCAACATCTCAATTAACAACATTTATACACCTAAATTA
CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAA
TTTACAGTATTTAAACACTTCAATTTACAGCATT
Found at i:40247641 original size:27 final size:28
Alignment explanation
Indices: 40247529--40247654 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
40247519 TAAATTGTAC
* *
40247529 AGCACTAAGTGTACGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
40247557 AGCACTAAGCGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
40247585 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
40247613 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
40247640 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40247655 GACTTAATAT
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
27 23 0.25
28 68 0.75
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:40250996 original size:23 final size:23
Alignment explanation
Indices: 40250966--40253337 Score: 1665
Period size: 23 Copynumber: 103.6 Consensus size: 23
40250956 GTCTAGCAAC
* *
40250966 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
40250989 TAAGCACTTTAATTTACAGTATT
1 TAAACACTTCAATTTACAGCATT
40251012 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
40251035 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
40251059 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40251081 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40251105 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40251127 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40251149 AAAACA-TCTCCATCTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
40251172 TAAACACTTCAATTTTCAGTACT
1 TAAACACTTCAATTTACAGCATT
** *
40251195 TAAACACTTCAATTTGTAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40251218 TAAGCACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40251241 TAAACACTTCAATTTACAGTAGT
1 TAAACACTTCAATTTACAGCATT
* * *
40251264 CAAAGACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40251288 T-AACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40251310 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40251334 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40251356 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40251378 AAAACA-TCTCAATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40251401 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40251424 TAAGCACTTCAATTTACAGTATT
1 TAAACACTTCAATTTACAGCATT
40251447 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
40251470 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40251493 CAAACAATTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40251517 T-AACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40251539 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* **
40251563 T-AACA-TCTCAATTAACAATATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
40251585 TATACACGT-AAATTATAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40251607 AAAACATTTCAATGT-CTAGCAAC
1 TAAACACTTCAATTTAC-AGCATT
* *
40251630 TAAACACTTCAATTTTCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40251653 TAAGCACTTCAATTTACAGTATT
1 TAAACACTTCAATTTACAGCATT
40251676 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40251699 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40251722 CAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
**
40251746 T-AACACTTCAATTTTTAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40251768 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40251792 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40251814 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * * **
40251836 AAAACA-TCTCCATGTCCAACAGC
1 TAAACACT-TCAATTTACAGCATT
* *
40251859 TAAACACTTCAATTTTCAGTC-CT
1 TAAACACTTCAATTTACAG-CATT
* *
40251882 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40251905 TAAGCACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
*
40251928 TAAACACTTCAATTTGCAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40251951 CAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
40251975 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40251997 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40252021 T-TACA-TCTCAA-TTAGCAACATT
1 TAAACACT-TCAATTTA-CAGCATT
* *
40252043 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * *
40252065 AAAACA-TCTCCATGTCCAGC-TGC
1 TAAACACT-TCAATTTACAGCAT-T
* * *
40252088 TAAACATTTCAATTTTCAGTC-CT
1 TAAACACTTCAATTTACAG-CATT
* *
40252111 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
*
40252134 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40252157 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40252180 CAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
40252204 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40252226 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40252250 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* * *
40252272 TATACACCTCAA-TTATAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40252294 AAAACA-TCTCAATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * * *
40252317 TAAACACTTCAATTTGCTGTACT
1 TAAACACTTCAATTTACAGCATT
* *
40252340 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40252363 TAAGCACATCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40252386 TAAACACTTTAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40252409 CAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
40252433 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40252455 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40252479 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
*
40252501 TAAACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40252523 AAAACA-TCTCCATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * * *
40252546 AAAACACTTCAATTTTCAGTACT
1 TAAACACTTCAATTTACAGCATT
* *
40252569 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
*
40252592 TAAGCACTT-AATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
40252614 TAAACACTTCAATTTGCAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40252637 CAAACACTTCAATTTGCAACACTT
1 TAAACACTTCAATTTACAGCA-TT
40252661 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40252683 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* * *
40252707 T-TACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40252729 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * **
40252751 AAAACA-TCTCAATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
40252774 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAGCATT
* *
40252797 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40252820 TAAGCACATCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
40252843 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40252867 T-AATACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40252889 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40252913 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
40252935 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40252957 AAAACA-TCTCCATGTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* *
40252980 TAAACACTTCAATATT-CAGTACT
1 TAAACACTTCAAT-TTACAGCATT
* *
40253003 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
*
40253026 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
40253049 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* * *
40253072 CAAAGACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40253096 T-AACAGTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40253118 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
40253142 T-AACA-TCTCAATTAACAGAATT
1 TAAACACT-TCAATTTACAGCATT
* * * *
40253164 TATACACCTCAA-TTATAGCGA-G
1 TAAACACTTCAATTTACAGC-ATT
* * * * **
40253186 AAAACA-TCTCAATATCCAACAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
40253209 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAGCATT
* *
40253232 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAGCATT
*
40253255 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
40253278 TAAACATTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
40253301 CAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
40253325 T-AACACCTCAATT
1 TAAACACTTCAATT
40253338 AACAATATTT
Statistics
Matches: 1830, Mismatches: 399, Indels: 240
0.74 0.16 0.10
Matches are distributed among these distances:
22 232 0.13
23 1532 0.84
24 66 0.04
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGCATT
Found at i:40251275 original size:206 final size:204
Alignment explanation
Indices: 40250931--40253337 Score: 899
Period size: 206 Copynumber: 11.7 Consensus size: 204
40250921 TATACACGTA
* * * * * *
40250931 AATTATAGCAATAAAACATTTCAATGT-CTAGCAACTAAACACTTCAATTTTCAAC-ATTTAAGC
1 AATTACAGCACTAAAACATCTCAAT-TAC-AGCAACTAAACACTTCAATTTTCAGCAACTTAAAC
* * * *
40250994 ACTTTAA-TTTACAGTATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACT
64 ACTTCAATTTTA-A-CATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCA-T
* * *
40251058 TT-AACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAAC
126 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTAC
*
40251121 AACATTTATACACCTC
190 AGCATTTA-ACACCTC
* * *
40251137 AATTACAGCGA-TAAAACATCTCCATCTCCAGCAACTAAACACTTCAATTTTCAG-TACTTAAAC
1 AATTACAGC-ACTAAAACATCTCAAT-TACAGCAACTAAACACTTCAATTTTCAGCAACTTAAAC
* * * *
40251200 ACTTCAATTTGTAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTACAGTAGTC
64 ACTTCAATTT-TAACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATTT
* * ** *
40251265 AAAGACTTCAATTTGCAGCACTTT-AACACTTCAATTTATAGCA-TTTAAGCACTTCAATTTGCA
128 AAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACA
*
40251328 GCACTTTAACATCTC
191 GCA-TTTAACACCTC
* * * * * * * *
40251343 AATTAACAACATTTATACACCTCAATTACAGCGA-TAAA-ACATCTCAATGTCCAGCAAC-TAAA
1 AATT-ACAGCACTAAAACATCTCAATTACAGCAACTAAACAC-T-TCAATTTTCAGCAACTTAAA
* **
40251405 CACTTCAATTTTCAACATTTAAGCACTTCAATTTACAGTATTTAAACACTTCAATTTACAGCATT
63 CACTTCAATTTT-AACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATT
* * *
40251470 TAAACACTTCAATTTACAGCATTCAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTATAG
127 TAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
*
40251535 CATTTAAGCACTTC
192 CATTTAA-CACCTC
* ** ** ** * * * * * *
40251549 AATTTGCAGCACTTTAACATCTCAATTAACAATATTTATACACGTAAATTAT-AGCGA-TAAAAC
1 AA-TTACAGCACTAAAACATCTCAATT-ACAGCAACTAAACACTTCAATTTTCAGCAACTTAAAC
* * * ** * * *
40251612 ATTTCAATGTCTAGCAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTACAGTATTT
64 ACTTCAAT-TTTAACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATTT
* * *
40251677 AAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAACA-TTCAAACACTTCAATTTGCAG
128 AAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTACAG
*
40251741 CACTTTAACACTTC
192 CA-TTTAACACCTC
** * * * * ** ** * *
40251755 AATTTTTAGCATTTAAGCA-CTTCAATTTGCAGC-ACTTTTACA-TCTCAATTAACAAC-ATTTA
1 AA-TTACAGCACTAAAACATC-TCAA-TTACAGCAAC-TAAACACT-TCAATTTTCAGCAACTTA
* * ** * * * * * ** *
40251816 TACACCTCAATTACAGCGA-TAAAACA-TCTCCATGTCCAACAGCTAAACACTTCAATTTTCAGT
61 AACACTTCAATTTTAAC-ATTTAAACACT-TCAATTTACAACATTTAAACACTTCAATTTACAG-
* * * * * *
40251879 C-CTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAACA-TTTAAACACTTCAATT
123 CATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATT
* * *
40251942 TGCAGCATTCAAACACTTC
187 TACAGCATT-TAACACCTC
* ** ** * * **
40251961 AATTTGCAGCACTTTAACA-CTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC-ACTTTTA
1 AA-TTACAGCACTAAAACATC-TCAA-TTACAGCAACTAAACACTTCAATTTTCAGCAACTTAAA
** * * * * * * *
40252024 CA-TCTCAATTAGCAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCCATGTCCAGC
63 CACT-TCAATT-TTAACATTTAAACACTTCAATTTACAAC-ATTTAAACACT-TCAATTTACAGC
* * * * *
40252085 -TGCTAAACATTTCAATTTTCAGTC-CTTAAACACTTCAATTTGCAACA-TTTAAGCACTTCAAT
124 AT-TTAAACACTTCAATTTACAG-CATTTAAACACTTCAATTTGCAGCACTTTAA-CACTTCAAT
*
40252147 TTACAGCATTTAAACACTTC
186 TTACAGCATTT-AACACCTC
* * * * * * * *
40252167 AATTTGCAACATTCAAACA-CTTCAATTTGCAGC-ACTTTAACACTTCAATTTACAGC-ATTTAA
1 AA-TTACAGCACTAAAACATC-TCAA-TTACAGCAAC-TAAACACTTCAATTTTCAGCAACTTAA
* * * * * * * *
40252229 GCACTTCAATTTGCAGCACTTT-TACA-TCTCAATTAACAACATTTATACACCTCAA-TTATAGC
62 ACACTTCAATTT-TAACA-TTTAAACACT-TCAATTTACAACATTTAAACACTTCAATTTACAGC
* * * ** * * *
40252291 GA-TAAAACA-TCTCAATGTCCAGCAACTAAACACTTCAATTTGCTGTACTTAAACACTTCAATT
124 -ATTTAAACACT-TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATT
* * *
40252354 TGCAACATTTAAGCACATC
187 TACAGCATTTAA-CACCTC
* * * * * * *
40252373 AATTTACAGCATTTAAACA-CTTTAATTTATAGC-ATTCAAACACTTCAATTTGCAGC-ACTTTA
1 AA-TTACAGCACTAAAACATC-TCAA-TTACAGCAACT-AAACACTTCAATTTTCAGCAACTTAA
* * * * *
40252435 ACACTTCAA-TTTACAGCATTTAAGCACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAA
62 ACACTTCAATTTTA-A-CATTTAAACACTTCAATTTACAACA-TTTAAACACT-TCAATTTACAG
* * * * * **
40252497 CATTTAAACACCTCAA-TTACAGCGA-TAAAACA-TCTCCATGTCCAGCAAC-AAAACACTTCAA
123 CATTTAAACACTTCAATTTACAGC-ATTTAAACACT-TCAATTTGCAGC-ACTTTAACACTTCAA
* * * *
40252558 TTTTCAGTACTTAAACACTTC
185 TTTACAGCA-TTTAACACCTC
* * * * * * ** *
40252579 AATTTGCAACATTTAAGCA-CTTAATTTACAGCATTTAAACACTTCAATTTGCAGC-A-TTCAAA
1 AA-TTACAGCACTAAAACATCTCAA-TTACAGCAACTAAACACTTCAATTTTCAGCAACTT-AAA
* * * *
40252641 CACTTCAATTTGCAACACTTT-AACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCAC
63 CACTTCAATTT-TAACA-TTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCA-
* * * * * * ** *
40252705 TTT-TACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATG
125 TTTAAACACT-TCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTTAACACT-TCAATT
* * * *
40252765 TCCAGCAACTAAACACTTC
187 TACAGC-ATTTAACACCTC
* * * * * ** * * * *
40252784 AATTTGCAGTACTTAAACA-CTTCAATTTGCAACATTTAAGCACATCAATTTACAGC-ATTTAAA
1 AA-TTACAGCACTAAAACATC-TCAA-TTACAGCAACTAAACACTTCAATTTTCAGCAACTTAAA
* * * * * *
40252847 CACTTCAATTTGCAGCACTTT-AATACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCAC
63 CACTTCAATTT-TAACA-TTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCA-
* * * * * ** * *
40252911 TTT-AACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCCATG
125 TTTAAACACT-TCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTTAACACT-TCAATT
* * * *
40252971 TCCAGCAACTAAACACTTC
187 TACAGC-ATTTAACACCTC
* * * * * ** * * *
40252990 AATATTCAGTACTTAAACA-CTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC-ATTTAAA
1 AAT-TACAGCACTAAAACATC-TCAA-TTACAGCAACTAAACACTTCAATTTTCAGCAACTTAAA
* * * * *
40253053 CACTTCAA-TTTACAGCATTCAAAGACTTCAATTTGCAGCACTTT-AACAGTTCAATTTACAGCA
63 CACTTCAATTTTA-A-CATTTAAACACTTCAATTTACAACA-TTTAAACACTTCAATTTACAGCA
* * ** * *
40253116 TTTAAGCACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAG-AATTTATACACCTCAA-T
125 TTTAAACACTTCAATTTACAGCA-TTTAAACACT-TCAATTTGCAGCACTTTA-ACACTTCAATT
* *** *
40253177 TATAGCGAGAAAACATCTC
187 TACAGC-ATTTAACACCTC
* * * * * * *
40253196 AATATCCAACAACT-AAACA-CTTCAATTTGCAG-TACTTAAACACTTCAATTTGCAAC-ATTTA
1 AAT-TACAGC-ACTAAAACATC-TCAA-TTACAGCAAC-TAAACACTTCAATTTTCAGCAACTTA
* * * *
40253257 AGCACTTCAA-TTTACAGCATTTAAACATTTCAATTTACAACATTCAAACACTTCAATTTGCAGC
61 AACACTTCAATTTTA-A-CATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGC
*
40253321 ACTTT-AACACCTCAATT
124 A-TTTAAACACTTCAATT
40253338 AACAATATTT
Statistics
Matches: 1753, Mismatches: 336, Indels: 224
0.76 0.15 0.10
Matches are distributed among these distances:
204 10 0.01
205 178 0.10
206 1406 0.80
207 152 0.09
208 5 0.00
209 2 0.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (204 bp):
AATTACAGCACTAAAACATCTCAATTACAGCAACTAAACACTTCAATTTTCAGCAACTTAAACAC
TTCAATTTTAACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCATTTAAA
CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATT
TAACACCTC
Found at i:40251367 original size:229 final size:229
Alignment explanation
Indices: 40250966--40253144 Score: 3232
Period size: 229 Copynumber: 9.5 Consensus size: 229
40250956 GTCTAGCAAC
* * * *
40250966 TAAACACTTCAATTTTCAACATTTAAGCACTTTAATTTACAGTATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
*
40251031 CATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
*
40251096 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
*
40251161 TCTCCAGCAACTAAACACTTCAATTTTCAGTACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
* * *
40251195 TAAACACTTCAATTTGTAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
* * * *
40251260 TAGTCAAAGACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
*
40251325 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
** *
40251390 TGTCCAGCAACTAAACACTTCAATTTTCAACATT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
* * ** * *
40251424 TAAGCACTTCAATTTACAGTATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
* *
40251489 CATTCAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
* * * * * *
40251554 GCAGCACTTTAACATCTCAATTAACAATATTTATACACGTAAATTATAGCGATAAAACATTTCAA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
* ** *
40251619 TGTCTAGCAACTAAACACTTCAATTTTCAACATT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
* * ** * *
40251653 TAAGCACTTCAATTTACAGTATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAA
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
**
40251718 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTTTAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
*
40251783 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
* * *
40251848 TGTCCAACAGCTAAACACTTCAATTTTCAGTCCT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
*
40251882 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
40251947 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
* *
40252012 GCAGCACTTTTACATCTCAATTAGCAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
** * *
40252077 TGTCCAGCTGCTAAACATTTCAATTTTCAGTCCT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
*
40252111 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAA
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
40252176 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
*
40252241 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATAAAACATCTCAA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
* *
40252306 TGTCCAGCAACTAAACACTTCAATTTGCTGTACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
* * **
40252340 TAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTTAATTTATAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
40252405 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
* * *
40252470 GCAGCACTTTAACATCTCAATTAACAACATTTAAACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
*
40252535 TGTCCAGCAACAAAACACTTCAATTTTCAGTACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
40252569 TAAACACTTCAATTTGCAACATTTAAGCACTT-AATTTACAGCATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
*
40252633 CATTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
40252698 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
131 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
*
40252763 TGTCCAGCAACTAAACACTTCAATTTGCAGTACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
*
40252797 TAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
* * * *
40252862 CACTT-TAATACTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAGCACTTTAA-CA-TCTCA
66 CA-TTCAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAGCA-TTTAAGCACT-TCA
** * * * * * * * * *
40252923 ATTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCCATGTCCAGCAACT-AAA
127 ATTTGCAGCACTTT-TACATCTCAATTAACAAC-ATTTATACACCTCAAT-TACAGCGA-TAAAA
* * * * ** *
40252984 CA-CTTCAATATTCAG-TACTTAAACACTTCAATTTGCAACATT
188 CATC-TCAATGTCCAGCAAC-TAAACACTTCAATTTTCAGTACT
* * * * * *
40253026 TAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAAGACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
* * * *
40253091 CACTT-TAACAGTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAGCACTTTAA
66 CA-TTCAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAGCA-TTTAA
40253145 CATCTCAATT
Statistics
Matches: 1810, Mismatches: 129, Indels: 22
0.92 0.07 0.01
Matches are distributed among these distances:
228 244 0.13
229 1558 0.86
230 8 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (229 bp):
TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA
TGTCCAGCAACTAAACACTTCAATTTTCAGTACT
Found at i:40251827 original size:458 final size:458
Alignment explanation
Indices: 40250966--40253337 Score: 3788
Period size: 458 Copynumber: 5.2 Consensus size: 458
40250956 GTCTAGCAAC
* * *
40250966 TAAACACTTCAATTTTCAACATTTAAGCACTTTAATTTACAGTATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
*
40251031 CATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
*
40251096 GCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
* *
40251161 TCTCCAGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGTAACATTTAAGCACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
* * * * *
40251226 TCAATTTACAACATTTAAACACTTCAATTTACAGTAGTCAAAGACTTCAATTTGCAGCACTTTAA
261 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
* *
40251291 CACTTCAATTTATAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATT
326 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
40251356 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAAC
391 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAAC
*
40251421 ATT
456 ACT
* * ** *
40251424 TAAGCACTTCAATTTACAGTATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
* *
40251489 CATTCAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
* * * * * *
40251554 GCAGCACTTTAACATCTCAATTAACAATATTTATACACGTAAATTATAGCGATAAAACATTTCAA
131 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
* ** * * * ** *
40251619 TGTCTAGCAACTAAACACTTCAATTTTCAACATTTAAGCACTTCAATTTACAGTATTTAAACACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
*
40251684 TCAATTTACAGCATTTAAACACTTCAATTTGCAACATTCAAACACTTCAATTTGCAGCACTTTAA
261 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
**
40251749 CACTTCAATTTTTAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
326 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
* * * *
40251814 TATACACCTCAATTACAGCGATAAAACATCTCCATGTCCAACAGCTAAACACTTCAATTTTCAGT
391 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCA-A
40251879 C-CT
455 CACT
* *
40251882 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
40251947 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
* *
40252012 GCAGCACTTTTACATCTCAATTAGCAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
** * *
40252077 TGTCCAGCTGCTAAACATTTCAATTTTCAGTCCTTAAACACTTCAATTTGCAACATTTAAGCACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
*
40252142 TCAATTTACAGCATTTAAACACTTCAATTTGCAACATTCAAACACTTCAATTTGCAGCACTTTAA
261 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
40252207 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
326 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
* * ***
40252272 TATACACCTCAATTATAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCTGT
391 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAAC
40252337 ACT
456 ACT
* * *
40252340 TAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTTAATTTATAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
40252405 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
*
40252470 GCAGCACTTTAACATCTCAATTAACAACATTTAAACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
*
40252535 TGTCCAGCAACAAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
*
40252600 T-AATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAACACTTTAA
261 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
40252664 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
326 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
* **
40252729 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGT
391 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAAC
40252794 ACT
456 ACT
40252797 TAAACACTTCAATTTG---C-----A--A---C-ATTTA-AGC------ACA--TCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
* *
40252839 CATTTAAACACTTCAATTTGCAGCACTTTAATACTTCAATTTACAGCATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
40252904 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
131 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
*
40252969 TGTCCAGCAACTAAACACTTCAATATTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
196 TGTCCAGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
* *
40253034 TCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAAGACTTCAATTTGCAGCACTTTAA
261 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
* *
40253099 CAGTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAGA-AT
326 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACA-ACAT
* * * * * *
40253163 TTATACACCTCAATTATAGCGAGAAAACATCTCAATATCCAACAACTAAACACTTCAATTTGCAG
390 TTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAA
*
40253228 TACT
455 CACT
* *
40253232 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACATTTCAATTTACAA
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
*
40253297 CATTCAAACACTTCAATTTGCAGCACTTTAACACCTCAATT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATT
40253338 AACAATATTT
Statistics
Matches: 1769, Mismatches: 118, Indels: 54
0.91 0.06 0.03
Matches are distributed among these distances:
434 200 0.11
435 201 0.11
436 4 0.00
438 1 0.00
442 3 0.00
443 6 0.00
444 1 0.00
445 1 0.00
447 1 0.00
448 1 0.00
449 6 0.00
450 3 0.00
454 1 0.00
456 3 0.00
457 208 0.12
458 1128 0.64
459 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (458 bp):
TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTT
GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCCA
TGTCCAGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACT
TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTTCAAC
ACT
Found at i:40255610 original size:25 final size:25
Alignment explanation
Indices: 40255581--40255631 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
40255571 GCAGATGTCA
40255581 ACAGAGATACAACAGCGGGCTACCG
1 ACAGAGATACAACAGCGGGCTACCG
*
40255606 ACAGAGATACAGCAGCGGGCTACCG
1 ACAGAGATACAACAGCGGGCTACCG
40255631 A
1 A
40255632 TTTGAGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.27, G:0.29, T:0.08
Consensus pattern (25 bp):
ACAGAGATACAACAGCGGGCTACCG
Found at i:40258178 original size:41 final size:40
Alignment explanation
Indices: 40258051--40258195 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
40258041 CTCGCACAAG
* * * *
40258051 GCCTTC-GGATCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTAGCACAAAT
40258091 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
40258131 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
40258172 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
40258196 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 56 0.61
41 30 0.33
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:40259424 original size:38 final size:38
Alignment explanation
Indices: 40259382--40259457 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
40259372 CAAGAACTCC
40259382 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
40259420 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
40259458 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:40260020 original size:7 final size:7
Alignment explanation
Indices: 40260008--40260110 Score: 55
Period size: 7 Copynumber: 14.4 Consensus size: 7
40259998 CCCCAACCCT
40260008 TAAACCA
1 TAAACCA
40260015 TAAACCA
1 TAAACCA
* *
40260022 TAATCCC
1 TAAACCA
40260029 TAAACCCA
1 TAAA-CCA
*
40260037 TAATCCA
1 TAAACCA
*
40260044 TAAACCT
1 TAAACCA
**
40260051 TAAAATA
1 TAAACCA
*
40260058 GAAACTCA
1 TAAAC-CA
**
40260066 TAAACTT
1 TAAACCA
*
40260073 TAAACCC
1 TAAACCA
*
40260080 TTAACCA
1 TAAACCA
40260087 -AATACCA
1 TAA-ACCA
*
40260094 TAAACCC
1 TAAACCA
*
40260101 TAAACTA
1 TAAACCA
40260108 TAA
1 TAA
40260111 TGATAATTAA
Statistics
Matches: 68, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
6 1 0.01
7 55 0.81
8 12 0.18
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:40260037 original size:15 final size:15
Alignment explanation
Indices: 40260002--40260049 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
40259992 CTTAAACCCC
* *
40260002 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
40260017 AA-CCATAATCCCTA
1 AACCCATAATCCATA
40260031 AACCCATAATCCATA
1 AACCCATAATCCATA
40260046 AACC
1 AACC
40260050 TTAAAATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:40260054 original size:22 final size:21
Alignment explanation
Indices: 40260005--40260110 Score: 70
Period size: 22 Copynumber: 5.0 Consensus size: 21
40259995 AAACCCCAAC
*
40260005 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAACCATAAA
* *
40260026 CCCTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAAACCATAAA
** *
40260048 CCTTAAAATAGAAACTCATAAA
1 CCTTAAACCATAAAC-CATAAA
* * *
40260070 CTTTAAACCCTTAACCA-AATA
1 CCTTAAACCATAAACCATAA-A
* * *
40260091 CCATAAACCCTAAACTATAA
1 CCTTAAACCATAAACCATAA
40260111 TGATAATTAA
Statistics
Matches: 63, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
20 2 0.03
21 26 0.41
22 35 0.56
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (21 bp):
CCTTAAACCATAAACCATAAA
Found at i:40263894 original size:27 final size:27
Alignment explanation
Indices: 40263863--40264040 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40263853 TAAATTGTAC
40263863 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40263890 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40263916 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40263944 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40263972 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40263999 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40264026 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40264041 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40263977 original size:82 final size:81
Alignment explanation
Indices: 40263864--40264019 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40263854 AAATTGTACA
* *
40263864 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40263928 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40263945 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40264010 TGCGAGTTGA
65 TGCGAATTGA
40264020 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40264031 original size:82 final size:81
Alignment explanation
Indices: 40263860--40264040 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40263850 GATTAAATTG
* *
40263860 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40263925 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40263941 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40264005 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40264023 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40264041 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40267153 original size:29 final size:28
Alignment explanation
Indices: 40267070--40267154 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 28
40267060 CCTGTATCTA
* ** *
40267070 GCCCATTAAGCCCAATCGTATTCATATG
1 GCCCATTAGGCCCAATCACATTTATATG
* * * *
40267098 GCCTATTAGGCCAAAATCACCTGTATATG
1 GCCCATTAGGCC-CAATCACATTTATATG
40267127 GCCCATTAGGCCCAAGTCACATTTATAT
1 GCCCATTAGGCCCAA-TCACATTTATAT
40267155 TCATGCACAC
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
28 12 0.28
29 31 0.72
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTTATATG
Found at i:40267234 original size:17 final size:18
Alignment explanation
Indices: 40267212--40267247 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40267202 TTGCCTGATA
40267212 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
40267229 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
40267247 T
1 T
40267248 TCAGCCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.25
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:40268821 original size:18 final size:19
Alignment explanation
Indices: 40268795--40268835 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
40268785 GGCCTCTAGA
40268795 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
40268813 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
40268832 CGGT
1 CGGT
40268836 CCATGACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:40271448 original size:29 final size:28
Alignment explanation
Indices: 40271393--40271477 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 28
40271383 CCTGTATCTA
* *
40271393 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATT-ATATG
40271421 GCCCATTAGGCCCAAATCACATGTATATG
1 GCCCATTAGGCCCAAATCACAT-TATATG
*
40271450 GCCCATTAGGCCCAAGTCACATTTATAT
1 GCCCATTAGGCCCAAATCACA-TTATAT
40271478 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
28 12 0.24
29 37 0.73
30 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
GCCCATTAGGCCCAAATCACATTATATG
Found at i:40273889 original size:40 final size:40
Alignment explanation
Indices: 40273843--40274067 Score: 232
Period size: 40 Copynumber: 5.7 Consensus size: 40
40273833 GCTCCTCGTT
*
40273843 CAAATGCCTTCGGGACATAGCCCGG-TCATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-ATAGTAATTCGCA
* * *
40273883 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
*
40273923 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTACT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
* *
40273962 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAT-TCGCA
* * * *
40274002 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AATTCGCA
40274043 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40274068 CATCATTCAA
Statistics
Matches: 160, Mismatches: 16, Indels: 18
0.82 0.08 0.09
Matches are distributed among these distances:
38 3 0.02
39 29 0.18
40 115 0.72
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
Found at i:40273945 original size:79 final size:78
Alignment explanation
Indices: 40273843--40274067 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
40273833 GCTCCTCGTT
* *
40273843 CAAATGCCTTCGGGACATAGCCCGGTCATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGT-ATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
40273908 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * *
40273923 CAAATGCCTTCGGGCTTAGCCCGGAATTACT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCCG
*
40273986 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * * *
40274002 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
40274066 GA
63 GA
40274068 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
78 6 0.05
79 63 0.51
80 41 0.33
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:40281137 original size:40 final size:40
Alignment explanation
Indices: 40281055--40281278 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
40281045 GCTCCTCGTT
* * *
40281055 CAAATGCCTTCGGGACATAGCCCGG-TATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40281094 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
40281134 CAAATGCCTTCGGG-CTTAGCCCGGAATTACTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40281173 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
40281213 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40281254 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40281279 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 55 0.34
40 95 0.58
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40281172 original size:79 final size:79
Alignment explanation
Indices: 40281055--40281225 Score: 240
Period size: 79 Copynumber: 2.2 Consensus size: 79
40281045 GCTCCTCGTT
* *
40281055 CAAATGCCTTCGGGACATAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGAATACTAATTCGCACAAATGCCTTC-GGATCTTAACCCGG
40281119 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* **
40281134 CAAATGCCTTCGGG-CTTAGCCCGGAATTACT-ATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGGAA-TACTAAT-TCGCACAAATGCCTTCGGATCTTAACCCG
*
40281197 GATTTAGTATCTCGCA
64 GATTTAGTAACTCGCA
40281213 CAAATGCCTTCGG
1 CAAATGCCTTCGG
40281226 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
78 15 0.18
79 68 0.82
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGAATACTAATTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTCGCA
Found at i:40298227 original size:13 final size:13
Alignment explanation
Indices: 40298209--40298233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40298199 CCAAGCACAC
40298209 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
40298222 GCCCGTGTCCCT
1 GCCCGTGTCCCT
40298234 CACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:40298388 original size:30 final size:30
Alignment explanation
Indices: 40298352--40298416 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
40298342 TGCTTAGGCT
*
40298352 GTGTCCAATACACAGTTGAGACACATGGCC
1 GTGTCCAATACACAGTTGAGACACACGGCC
*
40298382 GTGTCCAATACACGGTTGAGACACACGGCC
1 GTGTCCAATACACAGTTGAGACACACGGCC
40298412 GTGTC
1 GTGTC
40298417 TCTGCCCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (30 bp):
GTGTCCAATACACAGTTGAGACACACGGCC
Found at i:40306575 original size:104 final size:104
Alignment explanation
Indices: 40306395--40306618 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
40306385 TGTATATAAA
** * *
40306395 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
40306460 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
40306499 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
40306563 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
40306603 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
40306619 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:40306670 original size:71 final size:72
Alignment explanation
Indices: 40306537--40306688 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
40306527 TCATTGGTGG
* *
40306537 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40306602 GAGGGGT
66 GAGGGGT
***
40306609 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40306673 GAGGGGT
66 GAGGGGT
40306680 TGCTAAGTG
1 TGCTAAGTG
40306689 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:40314128 original size:104 final size:103
Alignment explanation
Indices: 40313949--40314171 Score: 376
Period size: 104 Copynumber: 2.2 Consensus size: 103
40313939 TGTATATAAA
** * *
40313949 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
40314014 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
40314052 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
40314116 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
40314156 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
40314172 GATATCCATT
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
103 27 0.24
104 85 0.75
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:40314223 original size:71 final size:72
Alignment explanation
Indices: 40314090--40314241 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
40314080 TCATTGGTGG
* *
40314090 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40314155 GAGGGGT
66 GAGGGGT
***
40314162 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
40314226 GAGGGGT
66 GAGGGGT
40314233 TGCTAAGTG
1 TGCTAAGTG
40314242 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:40315528 original size:26 final size:26
Alignment explanation
Indices: 40315499--40315550 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
40315489 ACTGATTCGA
40315499 CTTACCTAAAAATATGCTCATCTGGG
1 CTTACCTAAAAATATGCTCATCTGGG
40315525 CTTACCTAAAAATATGCTCATCTGGG
1 CTTACCTAAAAATATGCTCATCTGGG
40315551 AAATTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (26 bp):
CTTACCTAAAAATATGCTCATCTGGG
Found at i:40317279 original size:47 final size:47
Alignment explanation
Indices: 40317208--40317377 Score: 172
Period size: 47 Copynumber: 3.7 Consensus size: 47
40317198 TATAATACCG
* *
40317208 ATGCCATGTCCCAGACATGGTCTTACACTGGTTTGTCCATTAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGTTTGTCCATTAAGCCA
* *****
40317255 ATGCCATGTCCCAGACATGTTCTTACACTGACACAT-C-TTATAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGTTTGTCCATTA-AGCCA
* *
40317301 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTGTCTCA--ATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACT-GGT-TTGTC-CATTAAGCCA
40317347 ATGCCATGTCCCAGACATGGTCTTACACTGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGG
40317378 CTCTCATAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 9 0.09
45 18 0.18
46 15 0.15
47 46 0.46
48 11 0.11
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGTTTGTCCATTAAGCCA
Found at i:40322032 original size:54 final size:54
Alignment explanation
Indices: 40321973--40322208 Score: 310
Period size: 54 Copynumber: 4.4 Consensus size: 54
40321963 AACCCTATAA
* * *
40321973 GGTAGAATTACCGAAATACCCCCATAAGGTTGAATTATCGAAATACCCCTGTAG
1 GGTAGAATTACTGAAATACCCCCATAAGGTAGAATTACCGAAATACCCCTGTAG
* * ** * *
40322027 GGTAGAATCACTAAAATACCCTTATAAGGCAGAATTACCGAAATACGCCTGTAG
1 GGTAGAATTACTGAAATACCCCCATAAGGTAGAATTACCGAAATACCCCTGTAG
* *
40322081 GGTAGAATTACTGAAATACCCTCGTAAGGTAGAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACTGAAATACCCCCATAAGGTAGAATTACCGAAATACCCCTGTAG
* ** * * *
40322135 GGTAGAATTACTGAAATACCACTGTAGGGTAGAATTATCGAAATACCCTTGTAG
1 GGTAGAATTACTGAAATACCCCCATAAGGTAGAATTACCGAAATACCCCTGTAG
*
40322189 GGTAGAAATACTGAAATACC
1 GGTAGAATTACTGAAATACC
40322209 TCTGTAGTGT
Statistics
Matches: 160, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 160 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
GGTAGAATTACTGAAATACCCCCATAAGGTAGAATTACCGAAATACCCCTGTAG
Found at i:40322063 original size:81 final size:79
Alignment explanation
Indices: 40321954--40322208 Score: 289
Period size: 81 Copynumber: 3.2 Consensus size: 79
40321944 TTTACCAAAT
* ** * *
40321954 TACTGAAGTAACCCTATAAGGTAGAATTACCGAAATACCCCCATAAGGTTGAATTATCGAAATAC
1 TACTGAAAT-ACCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATAC
40322019 CCCTGTAGGGTAGAA
65 CCCTGTAGGGTAGAA
* * *
40322034 TCACTAAAATACCCTTATAAGGCAGAATTACCGAAATACGCCTGTAGGGTAGAATTA-CTGAAAT
1 T-ACTGAAATACCC-TATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC-GAAAT
*
40322098 A-CCCTCGTAAGGTAGAA
63 ACCCCT-GTAGGGTAGAA
* * * * *
40322115 TTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCACTGTAGGGTAGAATTATCGAAATA
1 -TACTGAAATA-CCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATA
*
40322180 CCCTTGTAGGGTAGAAA
64 CCCCTGTAGGGTAG-AA
40322197 TACTGAAATACC
1 TACTGAAATACC
40322209 TCTGTAGTGT
Statistics
Matches: 146, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
80 12 0.08
81 124 0.85
82 10 0.07
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (79 bp):
TACTGAAATACCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACC
CCTGTAGGGTAGAA
Found at i:40322215 original size:27 final size:26
Alignment explanation
Indices: 40321951--40322215 Score: 255
Period size: 27 Copynumber: 9.8 Consensus size: 26
40321941 TAGTTTACCA
* * *
40321951 AATTACTGAAGTAACCCTATAAGGTAG
1 AATTACTGAAAT-ACCCTGTAGGGTAG
* ** * *
40321978 AATTACCGAAATACCCCCATAAGGTTG
1 AATTACTGAAATA-CCCTGTAGGGTAG
40322005 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATA-CCCTGTAGGGTAG
* * * * *
40322032 AATCACTAAAATACCCTTATAAGGCAG
1 AATTACTGAAATACCC-TGTAGGGTAG
*
40322059 AATTACCGAAATACGCCTGTAGGGTAG
1 AATTACTGAAATAC-CCTGTAGGGTAG
*
40322086 AATTACTGAAATACCCTCGTAAGGTAG
1 AATTACTGAAATACCCT-GTAGGGTAG
*
40322113 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATA-CCCTGTAGGGTAG
40322140 AATTACTGAAATACCACTGTAGGGTAG
1 AATTACTGAAATACC-CTGTAGGGTAG
40322167 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCC-TGTAGGGTAG
*
40322194 AAATACTGAAATACCTCTGTAG
1 AATTACTGAAATACC-CTGTAG
40322216 TGTGACAGCC
Statistics
Matches: 200, Mismatches: 26, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.05
27 180 0.90
28 9 0.05
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (26 bp):
AATTACTGAAATACCCTGTAGGGTAG
Found at i:40323886 original size:40 final size:40
Alignment explanation
Indices: 40323802--40323985 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
40323792 TTGAATGCTG
* * * *
40323802 TCCGGGCTAAGTCGCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
* *
40323841 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * *
40323882 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
40323922 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
40323962 TCCGGGCTAAGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40323986 GAATGAGTTA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 2 0.02
40 108 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:40324040 original size:40 final size:39
Alignment explanation
Indices: 40323923--40324045 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
40323913 GATACTAATT
* ** ** *
40323923 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
40323962 TCCGGGCTAAGTCCTGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
40324002 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
40324042 CCGG
1 CCGG
40324046 TTAAATTCCG
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 25 0.37
40 42 0.63
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Done.