Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 100 of 770
Found at i:29055350 original size:28 final size:29
Alignment explanation
Indices: 29055318--29055464 Score: 128
Period size: 29 Copynumber: 5.2 Consensus size: 29
29055308 TACATATATG
**
29055318 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCACATT
* *
29055346 TATATGGCCCA-TCCGGCCCAATTCACATT
1 CATATGGCCCACT-AGGCCCAATTCACATT
* *
29055375 CATATGGCCC-TTCAAGCCCAATTCACATT
1 CATATGGCCCACT-AGGCCCAATTCACATT
*
29055404 CATATGGCCCATTAGGCCCAA-T-ATCATT
1 CATATGGCCCACTAGGCCCAATTCA-CATT
* *
29055432 TATATGGCCCATCTA-GCCCAAATCACATT
1 CATATGGCCCA-CTAGGCCCAATTCACATT
29055461 -ATAT
1 CATAT
29055465 TCATGCTCAC
Statistics
Matches: 101, Mismatches: 10, Indels: 16
0.80 0.08 0.13
Matches are distributed among these distances:
27 2 0.02
28 42 0.42
29 54 0.53
30 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCACATT
Found at i:29055384 original size:29 final size:29
Alignment explanation
Indices: 29055347--29055464 Score: 134
Period size: 29 Copynumber: 4.1 Consensus size: 29
29055337 AATCTTATTT
**
29055347 ATATGGCCCATCCGGCCCAATTCACATTC
1 ATATGGCCCATCAAGCCCAATTCACATTC
*
29055376 ATATGGCCCTTCAAGCCCAATTCACATTC
1 ATATGGCCCATCAAGCCCAATTCACATTC
* * *
29055405 ATATGGCCCATTAGGCCCAA-T-ATCATTT
1 ATATGGCCCATCAAGCCCAATTCA-CATTC
* *
29055433 ATATGGCCCATCTAGCCCAAATCACATT-
1 ATATGGCCCATCAAGCCCAATTCACATTC
29055461 ATAT
1 ATAT
29055465 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
27 1 0.01
28 26 0.34
29 48 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATCAAGCCCAATTCACATTC
Found at i:29055702 original size:16 final size:16
Alignment explanation
Indices: 29055681--29055718 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
29055671 CAAATTATCG
*
29055681 GCTTTTCGGCATTTCA
1 GCTTTTCGACATTTCA
29055697 GCTTTTCGACATTTCA
1 GCTTTTCGACATTTCA
29055713 GCTTTT
1 GCTTTT
29055719 GTCGATCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.24, G:0.16, T:0.47
Consensus pattern (16 bp):
GCTTTTCGACATTTCA
Found at i:29056977 original size:16 final size:16
Alignment explanation
Indices: 29056956--29056987 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
29056946 AAATTTAAGA
29056956 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
29056972 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
29056988 GCATTACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.38, T:0.50
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:29060974 original size:50 final size:49
Alignment explanation
Indices: 29060803--29061034 Score: 241
Period size: 49 Copynumber: 4.7 Consensus size: 49
29060793 TCTATTGTGA
* * * *
29060803 GGTCACGTATGTAATACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
* * * * * **
29060852 GGTCGCATGTGCAGTACTAAGCGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA-TT
* * **
29060902 CGATCACATGTGTAGTATTAAGTGCAGGCTACTACGTGTA-TCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATT
**
29060952 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
* **
29061002 GGTCGCATGTGTAGTACTAAGTATAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
29061035 TGCGTTCCAG
Statistics
Matches: 146, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
49 65 0.45
50 45 0.31
51 36 0.25
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
Found at i:29060999 original size:101 final size:98
Alignment explanation
Indices: 29060812--29061034 Score: 241
Period size: 101 Copynumber: 2.2 Consensus size: 98
29060802 AGGTCACGTA
* * *
29060812 TGTAATACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGCAGTACTAAGCGCA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGCAGTACTAAGCGCA
* *
29060877 GGCTACTATGCGTACCCGATAACTTCGATCACATG
66 GGCTACTACGCGTACCAGATAA-TT-GATCACATG
* ** ** * *
29060912 TGTAGTATTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCATGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATT-GGTCACATGTGCAGTACTAAGCG
* * * *
29060976 CAGGCTACTACGTGTACTAGATAATTGGTCGCATG
64 CAGGCTACTACGCGTACCAGATAATTGATCACATG
**
29061011 TGTAGTACTAAGTATAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
29061035 TGCGTTCCAG
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
99 29 0.28
100 35 0.34
101 38 0.37
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGCAGTACTAAGCGCA
GGCTACTACGCGTACCAGATAATTGATCACATG
Found at i:29065624 original size:49 final size:50
Alignment explanation
Indices: 29065545--29065776 Score: 283
Period size: 49 Copynumber: 4.7 Consensus size: 50
29065535 ATCTATTATG
*
29065545 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
29065595 -GGTCGCGTGTATAGTACTAAGTGCAGGCTACT-CTGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC-GTGTACCGGATAA-TT
* * * * **
29065645 CGATCACGTGTGTAGTACTAAGTGCA-GCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
29065694 AAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
29065744 -GGTCGCATGTGTAGTACTAAGTACAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
29065777 TGCATACCAG
Statistics
Matches: 153, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 94 0.61
50 35 0.23
51 23 0.15
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:29065726 original size:100 final size:98
Alignment explanation
Indices: 29065548--29065776 Score: 291
Period size: 100 Copynumber: 2.3 Consensus size: 98
29065538 TATTATGAGG
* * *
29065548 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCGTGTATAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACGTGTATAGTACT
29065613 AAGTGCAGGCTACT-CTGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTAC-GCGTACCCGATAA-TT-GA
* * ** *
29065648 TCACGTGTGTAGTACTAAGTGCA-GCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-AGTCACGTGTATAGTAC
* * *
29065712 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* *
29065746 TCGCATGTGTAGTACTAAGTACAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
29065777 TGCATACCAG
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 21 0.19
99 28 0.25
100 62 0.55
101 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACGTGTATAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:29066100 original size:11 final size:13
Alignment explanation
Indices: 29066080--29066112 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
29066070 TGTGTAAGTT
29066080 GAATTAAATT-TA
1 GAATTAAATTATA
29066092 GAA-TAAATTATA
1 GAATTAAATTATA
29066104 GAATTAAAT
1 GAATTAAAT
29066113 ATTAATGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.32
12 8 0.42
13 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (13 bp):
GAATTAAATTATA
Found at i:29080000 original size:40 final size:40
Alignment explanation
Indices: 29079927--29080094 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
29079917 CAATTGAATG
* * * * * * *
29079927 ATATCCGGGCTAAGTCCCGACGACATTTATGCTAGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
29079967 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
29080007 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * *
29080047 CTATCCGAGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTAGTT
29080087 ATATCCGG
1 ATATCCGG
29080095 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.04
40 103 0.96
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:29090684 original size:40 final size:40
Alignment explanation
Indices: 29090640--29090838 Score: 111
Period size: 40 Copynumber: 5.0 Consensus size: 40
29090630 TTTAACCGGA
* * *
29090640 TATAGCGACTCGCTCGATTGTCTTCGGGACA-TAGCCCGAT
1 TATAGCGACTCGCACAATTGCCTTCGGGA-ATTAGCCCGAT
*
29090680 TATAGCGATTCGCACAATTGCCTTCGGGAATTAGCCCGGAT
1 TATAGCGACTCGCACAATTGCCTTCGGGAATTAGCCC-GAT
** * * * * * *
29090721 T-TAGTAACTAGCACAAATGCCTTCAGGACTTAACCCGGT
1 TATAGCGACTCGCACAATTGCCTTCGGGAATTAGCCCGAT
* * ** * *
29090760 TTTGGTAACTCGCACAAATGCCTTTGGGAATT-GACCCGGAT
1 TATAGCGACTCGCACAATTGCCTTCGGGAATTAG-CCC-GAT
* ** *
29090801 T-TAGTC-ACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 TATAG-CGAC-TCGCACAATTGCCTTCGGGAATTAGCCCG
29090839 GATACCATTC
Statistics
Matches: 125, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
39 4 0.03
40 91 0.73
41 29 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TATAGCGACTCGCACAATTGCCTTCGGGAATTAGCCCGAT
Found at i:29090798 original size:80 final size:81
Alignment explanation
Indices: 29090689--29090839 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 81
29090679 TTATAGCGAT
* *
29090689 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC-TAGCACAAATGCCTTCAGGACTTA
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCTTCAGGACTTA
29090753 ACCCGGTTTTGGTAAC
66 ACCCGGTTTTGGTAAC
* * *
29090769 TCGCACAAATGCCTTTGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCAGGACTT
*
29090833 AGCCCGG
65 AACCCGG
29090840 ATACCATTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 1 0.02
80 35 0.56
81 27 0.43
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCTTCAGGACTTA
ACCCGGTTTTGGTAAC
Found at i:29095145 original size:26 final size:26
Alignment explanation
Indices: 29095106--29095159 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
29095096 ACGTTAGTCC
* *
29095106 TAAAATCGATTAAATCATAGCTCTGA
1 TAAAATCGACTAAACCATAGCTCTGA
* *
29095132 TAAAATTGACTAAACCGTAGCTCTGA
1 TAAAATCGACTAAACCATAGCTCTGA
29095158 TA
1 TA
29095160 CCAATAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (26 bp):
TAAAATCGACTAAACCATAGCTCTGA
Found at i:29097624 original size:43 final size:45
Alignment explanation
Indices: 29097525--29097649 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 45
29097515 TCACTTGTTG
* *
29097525 ATGCCAATGTCCCAGACATGGTCTTACACG-AAAC-CATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAACA
* * *
29097568 ATACCATTATCCCAGACATGGTCTTACACGTAATCACA-AT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAACA
* *
29097611 ATGCCAATGTCCCAAACATGGTCTTACAGGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
29097650 CTCGGTAATC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
43 62 0.90
44 5 0.07
45 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAACA
Found at i:29100570 original size:39 final size:40
Alignment explanation
Indices: 29100473--29100570 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
29100463 CGGATGATAA
* *
29100473 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
29100513 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTA-CTATAT
*
29100553 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29100571 TACTTGGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.31
40 37 0.69
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
Found at i:29108393 original size:40 final size:40
Alignment explanation
Indices: 29108338--29108518 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
29108328 CGGATGATAA
*
29108338 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
29108378 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
29108418 CGGGCTAAGTCCCGAAGGCATTTGTGCGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCA-TT-T--GTGCGAGTTACTATATC
* *
29108462 CGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
*
29108502 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
29108519 TACTTGGTTT
Statistics
Matches: 132, Mismatches: 4, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
39 17 0.13
40 73 0.55
41 2 0.02
42 2 0.02
43 1 0.01
44 37 0.28
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:29108475 original size:84 final size:80
Alignment explanation
Indices: 29108338--29108518 Score: 276
Period size: 84 Copynumber: 2.2 Consensus size: 80
29108328 CGGATGATAA
* *
29108338 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAGTTGA
29108403 GCGAGTTA-CTATATC
66 GCGAG-TAGCTATATC
29108418 CGGGCTAAGTCCCGAAGGCATTTGTGCGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAG
1 CGGGCTAAGTCCCGAAGGCATTTGT--GT--GAGTTACTATATCCGGGCTAAGTCCCGAAGGCAG
29108483 TTGAGCGAGTAGCTATATC
62 TTGAGCGAGTAGCTATATC
*
29108502 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
29108519 TACTTGGTTT
Statistics
Matches: 93, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
80 25 0.27
82 2 0.02
83 17 0.18
84 49 0.53
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAGTTGA
GCGAGTAGCTATATC
Found at i:29117638 original size:29 final size:28
Alignment explanation
Indices: 29117572--29117698 Score: 125
Period size: 29 Copynumber: 4.5 Consensus size: 28
29117562 TACATACATG
29117572 CATATGGCCCA-CTAGGCCCAATCTCA-TT
1 CATATGGCCCATC-AGGCCCAAT-TCACTT
* *
29117600 TATATGGCCCATCCGGCCCAATTCACGTT
1 CATATGGCCCATCAGGCCCAATTCAC-TT
*
29117629 CATATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAATTCAC-TT
* *
29117658 CTTATGGCCCATTAGGCCCAATCTCA-TT
1 CATATGGCCCATCAGGCCCAAT-TCACTT
* *
29117686 TATCTGGCCCATC
1 CATATGGCCCATC
29117699 CGACCCAAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
27 3 0.04
28 29 0.35
29 49 0.58
30 3 0.04
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATTCACTT
Found at i:29117694 original size:57 final size:56
Alignment explanation
Indices: 29117572--29117697 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 56
29117562 TACATACATG
* * *
29117572 CATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTCACGTT
1 CATATGGCCCATTAGGCCCAATCACATTTATATGGCCCATCAGGCCCAATTCAC-TT
*
29117629 CATATGGCCCATTAGGCCCAATTCACATTCT-TATGGCCCATTAGGCCCAATCTCA-TT
1 CATATGGCCCATTAGGCCCAA-TCACATT-TATATGGCCCATCAGGCCCAAT-TCACTT
* *
29117686 TATCTGGCCCAT
1 CATATGGCCCAT
29117698 CCGACCCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
57 32 0.53
58 24 0.40
59 4 0.07
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (56 bp):
CATATGGCCCATTAGGCCCAATCACATTTATATGGCCCATCAGGCCCAATTCACTT
Found at i:29117971 original size:16 final size:16
Alignment explanation
Indices: 29117930--29117972 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
29117920 GTAGCCAAAC
*
29117930 TTTCAGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
* * *
29117946 TTTTGACTTTTCGGCA
1 TTTCGGCTTTTCAGCA
29117962 TTTCGGCTTTT
1 TTTCGGCTTTT
29117973 ACCGATCTAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:29131681 original size:20 final size:20
Alignment explanation
Indices: 29131654--29131703 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
29131644 GGCAATGCAC
29131654 ACGCCCGTGTGCTTTGGGAA
1 ACGCCCGTGTGCTTTGGGAA
* *
29131674 ATGCCCGTGTGCTTTGGGAC
1 ACGCCCGTGTGCTTTGGGAA
29131694 ACGCCCGTGT
1 ACGCCCGTGT
29131704 CCCTTACTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.28, G:0.34, T:0.26
Consensus pattern (20 bp):
ACGCCCGTGTGCTTTGGGAA
Found at i:29141104 original size:40 final size:40
Alignment explanation
Indices: 29141042--29141202 Score: 254
Period size: 40 Copynumber: 4.0 Consensus size: 40
29141032 CGAATACACG
* *
29141042 TCACCAGCAT-AATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAA-TGCTCTTCGGGACTTAGCCCGGATACA
* * *
29141082 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
29141122 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
29141162 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
29141201 TC
1 TC
29141203 GTCGAGACCT
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 4 0.04
40 106 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:29143572 original size:49 final size:49
Alignment explanation
Indices: 29143502--29143856 Score: 644
Period size: 49 Copynumber: 7.3 Consensus size: 49
29143492 CCCTTCGGGA
*
29143502 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
29143549 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29143598 CTTATCACATATATACACACTTTCACATTCTTCACGTCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
29143647 CTTATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
29143696 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
29143745 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
29143794 CTTATCACATATATACACACTTTCACATTC-TCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
29143842 CTTATCACATATATA
1 CTTATCACATATATA
29143857 TATCTCATAC
Statistics
Matches: 301, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 10 0.03
48 34 0.11
49 257 0.85
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29151160 original size:21 final size:20
Alignment explanation
Indices: 29151123--29151164 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
29151113 TACTCAAGCA
*
29151123 AAGCCAATTGATCCATCTAAG
1 AAGCCAATTCATCCATC-AAG
29151144 AAGCCAGATTCAT-CATCAAG
1 AAGCCA-ATTCATCCATCAAG
29151164 A
1 A
29151165 CTGAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.21
Consensus pattern (20 bp):
AAGCCAATTCATCCATCAAG
Found at i:29151671 original size:40 final size:39
Alignment explanation
Indices: 29151626--29151711 Score: 136
Period size: 40 Copynumber: 2.2 Consensus size: 39
29151616 TCGAGAGATT
**
29151626 TAATAATATAACATAGGGATTTCTATGGATCAAGTCAAGA
1 TAATAATATAACATAGGGATTTCTACAGATCAAGTCAA-A
29151666 TAATAATATAACATAGGGATTTCTACAGATCAAGTCAAA
1 TAATAATATAACATAGGGATTTCTACAGATCAAGTCAAA
29151705 TGAATAA
1 T-AATAA
29151712 ATTGTCTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 2 0.05
40 41 0.95
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.29
Consensus pattern (39 bp):
TAATAATATAACATAGGGATTTCTACAGATCAAGTCAAA
Found at i:29154815 original size:40 final size:40
Alignment explanation
Indices: 29154760--29154920 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
29154750 TGAATGATAC
* *
29154760 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
29154800 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
29154840 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
29154880 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
29154920 C
1 C
29154921 AGGCTAAATT
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:29163760 original size:49 final size:49
Alignment explanation
Indices: 29163647--29163870 Score: 306
Period size: 50 Copynumber: 4.5 Consensus size: 49
29163637 CTGGTACGCA
* * *
29163647 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCC-GTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
29163695 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
29163744 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
29163794 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
29163845 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
29163871 TGCGACCTCA
Statistics
Matches: 157, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
48 38 0.24
49 40 0.25
50 43 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:29163817 original size:99 final size:99
Alignment explanation
Indices: 29163634--29163877 Score: 330
Period size: 101 Copynumber: 2.5 Consensus size: 99
29163624 TAGCCAAAGC
* * * * **
29163634 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGTACACGTAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGTACACGTAGT
29163699 AGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 AGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
29163731 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCG-TACACGTA
*
29163796 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
64 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * *
29163832 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
29163878 TCACAATAGA
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
97 40 0.31
98 6 0.05
99 37 0.29
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGTACACGTAGT
AGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:29166051 original size:30 final size:30
Alignment explanation
Indices: 29166016--29166075 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29166006 CAAGAAAACT
*
29166016 GAATAAAGAAATCCAAGA-TAGAGAAACCCA
1 GAATAAAGAAA-CCAAGAGTAAAGAAACCCA
*
29166046 GAATAAAGAAACCCAGAGTAAAGAAACCCA
1 GAATAAAGAAACCAAGAGTAAAGAAACCCA
29166076 AGATACGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.57, C:0.18, G:0.17, T:0.08
Consensus pattern (30 bp):
GAATAAAGAAACCAAGAGTAAAGAAACCCA
Found at i:29166055 original size:15 final size:15
Alignment explanation
Indices: 29166016--29166075 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
29166006 CAAGAAAACT
*
29166016 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
29166031 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
29166046 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
*
29166061 GAGTAAAGAAACCCA
1 GAATAAAGAAACCCA
29166076 AGATACGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.57, C:0.18, G:0.17, T:0.08
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:29169244 original size:50 final size:49
Alignment explanation
Indices: 29169077--29169300 Score: 315
Period size: 49 Copynumber: 4.5 Consensus size: 49
29169067 CTGGTACGCA
* * *
29169077 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
29169126 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
29169175 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
29169225 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTCGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
29169275 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
29169301 TGCGACCTCA
Statistics
Matches: 157, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
49 79 0.50
50 75 0.48
51 2 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:29169248 original size:99 final size:99
Alignment explanation
Indices: 29169069--29169307 Score: 329
Period size: 99 Copynumber: 2.4 Consensus size: 99
29169059 AAAGCTATCT
* * * ** *
29169069 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCC
29169134 TGCACTTAGTACTACACACGTGA-C-CAATTATCC
66 TGCACTTAGTACTACACACGTGATCACAATT-TCC
* * *
29169167 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTAGTAGC
* *
29169232 CTGCACTTAGTACTACACACGTGATCACAGTTTTC
65 CTGCACTTAGTACTACACACGTGATCACAATTTCC
* *
29169267 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
29169308 TCACAATAGA
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
98 36 0.29
99 43 0.35
100 40 0.33
101 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (99 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAATTTCC
Found at i:29173173 original size:40 final size:39
Alignment explanation
Indices: 29173128--29173257 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
29173118 CGGAACATAA
29173128 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
29173168 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
29173208 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
29173248 CCGGATATAA
1 CCGGATATAA
29173258 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:29173272 original size:40 final size:40
Alignment explanation
Indices: 29173144--29173295 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
29173134 ATAACCATGT
* * *
29173144 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
29173184 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
29173224 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
29173264 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
29173296 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:29173278 original size:80 final size:80
Alignment explanation
Indices: 29173144--29173293 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
29173134 ATAACCATGT
*
29173144 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
29173208 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
29173224 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
29173287 CCCGGAT
64 CCCGGAT
29173294 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:29175304 original size:43 final size:43
Alignment explanation
Indices: 29175240--29175322 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
29175230 TTGATATCTT
* *
29175240 AAAGTCCATGGTTGTACCATGGAAGTTAAGGAAGAATTGACGG
1 AAAGTCCATGGTTATAACATGGAAGTTAAGGAAGAATTGACGG
* * *
29175283 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGAAGTTAAGGAAGAATTGA
29175323 TGGTTAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.09
43 31 0.91
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (43 bp):
AAAGTCCATGGTTATAACATGGAAGTTAAGGAAGAATTGACGG
Found at i:29175520 original size:47 final size:47
Alignment explanation
Indices: 29175462--29175583 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
29175452 GAATTGGCAC
*
29175462 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAAAATGGCATTTGG
*
29175509 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAAAATGGCATTTGG
*
29175556 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATATCATGTAAGACCATG
29175584 CCAAGGTATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATATCATGTAAGACCATGTTTGGAAAATGGCATTTGG
Found at i:29175691 original size:55 final size:54
Alignment explanation
Indices: 29175562--29175758 Score: 245
Period size: 55 Copynumber: 3.6 Consensus size: 54
29175552 TTGGTAAGAT
* ** *
29175562 AAGGATATCATGTAAGACCATGCCAAGGTATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
29175616 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
29175671 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
29175724 AAGGATACCATGTAAGGCCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
29175759 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 41 0.33
55 42 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:29175770 original size:53 final size:54
Alignment explanation
Indices: 29175562--29175769 Score: 240
Period size: 53 Copynumber: 3.9 Consensus size: 54
29175552 TTGGTAAGAT
* ** *
29175562 AAGGATATCATGTAAGACCATGCCAAGGTATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGC
* * * * *
29175616 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTT-CTATAAGGC
* * * *
29175671 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGC
* * *
29175724 AAGGATACCATGTAAGGCCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTC
29175770 AAAAAGGAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
52 4 0.03
53 43 0.32
54 41 0.31
55 42 0.31
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGC
Found at i:29186015 original size:18 final size:18
Alignment explanation
Indices: 29185992--29186031 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
29185982 AAAGGGGGAA
*
29185992 GAAGTAGAAAATATGGAG
1 GAAGTAGAAAACATGGAG
29186010 GAAGTAGAAAACATGGAG
1 GAAGTAGAAAACATGGAG
29186028 GAAG
1 GAAG
29186032 AATTCTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.35, T:0.12
Consensus pattern (18 bp):
GAAGTAGAAAACATGGAG
Found at i:29186892 original size:29 final size:29
Alignment explanation
Indices: 29186860--29186917 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
29186850 GTAATTAAGA
*
29186860 TTAATGATTTTAATAAGATTTAAAATGAT
1 TTAATGATTTAAATAAGATTTAAAATGAT
* * *
29186889 TTAATTATTTAAATAATATTTAAACTGAT
1 TTAATGATTTAAATAAGATTTAAAATGAT
29186918 ATATTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (29 bp):
TTAATGATTTAAATAAGATTTAAAATGAT
Found at i:29186900 original size:28 final size:28
Alignment explanation
Indices: 29186866--29186926 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
29186856 AAGATTAATG
* *
29186866 ATTTTAATAAGATTTAAAATGATTTAATT
1 ATTTAAATAAGATTTAAAATGATAT-ATT
* *
29186895 ATTTAAATAATATTTAAACTGATATATT
1 ATTTAAATAAGATTTAAAATGATATATT
29186923 ATTT
1 ATTT
29186927 TGATCCTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (28 bp):
ATTTAAATAAGATTTAAAATGATATATT
Found at i:29187197 original size:11 final size:10
Alignment explanation
Indices: 29187175--29187213 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
29187165 AAAATTTTAA
29187175 TATTTTTATT
1 TATTTTTATT
29187185 TATTTTTACTT
1 TATTTTTA-TT
29187196 TATTATTTATT
1 TATT-TTTATT
29187207 TAATTTT
1 T-ATTTT
29187214 CAATTATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.31
11 11 0.42
12 7 0.27
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTTATT
Found at i:29187220 original size:22 final size:21
Alignment explanation
Indices: 29187167--29187222 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
29187157 AAAAATCTAA
29187167 AATTTTAA-TATT-TTTATTT
1 AATTTTAATTATTATTTATTT
* *
29187186 ATTTTTACTTTATTATTTATTT
1 AATTTTA-ATTATTATTTATTT
29187208 AATTTTCAATTATTA
1 AATTTT-AATTATTA
29187223 GAATTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.21
21 4 0.14
22 18 0.62
23 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (21 bp):
AATTTTAATTATTATTTATTT
Found at i:29187741 original size:21 final size:20
Alignment explanation
Indices: 29187686--29187757 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 20
29187676 ACCTTTTTTA
**
29187686 AATAGTATGGTAAAA-AA-T
1 AATAGTATTTTAAAATAATT
*
29187704 AATAGTAGTTT--AATAATT
1 AATAGTATTTTAAAATAATT
29187722 GAATAGT-TTTGTAAAATAATT
1 -AATAGTATTT-TAAAATAATT
29187743 AATAGTATTTTAAAA
1 AATAGTATTTTAAAA
29187758 CATAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 11 0.26
19 7 0.16
20 11 0.26
21 10 0.23
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (20 bp):
AATAGTATTTTAAAATAATT
Found at i:29187748 original size:20 final size:21
Alignment explanation
Indices: 29187715--29187757 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
29187705 ATAGTAGTTT
29187715 AATAATTGAATAGT-TTTGTAA
1 AATAATTGAATAGTATTT-TAA
29187736 AATAATT-AATAGTATTTTAA
1 AATAATTGAATAGTATTTTAA
29187756 AA
1 AA
29187758 CATAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (21 bp):
AATAATTGAATAGTATTTTAA
Found at i:29188845 original size:34 final size:34
Alignment explanation
Indices: 29188807--29188880 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
29188797 GCCGACCTTT
* * *
29188807 AAAAAAGGTTGGAATAAGAGGAAATAAATGACCC
1 AAAAAAGGTTGAAATAAGAGGAAATAAACGACAC
* *
29188841 AAAAAAGGTTGAAATAGGAGGAAATCAACGACAC
1 AAAAAAGGTTGAAATAAGAGGAAATAAACGACAC
29188875 AAAAAA
1 AAAAAA
29188881 AGGTCAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.57, C:0.09, G:0.22, T:0.12
Consensus pattern (34 bp):
AAAAAAGGTTGAAATAAGAGGAAATAAACGACAC
Found at i:29188891 original size:35 final size:34
Alignment explanation
Indices: 29188819--29188892 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
29188809 AAAAGGTTGG
* * **
29188819 AATAAGAGGAAATAAATGACCCAAAAAAGGTTGA
1 AATAAGAGGAAATAAACGACCAAAAAAAGGTCAA
* *
29188853 AATAGGAGGAAATCAACGACACAAAAAAAGGTCAA
1 AATAAGAGGAAATAAACGAC-CAAAAAAAGGTCAA
29188888 AATAA
1 AATAA
29188893 AGCATTCATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.58, C:0.11, G:0.19, T:0.12
Consensus pattern (34 bp):
AATAAGAGGAAATAAACGACCAAAAAAAGGTCAA
Found at i:29189074 original size:35 final size:35
Alignment explanation
Indices: 29189021--29189347 Score: 225
Period size: 35 Copynumber: 9.4 Consensus size: 35
29189011 AACTCGACTA
* * *
29189021 AAAAAATGTTAGGATAGACCCGTCTAAGGCAACCT
1 AAAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
* *
29189056 AAAAAAGGTTGGGGTAGACTCTTCTAAGGCAACCT
1 AAAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
* * * * **
29189091 AAAAGAGGTTAGGGTAGACCTGTTTAAAACAACC-
1 AAAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
* ** * **
29189125 ATAAAAATGTTGGCATAGACTCACCTAAGGCAACCT
1 A-AAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
* * *
29189161 -TAAAAGGTCGGGGTAGACCAGTCTAAGGCAACC-
1 AAAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
* * * *
29189194 ATAAAAAGGTCGGGATAGACCTGTTTAAGGCAACCTT
1 A-AAAAAGGTTGGGGTAGACCCGTCTAAGGCAACC-T
* * *
29189231 AAAAAA-GTTAGGGTGGACTCGTCTAAGGCAACCT
1 AAAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
* * * * *
29189265 GAAAAAGATTGGGGTACA-CCATCTAAGACGAA-CT
1 AAAAAAGGTTGGGGTAGACCCGTCTAAGGC-AACCT
* * * ** *
29189299 TAAAAAGATTGGGCTAGAGTCGTCTAAGGCAAACT
1 AAAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
*
29189334 TAAAAAGGTTGGGG
1 AAAAAAGGTTGGGG
29189348 AGGTGGGTTG
Statistics
Matches: 221, Mismatches: 61, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
34 58 0.26
35 157 0.71
36 5 0.02
37 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (35 bp):
AAAAAAGGTTGGGGTAGACCCGTCTAAGGCAACCT
Found at i:29189290 original size:104 final size:103
Alignment explanation
Indices: 29189021--29189291 Score: 314
Period size: 104 Copynumber: 2.6 Consensus size: 103
29189011 AACTCGACTA
* *
29189021 AAAAAATGTTAGGATAGACCCGTCTAAGGCAACCTAAAAAAGGTTGGGGTAGACTCTTCTAAGGC
1 AAAAAA-GTTAGGATAGACTCGTCTAAGGCAACCT-AAAAAGGTTGGGGTAGAC-CATCTAAGGC
29189086 AACCTAAAAGAGGTTAGGGTAGACCTGTTTAAAACAACCAT
63 AACCTAAAAGAGGTTAGGGTAGACCTGTTTAAAACAACCAT
* ** * *
29189127 AAAAATGTT-GGCATAGACTCACCTAAGGCAACCTTAAAAGGTCGGGGTAGACCAGTCTAAGGCA
1 AAAAAAGTTAGG-ATAGACTCGTCTAAGGCAACCTAAAAAGGTTGGGGTAGACCA-TCTAAGGCA
* ** *
29189191 ACCATAAAA-AGG-TCGGGATAGACCTGTTTAAGGCAACCTT
64 ACC-TAAAAGAGGTTAGGG-TAGACCTGTTTAAAACAACCAT
* * * *
29189231 AAAAAAGTTAGGGTGGACTCGTCTAAGGCAACCTGAAAAAGATTGGGGTACACCATCTAAG
1 AAAAAAGTTAGGATAGACTCGTCTAAGGCAACCT-AAAAAGGTTGGGGTAGACCATCTAAG
29189292 ACGAACTTAA
Statistics
Matches: 139, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
103 5 0.04
104 84 0.60
105 45 0.32
106 5 0.04
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (103 bp):
AAAAAAGTTAGGATAGACTCGTCTAAGGCAACCTAAAAAGGTTGGGGTAGACCATCTAAGGCAAC
CTAAAAGAGGTTAGGGTAGACCTGTTTAAAACAACCAT
Found at i:29189304 original size:34 final size:35
Alignment explanation
Indices: 29189252--29189347 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 35
29189242 GGTGGACTCG
* * *
29189252 TCTAAGGCAACCTGAAAAAGATTGGGGTACA-CCA
1 TCTAAGACAAACTTAAAAAGATTGGGGTACAGCCA
* * * * *
29189286 TCTAAGACGAACTTAAAAAGATTGGGCTAGAGTCG
1 TCTAAGACAAACTTAAAAAGATTGGGGTACAGCCA
* *
29189321 TCTAAGGCAAACTTAAAAAGGTTGGGG
1 TCTAAGACAAACTTAAAAAGATTGGGG
29189348 AGGTGGGTTG
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
34 25 0.51
35 24 0.49
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (35 bp):
TCTAAGACAAACTTAAAAAGATTGGGGTACAGCCA
Found at i:29189305 original size:139 final size:137
Alignment explanation
Indices: 29189035--29189342 Score: 288
Period size: 139 Copynumber: 2.2 Consensus size: 137
29189025 AATGTTAGGA
* * *
29189035 TAGACCCGTCTAAGGCAACCTAAAAAAGGTTGGGGTAGACTCTTCTAAGGCAACCTAAAAGAGGT
1 TAGA-CCGTCTAAGGCAACCT-AAAAAGGTCGGGATAGACTCTTCTAAGGCAACCTAAAAGAAGT
* * *
29189100 TAGGGTAGACCTGTTTAAAACAACCATAAAAATGTTGGCATAGACTCACCTAAGGCAACCTTAAA
64 TAGGGTAGACCTGTCTAAAACAACCATAAAAATGTTGGCATACACTCACCTAAGACAACCTTAAA
* *
29189165 AGGTCGGGG
129 AGATCGGGC
*
29189174 TAGACCAGTCTAAGGCAACCATAAAAAGGTCGGGATAGAC-CTGTTTAAGGCAACCTTAAAA-AA
1 TAGACC-GTCTAAGGCAACC-TAAAAAGGTCGGGATAGACTCT-TCTAAGGCAACC-TAAAAGAA
* ** ** *
29189237 GTTAGGGTGGA-CTCGTCTAAGGCAACC-TGAAAAA-GATTGGGGTACAC-CATCTAAGACGAA-
62 GTTAGGGTAGACCT-GTCTAAAACAACCAT-AAAAATG-TTGGCATACACTCACCTAAGAC-AAC
*
29189297 CTTAAAAAGATTGGGC
123 CTT-AAAAGATCGGGC
* *
29189313 TAGAGTCGTCTAAGGCAAACTTAAAAAGGT
1 TAGA-CCGTCTAAGGC-AACCTAAAAAGGT
29189343 TGGGGAGGTG
Statistics
Matches: 140, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
138 19 0.14
139 111 0.79
140 10 0.07
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (137 bp):
TAGACCGTCTAAGGCAACCTAAAAAGGTCGGGATAGACTCTTCTAAGGCAACCTAAAAGAAGTTA
GGGTAGACCTGTCTAAAACAACCATAAAAATGTTGGCATACACTCACCTAAGACAACCTTAAAAG
ATCGGGC
Found at i:29190232 original size:139 final size:139
Alignment explanation
Indices: 29189921--29190334 Score: 517
Period size: 139 Copynumber: 3.0 Consensus size: 139
29189911 AGAAGTCGTT
* * * * * *
29189921 ATAGTGTTGAACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATACATTTCTCAACCCCTTA
1 ATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC-CCA-CCCTTA
* * * * * **
29189986 TAAAAAGAGTTGGCCAAAATGTATGTTGGCAAG-CCTATCCCAAGACTTAGGAATGTGTTGGCCC
64 TACAAAGAGTTGGCCAAAATGTATGTCGGCAAGTCC-ATTCCAACACTTAGGAAAGTGTCAGCCC
29190050 AAAAGTGTCGAC
128 AAAAGTGTCGAC
* * * *
29190062 ATAGTGTTGGAAAAAGTCGACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAGCCATTAT
1 ATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCA-CCCTTAT
* * *
29190127 ACAAAGAGTTGGCCAAAGTGTATGTCGACAAGTCCATTCCAACACTTAGGAAAGTG-CAACCCAA
65 ACAAAGAGTTGGCCAAAATGTATGTCGGCAAGTCCATTCCAACACTTAGGAAAGTGTCAGCCCAA
* *
29190191 AAGTGTTGGC
130 AAGTGTCGAC
*
29190201 ATAGTGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCTACCCTTAT
1 ATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCC-ACCCTTAT
* * * * *
29190266 ACAAAGAATTGACCAAAACGTATATCGGCAAGTCTATTCCAACACTTAGGAAAGTGTCAGCCCAA
65 ACAAAGAGTTGGCCAAAATGTATGTCGGCAAGTCCATTCCAACACTTAGGAAAGTGTCAGCCCAA
29190331 AAGT
130 AAGT
29190335 ATCGTCTTAG
Statistics
Matches: 234, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
139 120 0.51
140 66 0.28
141 48 0.21
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (139 bp):
ATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCACCCTTATA
CAAAGAGTTGGCCAAAATGTATGTCGGCAAGTCCATTCCAACACTTAGGAAAGTGTCAGCCCAAA
AGTGTCGAC
Found at i:29195666 original size:12 final size:13
Alignment explanation
Indices: 29195649--29195677 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29195639 CCTTCATACT
29195649 CAATAAAA-TTCC
1 CAATAAAATTTCC
29195661 CAATAAAATTTCC
1 CAATAAAATTTCC
29195674 CAAT
1 CAAT
29195678 TGCATCGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (13 bp):
CAATAAAATTTCC
Found at i:29199149 original size:40 final size:40
Alignment explanation
Indices: 29199106--29199292 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
29199096 ATAATCACAT
** * *
29199106 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTC
* * *
29199146 GCACAAATGCCTTCGGGTATTAGCTCGGATTTAACAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTC
* *
29199186 GCACGAATGCCTTTGGGTCTTAGCTCGGATTTAACAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTC
* * * *
29199226 GCACGAATGCCTTCGGGTCTTAGTCCGGATGTAGTC-ACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTA-ACAACTC
*
29199266 GCAC-AATTGCCTTCGGGTCTTAACCCG
1 GCACGAA-TGCCTTCGGGTCTTAGCCCG
29199293 AATATAATTA
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 124 0.98
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTC
Found at i:29199328 original size:120 final size:120
Alignment explanation
Indices: 29199106--29199329 Score: 256
Period size: 120 Copynumber: 1.9 Consensus size: 120
29199096 ATAATCACAT
* * *
29199106 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
* * * * *
29199171 CGGATTTAACAACTCGCACGAATGCCTTTGGGTCTTAGCTCGGATTTAACAACTC
66 CGAATATAACAACTCGCACAAATGCCTTCGGGACTTAGCTCGGATTTAACAACTC
* * * *
29199226 GCACGAATGCCTTCGGGTCTTAGTCCGGAT-GTA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAATGCCTTCGGGTATTAA
** * *
29199289 CCCGAATATAATTAC-CAGCATAAATGTCTTCGGGACTTAGC
64 CCCGAATATAACAACTC-GCACAAATGCCTTCGGGACTTAGC
29199330 CCGAATATCA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
118 1 0.01
119 3 0.04
120 81 0.95
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (120 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGAATATAACAACTCGCACAAATGCCTTCGGGACTTAGCTCGGATTTAACAACTC
Found at i:29206325 original size:40 final size:40
Alignment explanation
Indices: 29206280--29206422 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
29206270 CCACATGCAA
*
29206280 GAATGCCTTCGGGTATTAGCCCGAATTTAACAACTCGCAC
1 GAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTCGCAC
* *
29206320 GAATGCCTTCGGGTCTTAGCCCGGATTTAACAATTCGCAC
1 GAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTCGCAC
* * * * *
29206360 GAATGCCTTCGGGTCTTAGCTCGGATGTAGTC-ACTAGCAC
1 GAATGCCTTCGGGTCTTAGCCCGAATTTA-ACAACTCGCAC
*
29206400 -AATTGCCTTCGGGTCTTAACCCG
1 GAA-TGCCTTCGGGTCTTAGCCCG
29206423 GATATAATTA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 88 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTCGCAC
Found at i:29214817 original size:7 final size:7
Alignment explanation
Indices: 29214805--29214829 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29214795 GTTGTCTTCT
29214805 TGTTTGA
1 TGTTTGA
29214812 TGTTTGA
1 TGTTTGA
29214819 TGTTTGA
1 TGTTTGA
29214826 TGTT
1 TGTT
29214830 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:29215756 original size:27 final size:28
Alignment explanation
Indices: 29215700--29215769 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
29215690 AAATTTGTAC
*
29215700 AGCACTAAGTATGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
29215728 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29215755 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29215770 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29230131 original size:2 final size:2
Alignment explanation
Indices: 29230126--29230150 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29230116 CACACATAGG
29230126 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
29230151 GCCTTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29230877 original size:40 final size:40
Alignment explanation
Indices: 29230840--29230985 Score: 206
Period size: 40 Copynumber: 3.6 Consensus size: 40
29230830 TGAGGAATGT
* * *
29230840 TATCCAGGCTTAAAGACCTGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
*
29230880 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAA-TG
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCATGCTGGAATTG
*
29230919 TTATCCGAGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
1 -TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
*
29230960 TATCTGGGCTTAAAGACCCGCAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT
29230986 ACGAGTTGGT
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
39 3 0.03
40 88 0.94
41 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
Found at i:29230969 original size:80 final size:80
Alignment explanation
Indices: 29230834--29230986 Score: 263
Period size: 80 Copynumber: 1.9 Consensus size: 80
29230824 GATACTTGAG
* *
29230834 GAATGTTATCCAGGCTTAAAGACCTGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCC
1 GAATGTTATCCAGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGGCTTAAAGACCC
29230899 GCAGGCTATATGCTA
66 GCAGGCTATATGCTA
*
29230914 GAATGTTATCC-GAGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCTGGGCTTAAAGACC
1 GAATGTTATCCAG-GCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGGCTTAAAGACC
29230978 CGCAGGCTA
65 CGCAGGCTA
29230987 CGAGTTGGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.99
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
GAATGTTATCCAGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGGCTTAAAGACCC
GCAGGCTATATGCTA
Found at i:29234493 original size:50 final size:50
Alignment explanation
Indices: 29234315--29234808 Score: 419
Period size: 50 Copynumber: 9.8 Consensus size: 50
29234305 ATTGTGAATA
* * * *
29234315 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCATACTGTTAA-GT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTAAGGT
* * * * * * * ** *
29234365 CGCATGTGTAGTACTAAGTGTAGGCTACAATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG-GTAAGGT
* *
29234416 CATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTAAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAAGGT
* * *
29234466 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAA-GT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTAAGGT
* * * * * ** *
29234516 CGA-ATGTATAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGAT
1 C-ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG-GTAAGGT
* *
29234567 CACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAAGGT
* * * * * *
29234617 CACTTGTGTAGTACTAAGTGCAGGGTACTACATGTA-CTGGATTGT-TGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTAAGGT
* * * * * ** *
29234666 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG-GTAAGGT
* *
29234717 CACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAAGGT
* *
29234767 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
29234809 AGCTTCGGAT
Statistics
Matches: 356, Mismatches: 71, Indels: 34
0.77 0.15 0.07
Matches are distributed among these distances:
49 40 0.11
50 202 0.57
51 114 0.32
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAAGGT
Found at i:29234596 original size:151 final size:151
Alignment explanation
Indices: 29234315--29234796 Score: 804
Period size: 151 Copynumber: 3.2 Consensus size: 151
29234305 ATTGTGAATA
*
29234315 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
* * * * *
29234380 AAGTGTAGGCTACAATGCGTACTCAATGACTTCGATCATGTGTGTAGTACTAAGTGTAGGCTACT
66 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGCAGGGTACT
*
29234445 ACGTGTATCAGATGGTAAGGT
131 ACGTGTATCAGATGGTGAGGT
* *
29234466 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGAATGTATAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
29234531 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGCAGGGTACT
66 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGCAGGGTACT
29234596 ACGTGTATCAGATGGTGAGGT
131 ACGTGTATCAGATGGTGAGGT
* * * *** * *
29234617 CACTTGTGTAGTACTAAGTGCAGGGTACTACATGTACTGGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
29234681 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGCAGGGTACT
66 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGCAGGGTACT
29234746 ACGTGTATCAGATGGTGAGGT
131 ACGTGTATCAGATGGTGAGGT
29234767 CACGTGTGTAGTACTAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
29234797 TGCGTATCAG
Statistics
Matches: 310, Mismatches: 21, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
150 129 0.42
151 181 0.58
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (151 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGCAGGGTACT
ACGTGTATCAGATGGTGAGGT
Found at i:29234815 original size:101 final size:99
Alignment explanation
Indices: 29234315--29234815 Score: 476
Period size: 101 Copynumber: 5.0 Consensus size: 99
29234305 ATTGTGAATA
* * * * * *
29234315 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCATACT-GTTAAGTCGCATGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTTAGGTCACGTGTGTAGTAC
* *
29234379 TAAGTGTAGGCTACAATGCGTACTCAATGACTTCGAT
65 TAAGTGCAGGCTACTATGCGTA-TCAATG-CTTCGAT
* * *
29234416 CATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTAAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* * * *
29234481 AAGTGCAGGCTACTACGTGTACCATACTG-TT-AAGT
66 AAGTGCAGGCTACTATGCGTATCA-A-TGCTTCGA-T
* * * * * * *
29234516 CGA-ATGTATAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACGTGTGTAGT
1 C-ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG-GTTAGGTCACGTGTGTAGT
* * * * ** *
29234579 ACTAAGTGCAGGGTACTACGTGTATCAGATGGTGAGGT
63 ACTAAGTGCAGGCTACTATGCGTATCA-ATGCTTCGAT
* * * * * * *
29234617 CACTTGTGTAGTACTAAGTGCAGGGTACTACATGTA-CTGGATTGTT-GGTCGCATGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCACGTGTGTAGTAC
29234680 TAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
65 TAAGTGCAGGCTACTATGCGTA-TCAATG-CTTCGAT
* *
29234717 CACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
29234782 AAGTGCAGGCTACTATGCGTATCAGATAGCTTCG
66 AAGTGCAGGCTACTATGCGTATCA-AT-GCTTCG
29234816 GATATAAGTG
Statistics
Matches: 326, Mismatches: 56, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
99 38 0.12
100 91 0.28
101 194 0.60
102 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTATGCGTATCAATGCTTCGAT
Found at i:29242138 original size:50 final size:50
Alignment explanation
Indices: 29242059--29242439 Score: 380
Period size: 50 Copynumber: 7.6 Consensus size: 50
29242049 ATTGTGAATA
29242059 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
* * * * * **
29242109 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAATGACT-TCGA-T
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGTTAAGT
* * * * *
29242160 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGA-TGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-GTTAAGT
29242210 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
* * * * *
29242260 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCAA-T
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGTTAAGT
* * * * *
29242311 CACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-GTTAAGT
* * * * *
29242361 CACGTGTGTAGTACTAATTGCAAGCTACTACGTGTACCAGATTGTT-GGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
* *
29242410 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
29242440 TGCGTATCAA
Statistics
Matches: 273, Mismatches: 44, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 34 0.12
50 151 0.55
51 69 0.25
52 9 0.03
53 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
Found at i:29242235 original size:101 final size:99
Alignment explanation
Indices: 29242059--29242449 Score: 371
Period size: 101 Copynumber: 3.9 Consensus size: 99
29242049 ATTGTGAATA
* * * *
29242059 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTAGGTCACATGTGTAGTACT
* * *
29242124 AAGTGTAGGCTACTATGCGTACTCAATGACTTCGAT
65 AAGTGCAGGCTACTACGCGTA-TCAATGACTTAGAT
* * *
29242160 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGT-AGGTCACATGTGTAGTACT
* *
29242225 AAGTGCAGGCTACTACGTGTA-CCAT-ACTGTTA-AGT
65 AAGTGCAGGCTACTACGCGTATCAATGAC--TTAGA-T
* * * * * * *
29242260 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCA-ATCACGTGTGTAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATG--GT-AGGTCACATGTGTAGT
* * * * *
29242323 ATTAAGTGCAGGCTACTACGTGTATCAGATG-GTGAGGT
62 ACTAAGTGCAGGCTACTACGCGTATCA-ATGACTTAGAT
* * * * *
29242361 CACGTGTGTAGTACTAATTGCAAGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTAGGTCACATGTGTAGTACTA
*
29242426 AGTGCAGGCTACTATGCGTATCAA
66 AGTGCAGGCTACTACGCGTATCAA
29242450 ATAGCTTCAG
Statistics
Matches: 236, Mismatches: 41, Indels: 29
0.77 0.13 0.09
Matches are distributed among these distances:
98 3 0.01
99 40 0.17
100 42 0.18
101 146 0.62
102 3 0.01
103 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTAGGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGCGTATCAATGACTTAGAT
Found at i:29242336 original size:151 final size:151
Alignment explanation
Indices: 29242059--29242449 Score: 687
Period size: 151 Copynumber: 2.6 Consensus size: 151
29242049 ATTGTGAATA
29242059 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
* * *
29242124 AAGTGTAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACT
66 AAGTGCAGGCTACTATGCGTACTCAATGACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACT
29242189 ACGTGTATCAGATGGTGAGGT
131 ACGTGTATCAGATGGTGAGGT
29242210 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
*
29242275 AAGTGCAGGCTACTATGCGTACTCAATGACTTCAATCACGTGTGTAGTATTAAGTGCAGGCTACT
66 AAGTGCAGGCTACTATGCGTACTCAATGACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACT
29242340 ACGTGTATCAGATGGTGAGGT
131 ACGTGTATCAGATGGTGAGGT
* * * * *
29242361 CACGTGTGTAGTACTAATTGCAAGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
29242425 AAGTGCAGGCTACTATGCGTA-TCAA
66 AAGTGCAGGCTACTATGCGTACTCAA
29242450 ATAGCTTCAG
Statistics
Matches: 231, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
149 4 0.02
150 38 0.16
151 189 0.82
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTCAATGACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACT
ACGTGTATCAGATGGTGAGGT
Found at i:29247397 original size:39 final size:39
Alignment explanation
Indices: 29247324--29247514 Score: 301
Period size: 39 Copynumber: 4.9 Consensus size: 39
29247314 TATGGTAACC
* * * *
29247324 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
29247364 CGCACAATTGCCTTCGGGCTTAACCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
* *
29247403 TGCACAATTGCCTTCGGGCTTAGCCCGGATACCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
29247442 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
29247481 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
29247515 CTTGAACATT
Statistics
Matches: 141, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 124 0.88
40 17 0.12
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:29264366 original size:26 final size:26
Alignment explanation
Indices: 29264337--29264389 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
29264327 TTAAAATGCA
29264337 AAACATGCAAATGATTAAGCTTTTAT
1 AAACATGCAAATGATTAAGCTTTTAT
29264363 AAACATGCAAATGATTAAGCTTTTAT
1 AAACATGCAAATGATTAAGCTTTTAT
29264389 A
1 A
29264390 TCTTTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (26 bp):
AAACATGCAAATGATTAAGCTTTTAT
Found at i:29268267 original size:15 final size:15
Alignment explanation
Indices: 29268243--29268286 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
29268233 TATGATATAG
29268243 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
* *
29268258 TATTTTGGATTCCTC
1 TATCTTGGATTTCTC
*
29268273 TATCTTGGTTTTCT
1 TATCTTGGATTTCT
29268287 TGTTAGCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:29273996 original size:26 final size:26
Alignment explanation
Indices: 29273967--29274018 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
29273957 GTATAATTTC
29273967 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
29273993 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
29274019 AATACCTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Found at i:29274210 original size:25 final size:25
Alignment explanation
Indices: 29274160--29274324 Score: 116
Period size: 25 Copynumber: 6.6 Consensus size: 25
29274150 GTACATGTAT
* *
29274160 GCTCATATGAGCTGTA-AACGATAA
1 GCTCATATGAGCTGAATAACGGTAA
* *
29274184 GCTCCTTTGAGCTGAATAACGGTAA
1 GCTCATATGAGCTGAATAACGGTAA
* * *
29274209 GCTCATATAAGTTGAATAATGGTAA
1 GCTCATATGAGCTGAATAACGGTAA
** * ** *
29274234 GCTCATACAAGCTAAATAGTGGCAA
1 GCTCATATGAGCTGAATAACGGTAA
* ** * *
29274259 GCTCCTCCGAGCTAAATAACAGTAA
1 GCTCATATGAGCTGAATAACGGTAA
* * **
29274284 GCTCATACGAACTGAATAATAGTAA
1 GCTCATATGAGCTGAATAACGGTAA
*
29274309 GCTCATAAGAGCTGAA
1 GCTCATATGAGCTGAA
29274325 ATGGGTAACC
Statistics
Matches: 112, Mismatches: 28, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
24 13 0.12
25 99 0.88
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
GCTCATATGAGCTGAATAACGGTAA
Found at i:29276907 original size:40 final size:40
Alignment explanation
Indices: 29276825--29276991 Score: 146
Period size: 40 Copynumber: 4.2 Consensus size: 40
29276815 AAATTGAATG
* * * *
29276825 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-G-AATTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGA-CT
* * * *
29276864 ATATCTGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
29276904 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
29276944 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
29276984 ATATCCGG
1 ATATCCGG
29276992 TTATATTCCG
Statistics
Matches: 104, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
39 16 0.15
40 86 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:29282807 original size:40 final size:40
Alignment explanation
Indices: 29282742--29282909 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
29282732 TGGAATACAA
* * * * *
29282742 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTCACACAAATGCCTTCGGGTATTAGC
29282782 CCGGATATAACGACTCACACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTCACACAAATGCCTTCGGGTATTAGC
* ** *
29282822 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTCACACAAATGCCTTCGGGTATTAGC
* * *
29282862 CCGGATA-AA-GTCACT-AGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACG--ACTCA-CACAAATGCCTTCGGGTATTAGC
29282902 CCGGATAT
1 CCGGATAT
29282910 CATTCAATTG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 107 0.98
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACGACTCACACAAATGCCTTCGGGTATTAGC
Found at i:29282883 original size:80 final size:80
Alignment explanation
Indices: 29282742--29282909 Score: 225
Period size: 80 Copynumber: 2.1 Consensus size: 80
29282732 TGGAATACAA
* *
29282742 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCACACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTCACACAAATG
*
29282807 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
**
29282822 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACT-AGCACAA
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTCA-CACAA
* *
29282884 TTGCCTTCGGGTCTTAAC
63 ATGCCTTCGGGTATTAAC
29282902 CCGGATAT
1 CCGGATAT
29282910 CATTCAATTG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 3 0.04
80 74 0.95
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTCACACAAATG
CCTTCGGGTATTAAC
Found at i:29288008 original size:42 final size:43
Alignment explanation
Indices: 29287962--29288059 Score: 110
Period size: 44 Copynumber: 2.3 Consensus size: 43
29287952 ATCCAGAGAG
**
29287962 GGTCTTATACGAAAT-T-ATTTACGATGCAAATATCCCAGACAT
1 GGTCTTATACGAAATCTCAAAT-CGATGCAAATATCCCAGACAT
** *
29288004 GGTCTTATACGTAAATCTCAAATCGATGCTGATGTCCCAGACAT
1 GGTCTTATACG-AAATCTCAAATCGATGCAAATATCCCAGACAT
*
29288048 GGTCTTACACGA
1 GGTCTTATACGA
29288060 TATCACTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
42 11 0.23
43 5 0.11
44 29 0.62
45 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (43 bp):
GGTCTTATACGAAATCTCAAATCGATGCAAATATCCCAGACAT
Found at i:29295336 original size:40 final size:40
Alignment explanation
Indices: 29295245--29295417 Score: 170
Period size: 40 Copynumber: 4.3 Consensus size: 40
29295235 GGTATCCGGC
* * *
29295245 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
* * *
29295286 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAAT-CGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGT
*
29295326 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* * * * * * *
29295366 TAATTCTCGAAGGCAATTGTGTGAATCACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
29295406 TATGTCCCGAAG
1 TAAGTCCCGAAG
29295418 ACAATCGAGC
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 5 0.05
40 79 0.72
41 26 0.24
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:29295413 original size:80 final size:81
Alignment explanation
Indices: 29295242--29295417 Score: 212
Period size: 80 Copynumber: 2.2 Consensus size: 81
29295232 AATGGTATCC
* *
29295242 GGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTG
* * *
29295307 CGAGTTACCAAAATCG
66 CGAATCACCAAAACCG
* * * *
29295323 GGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCTCGAAGGCAATTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGT
* * *
29295386 GTGAATCACTATAACCG
65 GCGAATCACCAAAACCG
*
29295403 GGCTATGTCCCGAAG
1 GGCTAAGTCCCGAAG
29295418 ACAATCGAGC
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 56 0.70
81 23 0.29
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTG
CGAATCACCAAAACCG
Found at i:29295430 original size:80 final size:80
Alignment explanation
Indices: 29295273--29295457 Score: 176
Period size: 80 Copynumber: 2.3 Consensus size: 80
29295263 GTGCTAAGTG
* * * * *
29295273 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAATCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
29295338 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * * * *
29295353 ACTAAATCCGGG-CTAATTCTCGAAGGCAATTGTGTGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
29295417 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
29295433 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
29295458 TACGTGATTG
Statistics
Matches: 83, Mismatches: 20, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
79 7 0.08
80 76 0.92
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTT
Found at i:29296841 original size:28 final size:28
Alignment explanation
Indices: 29296801--29296856 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
29296791 TTCGACTCCG
29296801 GTAACGGACTCGGGTACGGGGTGTTACA
1 GTAACGGACTCGGGTACGGGGTGTTACA
29296829 GTAACGGACTCGGGTACGGGGTGTTACA
1 GTAACGGACTCGGGTACGGGGTGTTACA
29296857 ATTTTATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.21
Consensus pattern (28 bp):
GTAACGGACTCGGGTACGGGGTGTTACA
Found at i:29302241 original size:40 final size:40
Alignment explanation
Indices: 29302196--29302325 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
29302186 CGGAATATAA
29302196 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
29302236 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
29302276 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
29302316 CCGGATATAA
1 CCGGATATAA
29302326 ATTTCCAGCA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:29302354 original size:80 final size:80
Alignment explanation
Indices: 29302212--29302363 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
29302202 ATAATCACGT
* * *
29302212 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
29302277 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* ** * * *
29302292 GCACAATTGCCTTCGGGTCTTAACCCGGATATAAATTTC-CAGCA-TAATGTCTTTGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATA-AAATAACTC-GCACGAATGCCTTCGGGGCTTAG
29302355 CCCGGATAT
64 CCCGGATAT
29302364 CATTCAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 54 0.89
81 7 0.11
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:29308461 original size:46 final size:46
Alignment explanation
Indices: 29308394--29308522 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
29308384 TGTAACCCGC
* * * *
29308394 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
29308440 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
29308486 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29308523 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:29308541 original size:46 final size:45
Alignment explanation
Indices: 29308402--29308541 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
29308392 GCCCATAAGC
* ** * *
29308402 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
29308448 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
29308494 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
29308540 GA
1 GA
29308542 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:29311901 original size:24 final size:24
Alignment explanation
Indices: 29311869--29311923 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
29311859 GTTAGGACAT
*
29311869 ATTAAATTCGTCCACCAGCAACTC
1 ATTAAATTCGTCAACCAGCAACTC
*
29311893 ATTAAATTCGTCAACCAGCAGCTC
1 ATTAAATTCGTCAACCAGCAACTC
29311917 ATTAAAT
1 ATTAAAT
29311924 CTGTCCAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (24 bp):
ATTAAATTCGTCAACCAGCAACTC
Found at i:29312017 original size:17 final size:18
Alignment explanation
Indices: 29311997--29312031 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
29311987 TGTACACACA
29311997 AATTAATTTAG-CACATT
1 AATTAATTTAGACACATT
29312014 AATTAATTTAGACACATT
1 AATTAATTTAGACACATT
29312032 TAAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (18 bp):
AATTAATTTAGACACATT
Found at i:29312300 original size:9 final size:9
Alignment explanation
Indices: 29312286--29312310 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
29312276 TAATTGTTAA
29312286 AACTAATTT
1 AACTAATTT
29312295 AACTAATTT
1 AACTAATTT
29312304 AACTAAT
1 AACTAAT
29312311 CAGCAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (9 bp):
AACTAATTT
Found at i:29313518 original size:19 final size:19
Alignment explanation
Indices: 29313494--29313533 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29313484 AGCTCCCATG
*
29313494 TAGCTCCATACCAGCTCAT
1 TAGCTCCAGACCAGCTCAT
**
29313513 TAGCTCGGGACCAGCTCAT
1 TAGCTCCAGACCAGCTCAT
29313532 TA
1 TA
29313534 TCAGCTCCGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (19 bp):
TAGCTCCAGACCAGCTCAT
Found at i:29313756 original size:14 final size:14
Alignment explanation
Indices: 29313709--29313756 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
29313699 GTACGAATGG
*
29313709 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
29313723 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
29313737 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
29313751 ATTGGT
1 AATGGT
29313757 CGTTTAGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:29320263 original size:9 final size:10
Alignment explanation
Indices: 29320251--29320275 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29320241 TTTTTTTCGA
29320251 TTTTTTTATT
1 TTTTTTTATT
29320261 TTTTTTTATT
1 TTTTTTTATT
29320271 TTTTT
1 TTTTT
29320276 AACTTGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:29320264 original size:18 final size:18
Alignment explanation
Indices: 29320241--29320276 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29320231 TAAATCACTT
29320241 TTTTTTTCGATTTTTTTA
1 TTTTTTTCGATTTTTTTA
**
29320259 TTTTTTTTTATTTTTTTA
1 TTTTTTTCGATTTTTTTA
29320277 ACTTGTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTTTCGATTTTTTTA
Found at i:29320671 original size:14 final size:14
Alignment explanation
Indices: 29320624--29320671 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
29320614 GTACGAATGG
*
29320624 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
29320638 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
29320652 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
29320666 ATTGGT
1 AATGGT
29320672 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:29322754 original size:14 final size:14
Alignment explanation
Indices: 29322735--29322779 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
29322725 AACTCATCTT
*
29322735 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
29322749 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
29322762 AATTTAATTTAATG
1 AGTTTAATTTAATG
29322776 AGTT
1 AGTT
29322780 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:29323792 original size:29 final size:29
Alignment explanation
Indices: 29323759--29323818 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
29323749 ATAACCAAAC
* *
29323759 CTACAAAAACTTTATATCCATAAAGCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
29323788 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
29323817 CT
1 CT
29323819 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:29324483 original size:24 final size:24
Alignment explanation
Indices: 29324456--29324510 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
29324446 GCCTGGATAG
*
29324456 ATTTAATGAGCTACTGGTTGACGA
1 ATTTAATGAGCTACTGGTGGACGA
*
29324480 ATTTAATGAGCTGCTGGTGGACGA
1 ATTTAATGAGCTACTGGTGGACGA
29324504 ATTTAAT
1 ATTTAAT
29324511 ATGTCCTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (24 bp):
ATTTAATGAGCTACTGGTGGACGA
Found at i:29326700 original size:17 final size:17
Alignment explanation
Indices: 29326678--29326720 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
29326668 TTTTTCAATT
29326678 TTCTTTTTCTTCTCACA
1 TTCTTTTTCTTCTCACA
29326695 TTCTTTTTCTTCTCACA
1 TTCTTTTTCTTCTCACA
29326712 TTCTTTTTC
1 TTCTTTTTC
29326721 ACTCTCGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.28, G:0.00, T:0.63
Consensus pattern (17 bp):
TTCTTTTTCTTCTCACA
Found at i:29326844 original size:18 final size:17
Alignment explanation
Indices: 29326811--29326846 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
29326801 TTTCACACTC
*
29326811 TTTTTCTTTCATTTCTT
1 TTTTTCTTTCAATTCTT
29326828 TTTTTCTTTCAAATTCTT
1 TTTTTCTTTC-AATTCTT
29326846 T
1 T
29326847 CTCACATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTCTTTCAATTCTT
Found at i:29328710 original size:6 final size:6
Alignment explanation
Indices: 29328699--29328734 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
29328689 ACTAAATTGA
29328699 ATTTTT ATTTTT ATTTTT A-TTTT A-TTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
29328735 CAGCATTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:29328721 original size:11 final size:11
Alignment explanation
Indices: 29328701--29328734 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
29328691 TAAATTGAAT
29328701 TTTTATTTTTA
1 TTTTATTTTTA
29328712 TTTT-TATTTTA
1 TTTTAT-TTTTA
29328723 TTTTATTTTTA
1 TTTTATTTTTA
29328734 T
1 T
29328735 CAGCATTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.05
11 19 0.90
12 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:29328987 original size:63 final size:65
Alignment explanation
Indices: 29328853--29328987 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 65
29328843 TATGGACTTG
*
29328853 ATTTAATAGATGCTTCTTTAAATAAACTAGTTACTAGGATAATTTAGTGATGCATGAGTTAAAGT
1 ATTTAATAGATGCTTCTTTAAATAAACTAGTTACTAGGATAA--TAGTGATGCATAAGTTAAAGT
29328918 TC
64 TC
* * *
29328920 ATTTAATA-ATGCTTCTATTAATTAAACTAGTTTCT-GGATTAA-A-TGATGCATAAGTGT-TAG
1 ATTTAATAGATGCTTCT-TTAAATAAACTAGTTACTAGGA-TAATAGTGATGCATAAGT-TAAAG
29328980 TTC
63 TTC
29328983 ATTTA
1 ATTTA
29328988 TTTAAGTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
63 21 0.34
64 2 0.03
66 11 0.18
67 27 0.44
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (65 bp):
ATTTAATAGATGCTTCTTTAAATAAACTAGTTACTAGGATAATAGTGATGCATAAGTTAAAGTTC
Found at i:29330116 original size:10 final size:10
Alignment explanation
Indices: 29330101--29330169 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
29330091 AGTAAGTTTC
29330101 AAAAAAAATT
1 AAAAAAAATT
**
29330111 AAAAAAAAAC
1 AAAAAAAATT
* *
29330121 GAAAAAAATC
1 AAAAAAAATT
29330131 AAAAAAAAGTT
1 AAAAAAAA-TT
29330142 --AAAAAATT
1 AAAAAAAATT
*
29330150 AAAAATAATT
1 AAAAAAAATT
* *
29330160 GAAAATAATT
1 AAAAAAAATT
29330170 TTGAACATTG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 2 0.04
9 6 0.12
10 39 0.81
11 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:29330154 original size:20 final size:19
Alignment explanation
Indices: 29330103--29330154 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
29330093 TAAGTTTCAA
29330103 AAAAAATTAAAAAAAAACG
1 AAAAAATTAAAAAAAAACG
* *
29330122 AAAAAAATCAAAAAAAA-G
1 AAAAAATTAAAAAAAAACG
29330140 TTAAAAAATTAAAAA
1 --AAAAAATTAAAAA
29330155 TAATTGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 15 0.56
20 11 0.41
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAATTAAAAAAAAACG
Found at i:29330169 original size:20 final size:20
Alignment explanation
Indices: 29330102--29330169 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
29330092 GTAAGTTTCA
**
29330102 AAAAAAATTAAAAAAAAACG
1 AAAAAAATTAAAAAAAATTG
*
29330122 AAAAAAATCAAAAAAAAGTT-
1 AAAAAAATTAAAAAAAA-TTG
*
29330142 -AAAAAATTAAAAATAATTG
1 AAAAAAATTAAAAAAAATTG
*
29330161 AAAATAATT
1 AAAAAAATT
29330170 TTGAACATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.05
19 14 0.36
20 23 0.59
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAAAAATTAAAAAAAATTG
Found at i:29334747 original size:63 final size:65
Alignment explanation
Indices: 29334613--29334747 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 65
29334603 TATGAACTTG
*
29334613 ATTTAATAGATGCTTCTTTAAATAAACTAGTTACTAGGATAATTTAGTGATGCATGAGTTAAAGT
1 ATTTAATAGATGCTTCTTTAAATAAACTAGTTACTAGGATAA--TAGTGATGCATAAGTTAAAGT
29334678 TC
64 TC
* * *
29334680 ATTTAATA-ATGCTTCTATTAATTAAACTAGTTTCT-GGATTAA-A-TGATGCATAAGTGT-TAG
1 ATTTAATAGATGCTTCT-TTAAATAAACTAGTTACTAGGA-TAATAGTGATGCATAAGT-TAAAG
29334740 TTC
63 TTC
29334743 ATTTA
1 ATTTA
29334748 TTTAAGTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
63 21 0.34
64 2 0.03
66 11 0.18
67 27 0.44
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (65 bp):
ATTTAATAGATGCTTCTTTAAATAAACTAGTTACTAGGATAATAGTGATGCATAAGTTAAAGTTC
Found at i:29338151 original size:30 final size:30
Alignment explanation
Indices: 29338117--29338213 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
29338107 TAAACTAAAA
*
29338117 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * ** * * *
29338147 TGAGCTGAGGCTAAATTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
*
29338177 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGGTTTAGCTCGTGAGCT-AAAGT
29338207 TGAGCTA
1 TGAGCTA
29338214 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 18, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:29339520 original size:30 final size:30
Alignment explanation
Indices: 29339486--29339582 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
29339476 TAAACTAAAA
29339486 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
29339516 TGAGCTGAGGC-TAAACTCCTAAGCTAAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
29339546 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
29339576 TGAGCTA
1 TGAGCTA
29339583 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.83
31 7 0.13
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:29344026 original size:29 final size:29
Alignment explanation
Indices: 29343993--29344052 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
29343983 ATAACCAAAC
* *
29343993 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
29344022 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
29344051 CT
1 CT
29344053 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:29344045 original size:15 final size:15
Alignment explanation
Indices: 29343999--29344046 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
29343989 AAACCTACAA
*
29343999 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
29344014 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
29344028 AAACTTCATATCCAT
1 AAACTTCATATCCAT
29344043 AAAC
1 AAAC
29344047 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:29344280 original size:13 final size:13
Alignment explanation
Indices: 29344262--29344299 Score: 69
Period size: 12 Copynumber: 3.0 Consensus size: 13
29344252 TCAAGTAAGT
29344262 TTCAAAAAAAAAA
1 TTCAAAAAAAAAA
29344275 TTC-AAAAAAAAA
1 TTCAAAAAAAAAA
29344287 TTCAAAAAAAAAA
1 TTCAAAAAAAAAA
29344300 CAAAATCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
TTCAAAAAAAAAA
Found at i:29345376 original size:30 final size:28
Alignment explanation
Indices: 29345340--29345395 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
29345330 AAGCGAAAAA
* *
29345340 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
29345370 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
29345396 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:29350339 original size:29 final size:29
Alignment explanation
Indices: 29350306--29350365 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
29350296 ATAACCAAAC
* *
29350306 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
29350335 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
29350364 CT
1 CT
29350366 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:29350358 original size:15 final size:15
Alignment explanation
Indices: 29350312--29350359 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
29350302 AAACCTACAA
*
29350312 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
29350327 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
29350341 AAACTTCATATCCAT
1 AAACTTCATATCCAT
29350356 AAAC
1 AAAC
29350360 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:29354754 original size:7 final size:6
Alignment explanation
Indices: 29354736--29354824 Score: 65
Period size: 6 Copynumber: 13.7 Consensus size: 6
29354726 TTTCACAATA
*
29354736 TTTTTC TTTTTC TTCTTTC TTTTT- TCTTGTC TTTTTC TCATTTTC TTTTATC
1 TTTTTC TTTTTC TT-TTTC TTTTTC T-TTTTC TTTTTC T--TTTTC TTTT-TC
*
29354788 ATTTTTCC TCTTTC TTTTCTC ATTTTTC -TTTTC TTTT
1 -TTTTT-C TTTTTC TTTT-TC -TTTTTC TTTTTC TTTT
29354825 ATATTTTCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
5 6 0.09
6 29 0.43
7 18 0.26
8 15 0.22
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTC
Found at i:29354782 original size:14 final size:13
Alignment explanation
Indices: 29354737--29354824 Score: 60
Period size: 13 Copynumber: 6.7 Consensus size: 13
29354727 TTCACAATAT
29354737 TTTTCTTTTTCT-
1 TTTTCTTTTTCTC
29354749 TCTTTCTTTTT-TC
1 T-TTTCTTTTTCTC
*
29354762 TTGTCTTTTTCTC
1 TTTTCTTTTTCTC
29354775 ATTTTCTTTTATCAT-
1 -TTTTCTTTT-TC-TC
*
29354790 TTTTCCTCTTTCT-
1 TTTT-CTTTTTCTC
*
29354803 TTTCTCATTTT-TC
1 TTT-TCTTTTTCTC
29354816 TTTTCTTTT
1 TTTTCTTTT
29354825 ATATTTTCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
12 16 0.26
13 23 0.38
14 15 0.25
15 6 0.10
16 1 0.02
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:29354792 original size:21 final size:19
Alignment explanation
Indices: 29354737--29354831 Score: 81
Period size: 21 Copynumber: 4.9 Consensus size: 19
29354727 TTCACAATAT
29354737 TTTTCTTTT-TC-TTCTTTC
1 TTTTCTTTTATCATT-TTTC
* *
29354755 TTTT-TTCTTGTCTTTTTCTC
1 TTTTCTT-TTATCATTTT-TC
29354775 ATTTTCTTTTATCATTTTTCC
1 -TTTTCTTTTATCATTTTT-C
*
29354796 TCTTTCTTTTCTCATTTTTC
1 T-TTTCTTTTATCATTTTTC
29354816 TTTTCTTTTAT-ATTTT
1 TTTTCTTTTATCATTTT
29354832 CATTCTTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
17 2 0.03
18 11 0.17
19 13 0.20
20 8 0.12
21 29 0.45
22 2 0.03
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTTCTTTTATCATTTTTC
Found at i:29354793 original size:34 final size:32
Alignment explanation
Indices: 29354736--29354824 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 32
29354726 TTTCACAATA
29354736 TTTTTCT--TTTTCTTCTTTCTTTTT-TCTTGTC
1 TTTTTCTCATTTTCTT-TTTCTTTTTCTCTT-TC
29354767 TTTTTCTCATTTTCTTTTATCATTTTTCCTCTTTC
1 TTTTTCTCATTTTCTTTT-TC-TTTTT-CTCTTTC
29354802 -TTTTCTCATTTT-TCTTTTCTTTT
1 TTTTTCTCATTTTCT-TTTTCTTTT
29354825 ATATTTTCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
31 7 0.14
32 6 0.12
33 12 0.24
34 20 0.39
35 2 0.04
36 4 0.08
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (32 bp):
TTTTTCTCATTTTCTTTTTCTTTTTCTCTTTC
Found at i:29354802 original size:40 final size:39
Alignment explanation
Indices: 29354737--29354831 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 39
29354727 TTCACAATAT
* *
29354737 TTTTCTTTT-TC-TTCTTTCTTTTTTCTTGTCT-TTTTCTC
1 TTTTCTTTTATCATT-TTTCCTCTTTCTTGTCTATTTT-TC
*
29354775 ATTTTCTTTTATCATTTTTCCTCTTTCTTTTCTCATTTTTC
1 -TTTTCTTTTATCATTTTTCCTCTTTCTTGTCT-ATTTTTC
29354816 TTTTCTTTTAT-ATTTT
1 TTTTCTTTTATCATTTT
29354832 CATTCTTTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
39 14 0.29
40 27 0.55
41 4 0.08
42 4 0.08
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (39 bp):
TTTTCTTTTATCATTTTTCCTCTTTCTTGTCTATTTTTC
Found at i:29354842 original size:40 final size:41
Alignment explanation
Indices: 29354776--29354853 Score: 99
Period size: 40 Copynumber: 1.9 Consensus size: 41
29354766 CTTTTTCTCA
*
29354776 TTTTCTTTTATCATTTTTCCTCTTTCT-TTTCTCATTTTTC
1 TTTTCTTTTATCATTTTTCCTCTTTCTCTCTCTCATTTTTC
*
29354816 TTTTCTTTTAT-A-TTTTCATTCTTTTCTCTCTCTCATTT
1 TTTTCTTTTATCATTTTTC-CTC-TTTCTCTCTCTCATTT
29354854 GATCTACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 5 0.15
39 3 0.09
40 16 0.48
41 9 0.27
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (41 bp):
TTTTCTTTTATCATTTTTCCTCTTTCTCTCTCTCATTTTTC
Found at i:29358007 original size:21 final size:21
Alignment explanation
Indices: 29357981--29358024 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
29357971 GAGGATCAAC
29357981 AGCGGATGAAACAATCTTTGG
1 AGCGGATGAAACAATCTTTGG
29358002 AGCGGATGAAACAATCTTTGG
1 AGCGGATGAAACAATCTTTGG
29358023 AG
1 AG
29358025 TGGAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (21 bp):
AGCGGATGAAACAATCTTTGG
Done.