Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 75 of 222
Found at i:23020235 original size:11 final size:12
Alignment explanation
Indices: 23020171--23020235 Score: 77
Period size: 11 Copynumber: 5.8 Consensus size: 12
23020161 AACTAATCCT
23020171 CTCTCAAATTTC
1 CTCTCAAATTTC
23020183 CTCTC-AATTTC
1 CTCTCAAATTTC
*
23020194 CTCTC-AATTTG
1 CTCTCAAATTTC
23020205 CTCTCAAA-TTC
1 CTCTCAAATTTC
23020216 CT-TCAAAATTT-
1 CTCTC-AAATTTC
23020227 CTCTCAAAT
1 CTCTCAAAT
23020236 CCATATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
10 2 0.04
11 34 0.72
12 11 0.23
ACGTcount: A:0.26, C:0.31, G:0.02, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:23020449 original size:13 final size:13
Alignment explanation
Indices: 23020431--23020457 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23020421 ATGGTAAGCG
23020431 TTAAATATAATTT
1 TTAAATATAATTT
23020444 TTAAATATAATTT
1 TTAAATATAATTT
23020457 T
1 T
23020458 AGAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATATAATTT
Found at i:23023851 original size:124 final size:124
Alignment explanation
Indices: 23023680--23024055 Score: 599
Period size: 124 Copynumber: 3.0 Consensus size: 124
23023670 CCCAAACATG
* **
23023680 CTACTGTAGCAAAAGCGCGTCCACGCGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
*
23023745 TAGAAGCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * *
23023804 CTACTGTAGCAAAAACGTGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
* *
23023869 TAGAAGCGATTTTATACTATTTCCTCAGAAACGTCAAAAAAAATTATTTTTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
*
23023928 CTACTGTAGCAAAAGCCCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
* * *** *
23023993 TAGAAGCGATTTTATACTATTTGATCAAAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
23024053 CTA
1 CTA
23024056 AAAACCCTAA
Statistics
Matches: 230, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
124 210 0.91
125 20 0.09
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:23036267 original size:11 final size:11
Alignment explanation
Indices: 23036251--23036282 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
23036241 CTTCCCTTCT
23036251 CTTTTCTTTTC
1 CTTTTCTTTTC
23036262 CTTTTCTTTTC
1 CTTTTCTTTTC
*
23036273 CTTTTGTTTT
1 CTTTTCTTTT
23036283 TTTATATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (11 bp):
CTTTTCTTTTC
Found at i:23036269 original size:16 final size:17
Alignment explanation
Indices: 23036245--23036277 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23036235 TCTTCCCTTC
23036245 CCTTCTCTTTT-CTTTT
1 CCTTCTCTTTTCCTTTT
*
23036261 CCTTTTCTTTTCCTTTT
1 CCTTCTCTTTTCCTTTT
23036278 GTTTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CCTTCTCTTTTCCTTTT
Found at i:23041620 original size:19 final size:20
Alignment explanation
Indices: 23041564--23041620 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
23041554 AGCATCTTTT
*
23041564 CTTTTTTTCATTCTTCTTCC
1 CTTTTTTTCATCCTTCTTCC
* *
23041584 CATTTCTTTCCAACCTTC-TCC
1 C-TTT-TTTTCATCCTTCTTCC
*
23041605 CTTTTTTTCATGCTTC
1 CTTTTTTTCATCCTTC
23041621 CATCCTGACC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 9 0.31
20 4 0.14
21 7 0.24
22 9 0.31
ACGTcount: A:0.09, C:0.33, G:0.02, T:0.56
Consensus pattern (20 bp):
CTTTTTTTCATCCTTCTTCC
Found at i:23042011 original size:15 final size:15
Alignment explanation
Indices: 23041986--23042025 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
23041976 TTTTGATTGT
23041986 TTCTT-TTGTTCTCG
1 TTCTTGTTGTTCTCG
*
23042000 TTCTTGTTGTTCTTG
1 TTCTTGTTGTTCTCG
23042015 TTCTTGTTGTT
1 TTCTTGTTGTT
23042026 GTGTCTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.00, C:0.15, G:0.17, T:0.68
Consensus pattern (15 bp):
TTCTTGTTGTTCTCG
Found at i:23043437 original size:5 final size:5
Alignment explanation
Indices: 23043422--23043460 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
23043412 ACAAAAACAC
23043422 TTTCTT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
23043461 TTGGGTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:23043563 original size:21 final size:21
Alignment explanation
Indices: 23043523--23043563 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23043513 ATAAAGTAGA
*
23043523 TTATATATTATTTTTATAGTG
1 TTATATATTATATTTATAGTG
23043544 TTATATATTATGATTT-TAGT
1 TTATATATTAT-ATTTATAGT
23043564 ATATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (21 bp):
TTATATATTATATTTATAGTG
Found at i:23043606 original size:17 final size:18
Alignment explanation
Indices: 23043581--23043626 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23043571 TATAAGAATA
*
23043581 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
23043598 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
23043616 ATTAAATTATA
1 ATTAAATTATA
23043627 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:23043868 original size:45 final size:43
Alignment explanation
Indices: 23043785--23043874 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 43
23043775 ATTACATCAT
23043785 CATTCCATCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATCAACCAAACACAAGAATACTATTACAGTTCTATTC
* *
23043828 CATTCCATTCAACCAAACA-ATTGAATTACTATTACTGTTCTATTC
1 CATTCCA-TCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
23043873 CA
1 CA
23043875 ATACAGCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 8 0.19
44 14 0.33
45 20 0.48
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (43 bp):
CATTCCATCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:23043887 original size:16 final size:16
Alignment explanation
Indices: 23043866--23043928 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
23043856 CTATTACTGT
23043866 TCTATTCCAA-TACAGC
1 TCTATT-CAATTACAGC
*
23043882 TCTATTCAATTATAGC
1 TCTATTCAATTACAGC
*
23043898 TCTATTCAATTATAGC
1 TCTATTCAATTACAGC
* *
23043914 TTTATTCCATTACAG
1 TCTATTCAATTACAG
23043929 TGAACCAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
15 3 0.07
16 39 0.93
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (16 bp):
TCTATTCAATTACAGC
Found at i:23044953 original size:35 final size:35
Alignment explanation
Indices: 23044913--23044982 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
23044903 GGTGTATGCT
23044913 TTTAAATGACCAAAATTGGTAT-G-TGTTAATGTATC
1 TTTAAATGACCAAAA-TGGTATGGTTGTT-ATGTATC
*
23044948 TTTAAATGGCCAAAATGGTATGGTTGTTATGTATC
1 TTTAAATGACCAAAATGGTATGGTTGTTATGTATC
23044983 AATTATGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 22 0.69
36 4 0.12
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (35 bp):
TTTAAATGACCAAAATGGTATGGTTGTTATGTATC
Found at i:23046076 original size:20 final size:21
Alignment explanation
Indices: 23046043--23046088 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
23046033 TAGGGCGGCT
* * *
23046043 AAGGCTGAATAATAATGACTA
1 AAGGTTGAATAATAATAAATA
23046064 AAGGTTGAA-AATAATAAATA
1 AAGGTTGAATAATAATAAATA
23046084 AAGGT
1 AAGGT
23046089 GATATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (21 bp):
AAGGTTGAATAATAATAAATA
Found at i:23050615 original size:40 final size:39
Alignment explanation
Indices: 23050559--23050793 Score: 177
Period size: 40 Copynumber: 5.9 Consensus size: 39
23050549 TTGATTCAAT
* * * *
23050559 GTACCAGAGTATAAACAGGGGCACGTAAGTGCATTTAGG
1 GTACCAAAGTACAAATAGGGGCACGTAAGTGCATTCAGG
** * * *
23050598 TGTACCGGAGTACAAACAGAGGCACGTATGTGCAATT-AGG
1 -GTACCAAAGTACAAATAGGGGCACGTAAGTGC-ATTCAGG
* * ** *
23050638 GTACCAAAGTACAAATAGAGGAACGTGTGTGCAATCAGGG
1 GTACCAAAGTACAAATAGGGGCACGTAAGTGCATTCA-GG
* *
23050678 GTACAAAAGTACAAATAGGCGCACGTAAGTGCATTCAGGG
1 GTACCAAAGTACAAATAGGGGCACGTAAGTGCATTCA-GG
* ** * *
23050718 GTACC-GAGTATGAATAGGGGCACATAAGTGCAATTAAGG
1 GTACCAAAGTACAAATAGGGGCACGTAAGTGC-ATTCAGG
** * * *
23050757 GTACTGAAGTACAAATAGGGACACATAAATGCATTCA
1 GTACCAAAGTACAAATAGGGGCACGTAAGTGCATTCA
23050794 TCAATAGTTA
Statistics
Matches: 159, Mismatches: 31, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
38 2 0.01
39 59 0.37
40 95 0.60
41 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.20
Consensus pattern (39 bp):
GTACCAAAGTACAAATAGGGGCACGTAAGTGCATTCAGG
Found at i:23062510 original size:15 final size:17
Alignment explanation
Indices: 23062472--23062512 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
23062462 TACTTTTAAG
23062472 CATAT-ATCACATTACA
1 CATATAATCACATTACA
23062488 CATATAATCACA-TA-A
1 CATATAATCACATTACA
*
23062503 CATTTAATCA
1 CATATAATCA
23062513 TATACCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 10 0.43
16 7 0.30
17 6 0.26
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (17 bp):
CATATAATCACATTACA
Found at i:23062608 original size:41 final size:39
Alignment explanation
Indices: 23062469--23062595 Score: 182
Period size: 39 Copynumber: 3.3 Consensus size: 39
23062459 ATTTACTTTT
* * *
23062469 AAGCATATATCACATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * **
23062508 AATCATATACCACAATACTCATATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
23062547 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
23062586 AAGCATATAT
1 AAGCATATAT
23062596 ATCGCAATAC
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:23062676 original size:16 final size:15
Alignment explanation
Indices: 23062641--23062683 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
23062631 ACATAATGGT
* *
23062641 CACATGTCATATAAA
1 CACATATCATAAAAA
23062656 CACATATCATAAAACA
1 CACATATCATAAAA-A
23062672 CACATATTCATA
1 CACATA-TCATA
23062684 GTTTAAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.50
16 7 0.29
17 5 0.21
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (15 bp):
CACATATCATAAAAA
Found at i:23065144 original size:19 final size:19
Alignment explanation
Indices: 23065093--23065144 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
23065083 CTGGCACATA
*
23065093 AAGTGCATAC-TGGAACACG
1 AAGTGCAT-CTTGGCACACG
23065112 AAGTGCATCTTGGCACACG
1 AAGTGCATCTTGGCACACG
23065131 AAGTGCATCTTGGC
1 AAGTGCATCTTGGC
23065145 GCATATGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 30 0.97
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (19 bp):
AAGTGCATCTTGGCACACG
Found at i:23074752 original size:31 final size:31
Alignment explanation
Indices: 23074714--23074773 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
23074704 TGATCATCTG
*
23074714 AGGGTGGTCTTACAGATACTTCGTGAAAAGT
1 AGGGTGGTCCTACAGATACTTCGTGAAAAGT
*
23074745 AGGGTGGTCCTGCAGATACTTCGTGAAAA
1 AGGGTGGTCCTACAGATACTTCGTGAAAA
23074774 TTAGTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (31 bp):
AGGGTGGTCCTACAGATACTTCGTGAAAAGT
Found at i:23088020 original size:16 final size:16
Alignment explanation
Indices: 23087999--23088031 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23087989 CTCAGTGGAG
23087999 TTATTTTGACTATATC
1 TTATTTTGACTATATC
23088015 TTATTTTGACTATATC
1 TTATTTTGACTATATC
23088031 T
1 T
23088032 CAATTAGCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATTTTGACTATATC
Found at i:23101389 original size:21 final size:22
Alignment explanation
Indices: 23101360--23101405 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
23101350 TTTATCCAAC
*
23101360 GTTACGTTTTGAG-TTTTTAGG
1 GTTACGTTTTAAGATTTTTAGG
*
23101381 GTTAGGTTTTAAGATTTTTAGG
1 GTTACGTTTTAAGATTTTTAGG
23101403 GTT
1 GTT
23101406 TTAGAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (22 bp):
GTTACGTTTTAAGATTTTTAGG
Found at i:23104755 original size:19 final size:18
Alignment explanation
Indices: 23104733--23104810 Score: 56
Period size: 18 Copynumber: 4.3 Consensus size: 18
23104723 TCAAAACATT
23104733 TTGTTAGTCAAATTATTAA
1 TTGTTA-TCAAATTATTAA
*
23104752 TTG-T-T-AATTGTATTAA
1 TTGTTATCAAAT-TATTAA
* *
23104768 TTGTTACTAAAATTATCAAA
1 TTGTTA-TCAAATTAT-TAA
*
23104788 TT-ATATCAAATTATTAA
1 TTGTTATCAAATTATTAA
23104805 TTGTTA
1 TTGTTA
23104811 GTACCAGTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 15
0.67 0.10 0.22
Matches are distributed among these distances:
15 3 0.07
16 10 0.22
17 5 0.11
18 11 0.24
19 9 0.20
20 7 0.16
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
TTGTTATCAAATTATTAA
Found at i:23104921 original size:6 final size:6
Alignment explanation
Indices: 23104910--23104935 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23104900 TTATATCATA
23104910 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
23104936 TTTGTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:23105068 original size:7 final size:7
Alignment explanation
Indices: 23105029--23105065 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
23105019 GTTTGTCAAT
23105029 TAAATTA
1 TAAATTA
23105036 TAAATT-
1 TAAATTA
23105042 T-AATTA
1 TAAATTA
23105048 TAAATTA
1 TAAATTA
23105055 TAAATTTA
1 TAAA-TTA
23105063 TAA
1 TAA
23105066 TTTTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.15
6 2 0.07
7 15 0.56
8 6 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TAAATTA
Found at i:23105305 original size:21 final size:21
Alignment explanation
Indices: 23105275--23105321 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
23105265 GCGGGGGTTG
*
23105275 TGGTTGCTCCGGCAGGG-ATTC
1 TGGTTCCTCCGGCAGGGCA-TC
*
23105296 TGGTTCCTCCGGTAGGGCATC
1 TGGTTCCTCCGGCAGGGCATC
23105317 TGGTT
1 TGGTT
23105322 GTCGGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.09, C:0.23, G:0.36, T:0.32
Consensus pattern (21 bp):
TGGTTCCTCCGGCAGGGCATC
Found at i:23105589 original size:18 final size:18
Alignment explanation
Indices: 23105563--23105605 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23105553 GACTCGAAAA
* * *
23105563 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
23105581 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
23105599 AGGATAC
1 AGGATAC
23105606 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:23106681 original size:41 final size:41
Alignment explanation
Indices: 23106616--23106847 Score: 304
Period size: 41 Copynumber: 5.7 Consensus size: 41
23106606 CCTTTCGGGG
* * *
23106616 CTTTAGTGGCGTTTTTATAAAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGT
** * * *
23106657 CTTTAGCGATGTTTTTTGAGAAGCGCCACTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGT
* * * * * *
23106698 CTTTAACAGCGTTTCTGGGAAAGCGCCGCTAATGCTCAGGT
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGT
*
23106739 CTTTAGCGGCGTTTTTAGAAAA-TGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGT
* *
23106779 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGT
23106820 CTTTAGCGGCGTTTTTAGAAAAGCGCCG
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCG
23106848 AAAAAACATT
Statistics
Matches: 160, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
40 36 0.22
41 124 0.77
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTGGT
Found at i:23106804 original size:81 final size:81
Alignment explanation
Indices: 23106616--23106846 Score: 300
Period size: 81 Copynumber: 2.8 Consensus size: 81
23106606 CCTTTCGGGG
* ** * ** * *
23106616 CTTTAGTGGCGTTTTTATAAAAGCGCCGCTAATGCTTTGGTCTTTAGCGATGTTTTTTGAGAAGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTAGA-AAAC
23106681 GCCACTAATGCTCTGGT
65 GCCACTAATGCTCTGGT
* * * * * *
23106698 CTTTAACAGCGTTTCTGGGAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTAGAAAATG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTAGAAAACG
*
23106763 CCGCTAATGCTCTGGT
66 CCACTAATGCTCTGGT
*
23106779 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTAGAAAAGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTAGAAAA-C
23106844 GCC
65 GCC
23106847 GAAAAAACAT
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 75 0.60
82 51 0.40
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (81 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTAGAAAACG
CCACTAATGCTCTGGT
Found at i:23107269 original size:7 final size:7
Alignment explanation
Indices: 23107217--23107310 Score: 62
Period size: 7 Copynumber: 13.3 Consensus size: 7
23107207 GAGTTACTAT
*
23107217 TTTAAGG
1 TTTATGG
23107224 TTTATGG
1 TTTATGG
*
23107231 ATTATGAG
1 TTTATG-G
*
23107239 TTTAGGG
1 TTTATGG
*
23107246 GTTATGG
1 TTTATGG
**
23107253 TTTACAG
1 TTTATGG
23107260 TTTATGG
1 TTTATGG
* *
23107267 TTTAAGA
1 TTTATGG
*
23107274 TTTAGGG
1 TTTATGG
*
23107281 TTTAAGG
1 TTTATGG
* *
23107288 GTTGTGG
1 TTTATGG
23107295 TTTATGG
1 TTTATGG
*
23107302 TTTAAGG
1 TTTATGG
23107309 TT
1 TT
23107311 ATAGATTAAG
Statistics
Matches: 64, Mismatches: 22, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
7 59 0.92
8 5 0.08
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:23107290 original size:42 final size:42
Alignment explanation
Indices: 23107217--23107324 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 42
23107207 GAGTTACTAT
* * * *
23107217 TTTAAGGTTTATGGATTATGAGTTTAGGGGTTATGGTTTACAG
1 TTTAAGG-TTATAGATTAAGGGTTTAAGGGTTATGGTTTACAG
* * * **
23107260 TTTATGGTT-TAAGATTTAGGGTTTAAGGGTTGTGGTTTATGG
1 TTTAAGGTTAT-AGATTAAGGGTTTAAGGGTTATGGTTTACAG
23107302 TTTAAGGTTATAGATTAAGGGTT
1 TTTAAGGTTATAGATTAAGGGTT
23107325 GGGGTTTAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.85
43 7 0.13
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (42 bp):
TTTAAGGTTATAGATTAAGGGTTTAAGGGTTATGGTTTACAG
Found at i:23107339 original size:7 final size:7
Alignment explanation
Indices: 23107217--23107342 Score: 51
Period size: 7 Copynumber: 18.0 Consensus size: 7
23107207 GAGTTACTAT
23107217 TTTAAGG
1 TTTAAGG
*
23107224 TTTATGG
1 TTTAAGG
* *
23107231 ATTATGAG
1 TTTAAG-G
*
23107239 TTTAGGG
1 TTTAAGG
* *
23107246 GTTATGG
1 TTTAAGG
23107253 TTTACA-G
1 TTTA-AGG
*
23107260 TTTATGG
1 TTTAAGG
*
23107267 TTTAAGA
1 TTTAAGG
*
23107274 TTTAGGG
1 TTTAAGG
23107281 TTTAAGG
1 TTTAAGG
* **
23107288 GTTGTGG
1 TTTAAGG
*
23107295 TTTATGG
1 TTTAAGG
23107302 TTTAAGG
1 TTTAAGG
23107309 -TTATA-G
1 TTTA-AGG
*
23107315 ATTAAGG
1 TTTAAGG
* **
23107322 GTTGGGG
1 TTTAAGG
23107329 TTTAAGG
1 TTTAAGG
23107336 TTTAAGG
1 TTTAAGG
23107343 GTTGAGGGTT
Statistics
Matches: 87, Mismatches: 26, Indels: 12
0.70 0.21 0.10
Matches are distributed among these distances:
6 5 0.06
7 77 0.89
8 5 0.06
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.44
Consensus pattern (7 bp):
TTTAAGG
Found at i:23107509 original size:16 final size:17
Alignment explanation
Indices: 23107490--23107531 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
23107480 AAATTATTTA
23107490 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
23107506 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
23107523 TAAAATAAT
1 T-AAATAAT
23107532 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:23111022 original size:17 final size:17
Alignment explanation
Indices: 23111000--23111042 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
23110990 AATATATAAT
23111000 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
23111017 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
23111034 ATATATAAT
1 AT-TATAAT
23111043 ATTATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
ATTATAATGCAAAATTA
Found at i:23111848 original size:56 final size:56
Alignment explanation
Indices: 23111682--23111854 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
23111672 ACAAGGGATG
23111682 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
23111738 ATGGGCAAAACATGTCATGAAACA---TGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
23111791 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
23111847 ATGGGCAA
1 ATGGGCAA
23111855 TAAACTAATA
Statistics
Matches: 114, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
53 53 0.46
56 61 0.54
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:23113117 original size:40 final size:40
Alignment explanation
Indices: 23113033--23113229 Score: 211
Period size: 40 Copynumber: 5.0 Consensus size: 40
23113023 TCGAATAATG
* * * * *
23113033 TCCGGGCGAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
23113073 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
23113113 TCTGGGCTAAG-CTCGAAGGTATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23113152 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23113192 CCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
23113230 TAACCAGACT
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 31 0.23
40 93 0.70
41 8 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23113247 original size:80 final size:79
Alignment explanation
Indices: 23113077--23113249 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
23113067 ACCATATCTG
** * * *
23113077 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCTCGAAGGTATTGGTGC
1 GACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAACCCGGGCTAAGCCCGAAGGCATTGGTGC
*
23113141 GAGTTACTAAATCCG
65 GAGTTACTAAATCCA
** * * *
23113156 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAACCCGGGCTAAG-CCCGAAGGCATTGGTGC
23113221 GAGTTACTATAA-CCA
65 GAGTTACTA-AATCCA
*
23113236 GACTATGTCCCGAA
1 GACTAAGTCCCGAA
23113250 AACATTTGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
79 38 0.49
80 36 0.47
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
GACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAACCCGGGCTAAGCCCGAAGGCATTGGTGCG
AGTTACTAAATCCA
Found at i:23113256 original size:80 final size:79
Alignment explanation
Indices: 23113093--23113257 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 79
23113083 GATCCGAAGG
** * * * * *
23113093 CATTTGTGCGAGATACTAATTCTGGGCTAAGCTCGAAGGTATTGGTGCGAGTTACTAAATCCGGG
1 CATTTGTGCGAGATACTAAACCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCAGA
* **
23113158 TTAAGTCCCGAAGG
66 CTAAGTCCCGAAAA
* * *
23113172 CATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCA
1 CATTTGTGCGAGATACTAAACCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCA
*
23113236 GACTATGTCCCGAAAA
64 GACTAAGTCCCGAAAA
23113252 CATTTG
1 CATTTG
23113258 AACGAGTAGC
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
79 26 0.37
80 42 0.60
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (79 bp):
CATTTGTGCGAGATACTAAACCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCAGA
CTAAGTCCCGAAAA
Found at i:23113257 original size:40 final size:40
Alignment explanation
Indices: 23113077--23113249 Score: 154
Period size: 40 Copynumber: 4.3 Consensus size: 40
23113067 ACCATATCTG
* ** **
23113077 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCTG
1 GACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAACCCA
* * * * * *
23113117 GGCTAAG-CTCGAAGGTATTGGTGCGAGTTACTAAATCCG
1 GACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCA
** *
23113156 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCG
1 GACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCA
**
23113196 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCA
1 GACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCCA
*
23113236 GACTATGTCCCGAA
1 GACTAAGTCCCGAA
23113250 AACATTTGAA
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 31 0.27
40 81 0.71
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
GACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCA
Found at i:23116816 original size:42 final size:43
Alignment explanation
Indices: 23116766--23116920 Score: 215
Period size: 43 Copynumber: 3.7 Consensus size: 43
23116756 TTTTTGCTAG
* * * *
23116766 AAGCGTCGCTAAAGGT-TTGATCTATAGTGGCGTTTGTGGGAA
1 AAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAA
* * *
23116808 AAGTGTCGCTAAAGGTCTTGGTCTTTAGCGGCATTTTTGGAAA
1 AAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAA
23116851 AAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-GAAA
1 AAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAA
* *
23116893 AAGCGCCACTAAAGGTCTTGGTCTTTAG
1 AAGCGTCGCTAAAGGTCTTGGTCTTTAG
23116921 TGGCATTTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 45 0.45
43 55 0.55
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (43 bp):
AAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAA
Found at i:23116895 original size:85 final size:85
Alignment explanation
Indices: 23116766--23116930 Score: 242
Period size: 85 Copynumber: 1.9 Consensus size: 85
23116756 TTTTTGCTAG
* * * * *
23116766 AAGCGTCGCTAAAGGTTTGATCTATAGTGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCTTGGTC
1 AAGCGTCGCTAAAGGTTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCTTGGTC
23116831 TTTAGCGGCATTTTTGGAAA
66 TTTAGCGGCATTTTTGGAAA
* *
23116851 AAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-GAAAAAGCGCCACTAAAGGTCTTGGT
1 AAGCGTCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCTTGGT
*
23116915 CTTTAGTGGCATTTTT
65 CTTTAGCGGCATTTTT
23116931 TTCTAAAAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 53 0.75
86 18 0.25
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.33
Consensus pattern (85 bp):
AAGCGTCGCTAAAGGTTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCTTGGTC
TTTAGCGGCATTTTTGGAAA
Found at i:23118075 original size:22 final size:22
Alignment explanation
Indices: 23118050--23118112 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
23118040 AAATATAGAT
23118050 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
23118072 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
23118094 TTGAGA-AAATAATTGAGAG
1 TTGAGAGAAAT--TTGAGAG
23118113 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 3 0.08
22 22 0.61
23 11 0.31
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:23126302 original size:24 final size:25
Alignment explanation
Indices: 23126265--23126317 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
23126255 CCGGGCCCGC
*
23126265 AAATAAAAAATAAA-CCCAATTTTA
1 AAATAAAAAATAAAGCCAAATTTTA
23126289 TAAAT-AAAAATAAAGCCAAATTTTA
1 -AAATAAAAAATAAAGCCAAATTTTA
23126314 AAAT
1 AAAT
23126318 GTCCACAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.26
Consensus pattern (25 bp):
AAATAAAAAATAAAGCCAAATTTTA
Found at i:23127748 original size:11 final size:11
Alignment explanation
Indices: 23127732--23127769 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
23127722 TATTCATCGT
23127732 TTTTAATATTA
1 TTTTAATATTA
23127743 TTTTAATATTTA
1 TTTTAATA-TTA
*
23127755 GTTTAATATTA
1 TTTTAATATTA
23127766 TTTT
1 TTTT
23127770 TGAATTTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
TTTTAATATTA
Found at i:23139547 original size:44 final size:44
Alignment explanation
Indices: 23139479--23139567 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
23139469 TAGATCGTAT
*
23139479 CAGATTGAAACTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAACTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * *
23139523 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAACTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
23139567 C
1 C
23139568 GAATTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
CAGATTGAAACTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:23139637 original size:142 final size:142
Alignment explanation
Indices: 23139379--23139765 Score: 602
Period size: 142 Copynumber: 2.7 Consensus size: 142
23139369 GGCAGTGGTA
* * *
23139379 GAGCAGACTGAAGCTACTAATACTATCTCCCTGAGATTACAGTGGAGC-AGATT-AAATAAAGGA
1 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGA-ATTAAAATAAAGGA
*
23139442 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGATTGAAACTAGAAATCTTATCTCCC
65 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGATTGAAACCAGAAATCTTATCTCCC
*
23139507 TGAGATTACAGCG
130 TAAGATTACAGCG
23139520 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGAT
1 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGAT
* * *
23139585 CTTATCTCTTTGAAGTTACAGTAGAGTAGATCAG-ATCAGATTGAATCCAGAAATCTTATCTCTC
66 CTTATCTCTCTGAAGTTACAGTAGAGTAGATC-GTATCAGATTGAAACCAGAAATCTTATCTCCC
23139649 TAAGATTACAGCG
130 TAAGATTACAGCG
* * * *
23139662 GAGTAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGAT
1 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGAT
*
23139727 CTTATCTCTCTGAAGTTATAGTAGAG-AGGATCGTATCAG
66 CTTATCTCTCTGAAGTTACAGTAGAGTA-GATCGTATCAG
23139766 GTCTTATCTC
Statistics
Matches: 227, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
141 50 0.22
142 176 0.78
143 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (142 bp):
GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGAT
CTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGATTGAAACCAGAAATCTTATCTCCCT
AAGATTACAGCG
Found at i:23154656 original size:12 final size:12
Alignment explanation
Indices: 23154639--23154668 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23154629 CTACACATGC
23154639 CCATGTGCTAGG
1 CCATGTGCTAGG
*
23154651 CCATGTGTTAGG
1 CCATGTGCTAGG
23154663 CCATGT
1 CCATGT
23154669 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:23171065 original size:11 final size:12
Alignment explanation
Indices: 23171041--23171069 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23171031 ATAATATCAT
23171041 AATAATCCTAAA
1 AATAATCCTAAA
23171053 AATAATCCTAAA
1 AATAATCCTAAA
23171065 AATAA
1 AATAA
23171070 AATTTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATCCTAAA
Found at i:23171795 original size:107 final size:108
Alignment explanation
Indices: 23171660--23171861 Score: 255
Period size: 107 Copynumber: 1.9 Consensus size: 108
23171650 TAGTTTTTTC
*
23171660 TTAAGAATGTATTGACCATTTTGATGCGAAAAGCG-ATGACAACCCAAGCACCTCACCCCAGTTA
1 TTAAGAATGTATTGACCATTTTGATGCGAAAAG-GAATGACAACCCAAGCACCCCACCCCAGTTA
*
23171724 CTTAACCCAACACACTCCT-ATTTTATTATTATATATTTTTTGG
65 CTCAACCCAACACACTCCTAATTTTATTATTATATATTTTTTGG
* * * ** * * * *
23171767 TTAAGAATGTTTTGGCCCTTTTGATGCGAAGTGGAATGACACCCCAAGTACCCCACCTCGGTTAC
1 TTAAGAATGTATTGACCATTTTGATGCGAAAAGGAATGACAACCCAAGCACCCCACCCCAGTTAC
* * *
23171832 TCAGCCCAACACACTCTTAATTTTTTTATT
66 TCAACCCAACACACTCCTAATTTTATTATT
23171862 TAATTCTAGT
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
106 1 0.01
107 68 0.86
108 10 0.13
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (108 bp):
TTAAGAATGTATTGACCATTTTGATGCGAAAAGGAATGACAACCCAAGCACCCCACCCCAGTTAC
TCAACCCAACACACTCCTAATTTTATTATTATATATTTTTTGG
Found at i:23173890 original size:9 final size:9
Alignment explanation
Indices: 23173876--23173904 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
23173866 ATTAACATGC
23173876 AAGAAAATA
1 AAGAAAATA
23173885 AAGAAAATA
1 AAGAAAATA
23173894 AAGAAAATA
1 AAGAAAATA
23173903 AA
1 AA
23173905 ATAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAGAAAATA
Found at i:23173912 original size:19 final size:20
Alignment explanation
Indices: 23173876--23173930 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
23173866 ATTAACATGC
*
23173876 AAGAAAAT-AAAGAAAATA-
1 AAGAAAATAAAATAAAATAT
23173894 AAGAAAATAAAATAAAATAT
1 AAGAAAATAAAATAAAATAT
*
23173914 AA-AATATAAAATAAAAT
1 AAGAAAATAAAATAAAAT
23173931 TGGCTTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 8 0.24
19 23 0.70
20 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AAGAAAATAAAATAAAATAT
Found at i:23173917 original size:12 final size:11
Alignment explanation
Indices: 23173897--23173930 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
23173887 GAAAATAAAG
23173897 AAAATAAAATA
1 AAAATAAAATA
23173908 AAATATAAAATA
1 AAA-ATAAAATA
23173920 TAAAATAAAAT
1 -AAAATAAAAT
23173931 TGGCTTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:23176564 original size:43 final size:42
Alignment explanation
Indices: 23176407--23176565 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
23176397 TATGTGATAT
*
23176407 CGTGTAAGACCACGCCTGGGACGTTGGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTT--GA-TTA
* * * * * *
23176451 CGTGTAAGACCATGTCTAGGACATTGGAATTGTATATGAATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTG-ATTA
* * *
23176493 TGTGTAAAACC-CTGTCTGGGATAG-TGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCG-TATTTGATTA
*
23176536 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
23176566 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
42 26 0.30
43 30 0.34
44 28 0.32
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTA
Found at i:23178465 original size:32 final size:32
Alignment explanation
Indices: 23178424--23178489 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
23178414 ACCATAAATA
*
23178424 CAGTAATATGATTGGCACAAAGCCATCAGGAG
1 CAGTAATATGATCGGCACAAAGCCATCAGGAG
* * *
23178456 CAGTGATATGATCGGCACACAGCCATCAGTAG
1 CAGTAATATGATCGGCACAAAGCCATCAGGAG
23178488 CA
1 CA
23178490 TCGCAGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (32 bp):
CAGTAATATGATCGGCACAAAGCCATCAGGAG
Found at i:23178538 original size:26 final size:26
Alignment explanation
Indices: 23178489--23178542 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
23178479 CATCAGTAGC
*
23178489 ATCGCAGCAAAGCTGCCAACAATAGT
1 ATCGCAGCAAAGCTACCAACAATAGT
* **
23178515 ATCGCAGGAAAGCTACCAGTAATAGT
1 ATCGCAGCAAAGCTACCAACAATAGT
23178541 AT
1 AT
23178543 ATGTGGCCAA
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:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTACCAACAATAGT
Found at i:23178559 original size:27 final size:26
Alignment explanation
Indices: 23178524--23178589 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
23178514 TATCGCAGGA
* *
23178524 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
23178551 AAGCCACCAGTAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
23178577 AGAGCCACCAGTA
1 A-AGCCACCAGTA
23178590 CAATACTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 31 0.89
28 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:23178800 original size:54 final size:54
Alignment explanation
Indices: 23178737--23178965 Score: 284
Period size: 54 Copynumber: 4.2 Consensus size: 54
23178727 GGGCAAAATA
* *
23178737 GTCATTTTACCCTACAGGGGCATTACAGTCATTTTA-CTTCATGAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCT-ATGAGGGTATTACG
* * *
23178791 GTCATTTTACCCTACAAGGGTATTA-GGATCATTTTACCCTATAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGG-TCATTTTACCCTATGAGGGTATTACG
* * * *
23178845 GTTATTTTATCCTACAGGGGCATTACGGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
* * * * *
23178899 ATCATTTTATCCTACAGGAGCATTACGGTCATTTTACCCTAT-AGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGA-GGGTATTACG
23178953 GTCATTTTACCCT
1 GTCATTTTACCCT
23178966 TTGAGGTTAT
Statistics
Matches: 152, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 147 0.97
55 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
Found at i:23178810 original size:27 final size:27
Alignment explanation
Indices: 23178737--23178965 Score: 214
Period size: 27 Copynumber: 8.5 Consensus size: 27
23178727 GGGCAAAATA
* * *
23178737 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAAGGGTATTACG
*
23178764 GTCATTTTA--CTTCATGAGGGTATTACG
1 GTCATTTTACCCTACA--AGGGTATTACG
23178791 GTCATTTTACCCTACAAGGGTATTA-G
1 GTCATTTTACCCTACAAGGGTATTACG
*
23178817 GATCATTTTACCCTATAAGGGTATTACG
1 G-TCATTTTACCCTACAAGGGTATTACG
* * * *
23178845 GTTATTTTATCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
*** *
23178872 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
23178899 ATCATTTTATCCTAC-AGGAGCATTACG
1 GTCATTTTACCCTACAAGG-GTATTACG
* * * *
23178926 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTACAAGGGTATTACG
23178953 GTCATTTTACCCT
1 GTCATTTTACCCT
23178966 TTGAGGTTAT
Statistics
Matches: 164, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.02
26 4 0.02
27 148 0.90
28 4 0.02
29 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:23178977 original size:81 final size:79
Alignment explanation
Indices: 23178738--23178978 Score: 259
Period size: 81 Copynumber: 3.0 Consensus size: 79
23178728 GGCAAAATAG
* *
23178738 TCATTTTACCCTACAGGGGCATTACAGTCATTTTACTTCAT-GAGGGTATTACGGTCATTTTACC
1 TCATTTTACCCTACA-GGGCATTACGGTCATTTTACCT-ATAG-GGGTATTACGGTCATTTTACC
** **
23178802 CTACAAGGGTATTAGGA
63 CTATGAGGGTATTTCGA
* * * * *
23178819 TCATTTTACCCTATAAGGGTATTACGGTTATTTTATCCTACAGGGGCATTACGGTCATTTTACCC
1 TCATTTTACCCTA-CAGGGCATTACGGTCATTTTA-CCTATAGGGGTATTACGGTCATTTTACCC
*
23178884 TATGGGGGTATTTCGA
64 TATGAGGGTATTTCGA
* * *
23178900 TCATTTTATCCTACAGGAGCATTACGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTACAGG-GCATTACGGTCATTTTA-CCTATAGGGGTATTACGGTCATTTTACCC
* *
23178965 TTTGAGGTTATTTC
64 TATGAGGGTATTTC
23178979 ATTAATTTTA
Statistics
Matches: 132, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 3 0.02
81 125 0.95
82 4 0.03
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (79 bp):
TCATTTTACCCTACAGGGCATTACGGTCATTTTACCTATAGGGGTATTACGGTCATTTTACCCTA
TGAGGGTATTTCGA
Found at i:23178986 original size:27 final size:27
Alignment explanation
Indices: 23178821--23179013 Score: 104
Period size: 27 Copynumber: 7.1 Consensus size: 27
23178811 TATTAGGATC
* * * *
23178821 ATTTTACCCTATAAGGGTATTACGGTT
1 ATTTTACCCTATAGGGGTATTTCAGTA
* * * * * *
23178848 ATTTTATCCTACAGGGGCATTACGGTC
1 ATTTTACCCTATAGGGGTATTTCAGTA
* *
23178875 ATTTTACCCTATGGGGGTATTTC-GATC
1 ATTTTACCCTATAGGGGTATTTCAG-TA
* * * * * * *
23178902 ATTTTATCCTACAGGAGCATTACGGTC
1 ATTTTACCCTATAGGGGTATTTCAGTA
*
23178929 ATTTTACCCTATAGGGGTATTTCAGTC
1 ATTTTACCCTATAGGGGTATTTCAGTA
* * *
23178956 ATTTTACCCT-TTGAGGTTATTTCATTA
1 ATTTTACCCTATAG-GGGTATTTCAGTA
* * *
23178983 ATTTTATCC-ATCGAGGGTATTTTAGTA
1 ATTTTACCCTATAG-GGGTATTTCAGTA
23179010 ATTT
1 ATTT
23179014 CACAAATTTA
Statistics
Matches: 131, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
26 3 0.02
27 127 0.97
28 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCAGTA
Found at i:23191743 original size:34 final size:34
Alignment explanation
Indices: 23191703--23191776 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
23191693 GGTTTGAAAT
23191703 TTTCATGTATCGTGATCTGCCAATTCAATGCTTA
1 TTTCATGTATCGTGATCTGCCAATTCAATGCTTA
23191737 TTTCATGTATCGTGATCTGCCAATTCAATGCTTA
1 TTTCATGTATCGTGATCTGCCAATTCAATGCTTA
23191771 TTTCAT
1 TTTCAT
23191777 TGAAGGCAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (34 bp):
TTTCATGTATCGTGATCTGCCAATTCAATGCTTA
Found at i:23195689 original size:25 final size:25
Alignment explanation
Indices: 23195661--23196031 Score: 108
Period size: 26 Copynumber: 14.3 Consensus size: 25
23195651 TTTTCGCATA
23195661 TATTATTTATTTTAAATTGTTTTAT
1 TATTATTTATTTTAAATTGTTTTAT
23195686 TATTATTTATTTT-AA--GTTTT-T
1 TATTATTTATTTTAAATTGTTTTAT
* * * ** ** *
23195707 CA-CATGTATTTTAAACTACTTCAAAC
1 TATTATTTATTTTAAA-TTGTT-TTAT
**
23195733 TATTATCCATTTT-AATT-TTTTAT
1 TATTATTTATTTTAAATTGTTTTAT
* *
23195756 ATATTATTTATTTTTAAACTGTCACATATAT
1 -TATTATTTA-TTTTAAATTGT----TTTAT
*
23195787 TATTTATTTATTTT-TATTGTCTTTTTAT
1 TA-TTATTTATTTTAAATTG---TTTTAT
*
23195815 ATATATCATTTATTTTTTTAAACTGATTTT-T
1 -TAT-T-ATTTA---TTTTAAATTG-TTTTAT
* *
23195846 ATATTATTTATTTTAAACTTCTTTTTACA
1 -TATTATTTATTTTAAA-TT-GTTTTA-T
* *
23195875 TATTATTTATTTT-AA--GCCTTTAA
1 TATTATTTATTTTAAATTG-TTTTAT
*
23195898 TA-TA-TTATTTTAAATTGTCTTAT
1 TATTATTTATTTTAAATTGTTTTAT
* * *
23195921 ATGTTATTTATTTTAAATCG-CTTAGT
1 -TATTATTTATTTTAAATTGTTTTA-T
* *
23195947 ATATTATTTATTTTAATTTGTTTTACA
1 -TATTATTTATTTTAAATTGTTTTA-T
* *
23195974 TATTATTTACTTTAGATTGTTTTA-
1 TATTATTTATTTTAAATTGTTTTAT
* * *
23195998 TATTATTTACTTCAAATTGTTCTAT
1 TATTATTTATTTTAAATTGTTTTAT
23196023 ATATTATTT
1 -TATTATTT
23196032 TGTTTTGCTT
Statistics
Matches: 258, Mismatches: 47, Indels: 81
0.67 0.12 0.21
Matches are distributed among these distances:
20 8 0.03
21 11 0.04
22 9 0.03
23 7 0.03
24 40 0.16
25 24 0.09
26 72 0.28
27 18 0.07
28 18 0.07
29 11 0.04
30 12 0.05
31 16 0.06
32 5 0.02
33 4 0.02
34 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (25 bp):
TATTATTTATTTTAAATTGTTTTAT
Found at i:23195870 original size:26 final size:25
Alignment explanation
Indices: 23195824--23196031 Score: 113
Period size: 26 Copynumber: 8.2 Consensus size: 25
23195814 TATATATCAT
**
23195824 TTATTT-TTTTAAACTGATTTTTATA
1 TTATTTATTTTAAA-TTCTTTTTATA
23195849 TTATTTATTTTAAACTTCTTTTTACATA
1 TTATTTATTTTAAA-TTCTTTTT--ATA
* * *
23195877 TTATTTATTTT-AA-GCCTTTAATA
1 TTATTTATTTTAAATTCTTTTTATA
* * *
23195900 -TA-TTATTTTAAATTGTCTTATATG
1 TTATTTATTTTAAATTCT-TTTTATA
* **
23195924 TTATTTATTTTAAATCGCTTAGTATA
1 TTATTTATTTTAAAT-TCTTTTTATA
* * *
23195950 TTATTTATTTTAATTTGTTTTACATA
1 TTATTTATTTTAAATTCTTTT-TATA
* * *
23195976 TTATTTACTTTAGATT-GTTTTATA
1 TTATTTATTTTAAATTCTTTTTATA
* * * *
23196000 TTATTTACTTCAAATTGTTCTATATA
1 TTATTTATTTTAAATTCTT-TTTATA
23196026 TTATTT
1 TTATTT
23196032 TGTTTTGCTT
Statistics
Matches: 140, Mismatches: 31, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
21 7 0.05
22 4 0.03
23 3 0.02
24 21 0.15
25 18 0.13
26 70 0.50
27 3 0.02
28 14 0.10
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (25 bp):
TTATTTATTTTAAATTCTTTTTATA
Found at i:23208455 original size:51 final size:50
Alignment explanation
Indices: 23208396--23208534 Score: 174
Period size: 51 Copynumber: 2.7 Consensus size: 50
23208386 AGTGAAAGTG
23208396 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTA-CTGAATAGCT
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTATC-GAATAG-T
* * * *
23208447 -TCGATCACGTGTATAGTACTATATGCAGGCTACTACGTGTATCGAATAGT
1 AT-GATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTATCGAATAGT
* *
23208497 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 -ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
23208535 TGAATTGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 71 0.95
52 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTATCGAATAGT
Found at i:23208781 original size:16 final size:16
Alignment explanation
Indices: 23208760--23208791 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23208750 TGATTGAAAG
*
23208760 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
23208776 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
23208792 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:23210648 original size:45 final size:45
Alignment explanation
Indices: 23210524--23210809 Score: 206
Period size: 46 Copynumber: 6.4 Consensus size: 45
23210514 GGGTGTTACA
* * ** **
23210524 TTATCTCCCTGAAGTTGCAGTGGAGCAGGA-TAAAAATACACAAACC
1 TTATCTCCTTGAAGTTGCAGTGGAGCA-GATTGAAGCTAC-CAATTC
* * *
23210570 TTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGTTACCAATTC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATTC
* * * *
23210615 TTATCTCCTTGAAGTTCCAGCGGAGTAGATTGAAGCTA-CAAATC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATTC
* * * * * * *
23210659 TCT-TCTCCCTGAAATTACATTGGAGCAGATCGAAGCCA-CAATCC
1 T-TATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATTC
* * ** **
23210703 TTATCTCCCTGAAGTTGCAGTGGAGCAGGA-TAAAAATACCCAAACC
1 TTATCTCCTTGAAGTTGCAGTGGAGCA-GATTGAAGCTA-CCAATTC
* * **
23210749 TTATCT-CTCTAAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTC
1 TTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATTC
23210794 TTATCTCCTTGAAGTT
1 TTATCTCCTTGAAGTT
23210810 ACAGCAGAGT
Statistics
Matches: 189, Mismatches: 42, Indels: 19
0.76 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 62 0.33
45 59 0.31
46 67 0.35
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (45 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATTC
Found at i:23210832 original size:179 final size:179
Alignment explanation
Indices: 23210524--23210863 Score: 567
Period size: 179 Copynumber: 1.9 Consensus size: 179
23210514 GGGTGTTACA
*
23210524 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCTTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCTTAAAGTTGCA
* * * **
23210589 ATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATTGAAGCTAC
66 ATGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCAGAGTAGATCAAAGCTAC
23210654 AAATCTCTTCTCCCT-GAAATTACATTGGAGCAGATCGAAGCCACAATCC
131 AAATCTCTTCTCCCTAG-AATTACATTGGAGCAGATCGAAGCCACAATCC
*
23210703 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACCCAAACCTTATCT-CTCTAAAGTTGC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCT-TAAAGTTGC
*
23210767 AGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCAGAGTAGATCAAAGCTA
65 AATGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCAGAGTAGATCAAAGCTA
*
23210832 CAAGTCTCTTCTCCCTAGAATTACATTGGAGC
130 CAAATCTCTTCTCCCTAGAATTACATTGGAGC
23210864 GGACCGAGAC
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
178 2 0.01
179 147 0.98
180 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (179 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCTTAAAGTTGCA
ATGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCAGAGTAGATCAAAGCTAC
AAATCTCTTCTCCCTAGAATTACATTGGAGCAGATCGAAGCCACAATCC
Found at i:23212393 original size:25 final size:26
Alignment explanation
Indices: 23212365--23212419 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
23212355 ACTATTATCC
* *
23212365 ATTTTAAA-TTTTTTATATATTATTT
1 ATTTTAAACTGTTATATATATTATTT
23212390 ATTTTTAAACTGTTATATATATTATTT
1 A-TTTTAAACTGTTATATATATTATTT
23212417 ATT
1 ATT
23212420 ATTTTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.04
26 9 0.35
27 16 0.62
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTTAAACTGTTATATATATTATTT
Found at i:23212495 original size:25 final size:25
Alignment explanation
Indices: 23212450--23212631 Score: 101
Period size: 26 Copynumber: 7.2 Consensus size: 25
23212440 ATATATAATC
** *
23212450 TATTT-TTTTAAAACTGATTTTCTAT
1 TATTTATTTT-AAACTTCTTTTATAT
23212475 TATTTATTTTAAACTTCTTTTTACATAT
1 TATTTATTTTAAACTTC-TTTT--ATAT
* *
23212503 TATTTATTTCAAGC--CTTTTATA-
1 TATTTATTTTAAACTTCTTTTATAT
* * *
23212525 TA-TTATTTTAAATTGTCTTATATGT
1 TATTTATTTTAAACT-TCTTTTATAT
*
23212550 TATTTATTTTAAA-TCGCTTTGTATAT
1 TATTTATTTTAAACT-TCTTT-TATAT
* *
23212576 TATTTATTTT-AATTTGTTTTACATAT
1 TATTTATTTTAAACTTCTTTT--ATAT
* * *
23212602 TATTTACTTTAGA-TTGTTTTATAT
1 TATTTATTTTAAACTTCTTTTATAT
23212626 TATTTA
1 TATTTA
23212632 CTTCAAATTG
Statistics
Matches: 125, Mismatches: 18, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
21 8 0.06
22 2 0.02
23 3 0.02
24 17 0.14
25 25 0.20
26 54 0.43
27 1 0.01
28 15 0.12
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.60
Consensus pattern (25 bp):
TATTTATTTTAAACTTCTTTTATAT
Found at i:23212556 original size:26 final size:25
Alignment explanation
Indices: 23212472--23212656 Score: 137
Period size: 26 Copynumber: 7.3 Consensus size: 25
23212462 ACTGATTTTC
* *
23212472 TATTATTTATTTTAAACTTCTTTTTACA
1 TATTATTTATTTTAAA--T-TGTTTATA
* ***
23212500 TATTATTTA-TTTCAAGCCTTT-TA
1 TATTATTTATTTTAAATTGTTTATA
23212523 TA-TA-TTATTTTAAATTGTCTTATA
1 TATTATTTATTTTAAATTGT-TTATA
* * *
23212547 TGTTATTTATTTTAAATCGCTTTGTA
1 TATTATTTATTTTAAATTG-TTTATA
* *
23212573 TATTATTTATTTTAATTTGTTTTACA
1 TATTATTTATTTTAAATTG-TTTATA
* *
23212599 TATTATTTACTTTAGATTGTTT-TA
1 TATTATTTATTTTAAATTGTTTATA
* *
23212623 TATTATTTACTTCAAATTGTTCTATA
1 TATTATTTATTTTAAATTGTT-TATA
23212649 TATTATTT
1 TATTATTT
23212657 TGTTTCGTTT
Statistics
Matches: 125, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
21 3 0.02
22 8 0.06
23 5 0.04
24 26 0.21
25 6 0.05
26 62 0.50
27 6 0.05
28 9 0.07
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.60
Consensus pattern (25 bp):
TATTATTTATTTTAAATTGTTTATA
Found at i:23212643 original size:50 final size:48
Alignment explanation
Indices: 23212467--23212656 Score: 168
Period size: 50 Copynumber: 3.8 Consensus size: 48
23212457 TTAAAACTGA
* * * *
23212467 TTTTCTATTATTTATTTTAAACTTCTTTTTACATATTATTTATTTCAAGCC
1 TTTTATATTATTTATTTTAAA-TT-GTTTTACATATTATTTATTT-AATCG
* * *
23212518 TTTTATA-TA-TTATTTTAAATTGTCTTATATGTTATTTATTTTAAATCG
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTA-TTT-AATCG
* *
23212566 CTTTGTATATTATTTATTTTAATTTGTTTTACATATTATTTACTTTAGATTG
1 -TTT-TATATTATTTATTTTAAATTGTTTTACATATTATTTA-TTTA-ATCG
* * * *
23212618 TTTTATATTATTTACTTCAAATTGTTCTATATATTATTT
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATTT
23212657 TGTTTCGTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 13 0.11
48 8 0.07
49 13 0.11
50 37 0.32
51 12 0.11
52 31 0.27
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.61
Consensus pattern (48 bp):
TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTATTTAATCG
Found at i:23216066 original size:37 final size:37
Alignment explanation
Indices: 23216015--23216357 Score: 620
Period size: 37 Copynumber: 9.4 Consensus size: 37
23216005 TGACAAGTGG
23216015 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
*
23216052 AAAGTGATAGGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
23216089 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
23216126 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
23216163 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
23216200 AAAGTGAT-AGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
*
23216236 AAAGTGATAGGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
23216273 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
* **
23216310 AAAGTGATAGGTGGCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
23216346 -AAGTGATAAGTG
1 AAAGTGATAAGTG
23216358 ATCATACGTA
Statistics
Matches: 297, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
35 11 0.04
36 40 0.13
37 246 0.83
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (37 bp):
AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
Found at i:23216301 original size:184 final size:183
Alignment explanation
Indices: 23216015--23216357 Score: 634
Period size: 184 Copynumber: 1.9 Consensus size: 183
23216005 TGACAAGTGG
23216015 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGA
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGA
23216080 TCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACA
66 TCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACA
23216145 CTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
131 CTTATCTGATC-AGAAAC-AAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
23216200 AAAGTGAT-AGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGA
1 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGA
*
23216264 TCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACA
66 TCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACA
**
23216329 CTTATCTGATCAGGGACAAGTGATAAGTG
131 CTTATCTGATCAGAAACAAGTGATAAGTG
23216358 ATCATACGTA
Statistics
Matches: 155, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
182 12 0.08
183 4 0.03
184 131 0.85
185 8 0.05
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (183 bp):
AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGA
TCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACA
CTTATCTGATCAGAAACAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
Found at i:23217688 original size:58 final size:59
Alignment explanation
Indices: 23217611--23217729 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
23217601 CATGTGAACA
23217611 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
23217670 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
23217728 TG
1 TG
23217730 ATTTCGTGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 55 0.92
59 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.32
Consensus pattern (59 bp):
TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:23217720 original size:28 final size:28
Alignment explanation
Indices: 23217630--23217720 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
23217620 GTGATTCCGT
23217630 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
23217658 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
23217687 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
23217716 GTAAG
1 GTAAG
23217721 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:23217743 original size:49 final size:49
Alignment explanation
Indices: 23217671--23217813 Score: 223
Period size: 49 Copynumber: 2.9 Consensus size: 49
23217661 AGTGATATGT
* *
23217671 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* * *
23217720 GTGATATGTGATTTCGTGTAAGACCATGGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
23217769 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
23217814 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:23221028 original size:52 final size:52
Alignment explanation
Indices: 23220957--23221304 Score: 468
Period size: 52 Copynumber: 6.9 Consensus size: 52
23220947 ATCAAGTGAC
* **
23220957 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
23221009 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
23221061 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
23221107 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
23221159 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
23221205 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
23221257 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
23221305 AGTGATAAGT
Statistics
Matches: 264, Mismatches: 20, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
46 85 0.32
52 179 0.68
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:23221079 original size:98 final size:98
Alignment explanation
Indices: 23221009--23221315 Score: 438
Period size: 98 Copynumber: 3.1 Consensus size: 98
23220999 TGACAAGTGG
* *
23221009 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
23221074 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
23221107 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
23221172 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
23221205 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
23221270 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
23221303 AAAGTGATAAGTG
1 AAAGTGATAAGTG
23221316 GCTACACTTA
Statistics
Matches: 194, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
98 192 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:23221163 original size:150 final size:144
Alignment explanation
Indices: 23220943--23221304 Score: 580
Period size: 150 Copynumber: 2.4 Consensus size: 144
23220933 TTTGAGTACT
23220943 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
23221008 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
23221073 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
23221093 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
23221158 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
23221223 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* *
23221237 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
23221302 CAA
60 CAA
23221305 AGTGATAAGT
Statistics
Matches: 202, Mismatches: 4, Indels: 12
0.93 0.02 0.06
Matches are distributed among these distances:
144 44 0.22
150 158 0.78
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:23221323 original size:37 final size:37
Alignment explanation
Indices: 23221279--23221498 Score: 381
Period size: 37 Copynumber: 6.0 Consensus size: 37
23221269 GATAGCTTTA
*
23221279 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
23221316 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
23221353 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
23221390 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
23221427 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
23221464 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
23221499 ATCATACGTA
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 161 0.91
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:23224556 original size:19 final size:19
Alignment explanation
Indices: 23224528--23224574 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
23224518 AATTACTTTA
*
23224528 ATTCATATTTTAATTTTGG
1 ATTCACATTTTAATTTTGG
23224547 ATTCACATTTTAATTTTGG
1 ATTCACATTTTAATTTTGG
23224566 ATTCACATT
1 ATTCACATT
23224575 ACTAACTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.53
Consensus pattern (19 bp):
ATTCACATTTTAATTTTGG
Found at i:23225203 original size:28 final size:30
Alignment explanation
Indices: 23225166--23225235 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
23225156 TTTTTTTATA
* *
23225166 ATTTTATAAAATAA-ATTATG-ATTTTTAG
1 ATTTTTTAAAATAATATTATGAATATTTAG
* *
23225194 ATTTTTT-AAATAATTTTTTGACATATTTAG
1 ATTTTTTAAAATAATATTATGA-ATATTTAG
23225224 ATTTTTTAAAAT
1 ATTTTTTAAAAT
23225236 TATCATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 6 0.18
28 10 0.29
30 14 0.41
31 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (30 bp):
ATTTTTTAAAATAATATTATGAATATTTAG
Found at i:23228599 original size:26 final size:26
Alignment explanation
Indices: 23228568--23228620 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
23228558 AGAGATAAGC
23228568 GGTTAGAAAATACAGAGCGCAAGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
* *
23228594 GGTTAGAAAATACAGAGTGCATGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
23228620 G
1 G
23228621 CCTTTTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (26 bp):
GGTTAGAAAATACAGAGCGCAAGTAT
Found at i:23237755 original size:17 final size:17
Alignment explanation
Indices: 23237701--23237795 Score: 77
Period size: 17 Copynumber: 5.5 Consensus size: 17
23237691 TAGATTGCAT
23237701 AGTTGTGAGCTCATCCAA
1 AGTTGTGAGCTCA-CCAA
** *
23237719 A-TATGCAAGCTGAGCCAA
1 AGT-TGTGAGCTCA-CCAA
23237737 AGTTGTGAGCTCACCAA
1 AGTTGTGAGCTCACCAA
* *
23237754 AGATGTGAGCTCAGCAA
1 AGTTGTGAGCTCACCAA
* *
23237771 AGATGCGAGCTCAACC-A
1 AGTTGTGAGCTC-ACCAA
23237788 AGTTGTGA
1 AGTTGTGA
23237796 TCGATGCATG
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.62
18 22 0.36
19 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (17 bp):
AGTTGTGAGCTCACCAA
Found at i:23237788 original size:35 final size:36
Alignment explanation
Indices: 23237707--23237788 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 36
23237697 GCATAGTTGT
* * * * *
23237707 GAGCTCATCCAAATATGCAAGCTGAGCCAAAGTTGT
1 GAGCTCAACCAAAGATGCAAGCTCAGCCAAAGATGC
**
23237743 GAGCTC-ACCAAAGATGTGAGCTCAG-CAAAGATGC
1 GAGCTCAACCAAAGATGCAAGCTCAGCCAAAGATGC
23237777 GAGCTCAACCAA
1 GAGCTCAACCAA
23237789 GTTGTGATCG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
34 13 0.34
35 19 0.50
36 6 0.16
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (36 bp):
GAGCTCAACCAAAGATGCAAGCTCAGCCAAAGATGC
Found at i:23240041 original size:25 final size:24
Alignment explanation
Indices: 23240013--23240066 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
23240003 AATATGAAAA
*
23240013 AAATAACAAATATTTTTATACTAAT
1 AAATAACAAATA-TATTATACTAAT
* *
23240038 AAATGATAAATATATTATACTAAT
1 AAATAACAAATATATTATACTAAT
23240062 AAATA
1 AAATA
23240067 TTAAATCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAACAAATATATTATACTAAT
Found at i:23246185 original size:25 final size:24
Alignment explanation
Indices: 23246144--23246225 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 24
23246134 GTCATTAGGG
23246144 TTACCGAT-TTCAGCTCGTATGAGC
1 TTACCGATATTCAGCTCG-ATGAGC
*
23246168 TTACCGATACTCAGCTCGCATGAGC
1 TTACCGATATTCAGCTCG-ATGAGC
* * *
23246193 TTACCGTTATTCAACTCAGAGGAGC
1 TTACCGATATTCAGCTC-GATGAGC
23246218 TTACCGAT
1 TTACCGAT
23246226 TACAGATCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
24 8 0.16
25 40 0.82
26 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (24 bp):
TTACCGATATTCAGCTCGATGAGC
Found at i:23259494 original size:50 final size:50
Alignment explanation
Indices: 23259436--23259576 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 50
23259426 TATTGAGGTT
* *
23259436 ATGAGAGGTCCCATTTAAGACCATGTCTTGGACATGGCTTTGGCACCGAG
1 ATGAGAGGTCCCATATAAGACCATGTCTAGGACATGGCTTTGGCACCGAG
** * * * *
23259486 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATATAAGACCATGTCTAGGACATGGCTTTGGCACCGAG
* ** *
23259536 TTGAGAACTCCCATGTAAGACCATGTCTAGGACATGGCTTT
1 ATGAGAGGTCCCATATAAGACCATGTCTAGGACATGGCTTT
23259577 AACATGTTAA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCCCATATAAGACCATGTCTAGGACATGGCTTTGGCACCGAG
Found at i:23268769 original size:12 final size:10
Alignment explanation
Indices: 23268741--23268780 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
23268731 TATGAACATG
23268741 ATTAATTTTA
1 ATTAATTTTA
23268751 ATTAATTTTA
1 ATTAATTTTA
*
23268761 TAGTTAATTTTG
1 -A-TTAATTTTA
23268773 ATTAATTT
1 ATTAATTT
23268781 GGACTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 17 0.63
11 2 0.07
12 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:23284384 original size:68 final size:68
Alignment explanation
Indices: 23284304--23284442 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 68
23284294 TGTGGGCCAC
** *
23284304 TCAGTCGGTTATATGAATATAAAAAATTTGATCTCTTTCATTATCTTCTTAGCCGAATGGATGAT
1 TCAGTCGGTTATATGAATATAAAAAATTCCATCACTTTCATTATCTTCTTAGCCGAATGGATGAT
23284369 TAA
66 TAA
* **
23284372 TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTAGTTGAATGGATGAT
1 TCAGTCGGTTATATGAATATAAAAAATTCCATCACTTTCATTATCTTCTTAGCCGAATGGATGAT
*
23284437 TGA
66 TAA
23284440 TCA
1 TCA
23284443 TGAGCACTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.40
Consensus pattern (68 bp):
TCAGTCGGTTATATGAATATAAAAAATTCCATCACTTTCATTATCTTCTTAGCCGAATGGATGAT
TAA
Found at i:23287083 original size:38 final size:38
Alignment explanation
Indices: 23286983--23287084 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 38
23286973 GATTATCTAA
* * *
23286983 AGTCCTTCGGGGCGACGCCGTGTAAATGATTATCTACT
1 AGTCCTTCGGGGCGACACCATGTAAATGACTATCTACT
** * * * *
23287021 AGTCCTTTTGGGCAACACCTTGTAAATGGCTATCTATT
1 AGTCCTTCGGGGCGACACCATGTAAATGACTATCTACT
* *
23287059 GGTCCTTCGGGGCGACACAATGTAAA
1 AGTCCTTCGGGGCGACACCATGTAAA
23287085 AAATTTTCTA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
AGTCCTTCGGGGCGACACCATGTAAATGACTATCTACT
Found at i:23287121 original size:76 final size:73
Alignment explanation
Indices: 23286984--23287149 Score: 172
Period size: 76 Copynumber: 2.2 Consensus size: 73
23286974 ATTATCTAAA
* ** ** *
23286984 GTCCTTCGGGGCGACGCCGTGTAAATGATTATCTACTAGTCCTTTTGGGCAACACCTTGTAAATG
1 GTCCTTCGGGGCGACACAATGTAAAAAATTATCTACTAGTCCTTTTGCGCAACACCTTGTAAATG
*
23287049 GCTATCTATTG
66 G-TA--TATAG
* * **
23287060 GTCCTTCGGGGCGACACAATGTAAAAAATTTTCTACTGGTCCTTTTGCGTGACA-CTGTGTAAAT
1 GTCCTTCGGGGCGACACAATGTAAAAAATTATCTACTAGTCCTTTTGCGCAACACCT-TGTAAAT
23287124 GGTATATAG
65 GGTATATAG
* *
23287133 GTCCTTCGAGGTGACAC
1 GTCCTTCGGGGCGACAC
23287150 CTCAAAAGGG
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
73 19 0.25
75 4 0.05
76 53 0.70
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (73 bp):
GTCCTTCGGGGCGACACAATGTAAAAAATTATCTACTAGTCCTTTTGCGCAACACCTTGTAAATG
GTATATAG
Found at i:23297660 original size:27 final size:27
Alignment explanation
Indices: 23297630--23297930 Score: 354
Period size: 27 Copynumber: 11.1 Consensus size: 27
23297620 TATAATGGTA
*
23297630 ATTTTACCCTAT-GGGGGTATTTCAGTT
1 ATTTTACCCT-TCGAGGGTATTTCAGTT
* * *
23297657 ATTTTACCTTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCAGTT
* *
23297684 AGTTTACCCTTCGGGGGTATTTCAGTT
1 ATTTTACCCTTCGAGGGTATTTCAGTT
* *
23297711 ATTTTACCCTTCAAGGGTATTTCAATT
1 ATTTTACCCTTCGAGGGTATTTCAGTT
23297738 ATTTTACCCTTCGAGGGTATTTCAGTT
1 ATTTTACCCTTCGAGGGTATTTCAGTT
* * *
23297765 ATTTTACCCTTTGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTT
* * * *
23297792 ATTTTAACCTTTGAAGGTATTTCGGTT
1 ATTTTACCCTTCGAGGGTATTTCAGTT
* * * *
23297819 ATTTTGCCCTTTGAGGGTATTTTAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTT
*
23297846 ATTTTACCCTTCGGGGGTATTTCAGTT
1 ATTTTACCCTTCGAGGGTATTTCAGTT
* * *
23297873 ATTTTACCATTCGAGGGTATTT-TGATC
1 ATTTTACCCTTCGAGGGTATTTCAG-TT
*
23297900 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTT
23297927 ATTT
1 ATTT
23297931 GCCCATGAAT
Statistics
Matches: 233, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 230 0.99
28 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTT
Found at i:23308646 original size:64 final size:65
Alignment explanation
Indices: 23308567--23308693 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
23308557 GTTGTTCCGA
*
23308567 GTGTTAGTTTAGTTAATTATTATTGTA-ATTAGGCTT-TTTTGCACTTTTAGTCCCTATACCTTA
1 GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTT-CACTTTTAGTCCCTATACCTTA
23308630 G
65 G
* *
23308631 GTGTTAGTTAAGTTAATTATTATTGTAGCTTAGGCTTATTTTCACTTTTAGTCCCTGTACCTT
1 GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTTCACTTTTAGTCCCTATACCTT
23308694 GGTTGTAAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
64 26 0.45
65 28 0.48
66 4 0.07
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.50
Consensus pattern (65 bp):
GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTTCACTTTTAGTCCCTATACCTTAG
Found at i:23310216 original size:6 final size:6
Alignment explanation
Indices: 23310198--23310239 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
23310188 GCAAATGAAT
23310198 CATTTC TCATTTC CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
23310240 TGAGAAAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:23312130 original size:23 final size:22
Alignment explanation
Indices: 23312098--23312140 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
23312088 TTTATAACAT
* *
23312098 AAAAAAATTATTTCAAATTATC
1 AAAAAAATTAATTAAAATTATC
23312120 AAAACAAATTAATTAAAATTA
1 AAAA-AAATTAATTAAAATTA
23312141 ACATAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAAATTAATTAAAATTATC
Found at i:23316361 original size:25 final size:26
Alignment explanation
Indices: 23316319--23316372 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
23316309 TTCTCCTAAA
**
23316319 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATAGAATTA-TTAATAT
23316345 TTTCAA-TTTATAGAATTATTAATAT
1 TTTCAATTTTATAGAATTATTAATAT
23316370 TTT
1 TTT
23316373 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATAGAATTATTAATAT
Found at i:23328221 original size:23 final size:23
Alignment explanation
Indices: 23328195--23328312 Score: 164
Period size: 23 Copynumber: 5.1 Consensus size: 23
23328185 AGTGTTATTG
23328195 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
23328218 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
23328241 TTCAATAGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
23328264 ATCAGTGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
23328287 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
23328310 ATC
1 ATC
23328313 GGAGTGGCAC
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:23329555 original size:49 final size:49
Alignment explanation
Indices: 23329500--23329639 Score: 217
Period size: 49 Copynumber: 2.9 Consensus size: 49
23329490 CAATAAGTAA
* *
23329500 TATGTGATTCCGTGTAAGACCGTAGTTGGGCTATGGCATCGATATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* * *
23329549 TATGTGATTACGTGTAAGGCCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* *
23329598 TATGTGATTATGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
23329640 GAAAGTAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 81 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.34
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
Found at i:23332178 original size:25 final size:25
Alignment explanation
Indices: 23332150--23332275 Score: 100
Period size: 25 Copynumber: 5.1 Consensus size: 25
23332140 CTTGTACATA
23332150 TATGCTCAT-ACGAGCTATGAATCGG
1 TATGCTC-TCACGAGCTATGAATCGG
* * *
23332175 TATGCTCTCACAAGCTGTAAATCGG
1 TATGCTCTCACGAGCTATGAATCGG
* * *
23332200 TATGCTCTCAAGAGCTAAGATTCGG
1 TATGCTCTCACGAGCTATGAATCGG
* *
23332225 TAAGCTCTCAGGAG-T-TGCAATCGG
1 TATGCTCTCACGAGCTATG-AATCGG
*
23332249 TAAGCTCAT-ACGAGCTGA-GAATCGG
1 TATGCTC-TCACGAGCT-ATGAATCGG
23332274 TA
1 TA
23332276 ATCCCTAATG
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.01
24 18 0.22
25 61 0.75
26 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATGAATCGG
Found at i:23341301 original size:21 final size:21
Alignment explanation
Indices: 23341277--23341318 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23341267 ATTAGAGTAG
23341277 AAAGAAATTGGAAAGATGAAA
1 AAAGAAATTGGAAAGATGAAA
23341298 AAAGAAATTGGAAAGATGAAA
1 AAAGAAATTGGAAAGATGAAA
23341319 TTTTAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (21 bp):
AAAGAAATTGGAAAGATGAAA
Found at i:23343543 original size:40 final size:40
Alignment explanation
Indices: 23343425--23343544 Score: 159
Period size: 40 Copynumber: 3.0 Consensus size: 40
23343415 GCACACCAGT
* *
23343425 TTGTGGACAAGCCACCAATAATGCAGATAAACTGCCAGTA
1 TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCTAGTA
* * * *
23343465 TTATGGACAAGTCACCAGTAATACAGATAAACTACTAGTA
1 TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCTAGTA
* * *
23343505 TTGTGGACAAGCCACCAGTATTGCAGACAAGCTGCTAGTA
1 TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCTAGTA
23343545 ATTCCTCCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (40 bp):
TTGTGGACAAGCCACCAGTAATGCAGATAAACTGCTAGTA
Found at i:23353532 original size:3 final size:3
Alignment explanation
Indices: 23353520--23353599 Score: 146
Period size: 3 Copynumber: 27.3 Consensus size: 3
23353510 CCCTTATGCG
23353520 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
23353567 TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
23353600 TTATTTTCTA
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.05
3 71 0.95
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:23354160 original size:12 final size:12
Alignment explanation
Indices: 23354143--23354184 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
23354133 TGCGACACGA
23354143 CCATGTGTCAGG
1 CCATGTGTCAGG
23354155 CCATGTGGT-AGG
1 CCATGT-GTCAGG
* *
23354167 CTATGTGCCAGG
1 CCATGTGTCAGG
23354179 CCATGT
1 CCATGT
23354185 AGAGCACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.88
13 2 0.08
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (12 bp):
CCATGTGTCAGG
Found at i:23354541 original size:22 final size:23
Alignment explanation
Indices: 23354491--23354546 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
23354481 TTTATATGAA
**
23354491 AATATGTGAGTATGCATATCGTAT
1 AATATGTGA-TATAAATATCGTAT
23354515 AATATGTGATATAAATAT-GTAT
1 AATATGTGATATAAATATCGTAT
* *
23354537 GATATATGAT
1 AATATGTGAT
23354547 TATGATATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 12 0.43
23 7 0.25
24 9 0.32
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (23 bp):
AATATGTGATATAAATATCGTAT
Found at i:23354831 original size:22 final size:22
Alignment explanation
Indices: 23354803--23354847 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23354793 TAAGATATGC
*
23354803 TATGTTATGATTCGATATAATA
1 TATGTTATGATTCAATATAATA
* *
23354825 TATGTTATGCTTCAATATGATA
1 TATGTTATGATTCAATATAATA
23354847 T
1 T
23354848 GATACGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (22 bp):
TATGTTATGATTCAATATAATA
Found at i:23363946 original size:18 final size:19
Alignment explanation
Indices: 23363923--23363961 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
23363913 TGAAAAGCCT
*
23363923 GACGCTTTAAA-TAATTTA
1 GACGCTTTAAACAAATTTA
23363941 GACGCTTTAAACAAATTTA
1 GACGCTTTAAACAAATTTA
23363960 GA
1 GA
23363962 ATATGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (19 bp):
GACGCTTTAAACAAATTTA
Found at i:23366262 original size:37 final size:37
Alignment explanation
Indices: 23366220--23366294 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
23366210 GGCATATATG
*
23366220 TCATTTTTATAATTAATTTAAAATACTAGGTTGATTT
1 TCATTTTTATAATGAATTTAAAATACTAGGTTGATTT
*
23366257 TCATTTTTATAATGAATTTAAAATATTAGGTTGATTT
1 TCATTTTTATAATGAATTTAAAATACTAGGTTGATTT
23366294 T
1 T
23366295 TTTTTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (37 bp):
TCATTTTTATAATGAATTTAAAATACTAGGTTGATTT
Found at i:23368969 original size:4 final size:4
Alignment explanation
Indices: 23368960--23368985 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23368950 ACAACATTGG
23368960 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
23368986 AAGTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:23369451 original size:18 final size:17
Alignment explanation
Indices: 23369408--23369468 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
23369398 TAATTTTTGT
*
23369408 ATAAATTTGTAAAAAAA
1 ATAAATTTATAAAAAAA
23369425 TATTAAAATTTATAAAAATAA
1 -A-T-AAATTTATAAAAA-AA
*
23369446 ATAAATTTAAAAATAAAA
1 ATAAATTTATAAA-AAAA
23369464 ATAAA
1 ATAAA
23369469 AATAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 18 0.49
19 4 0.11
20 13 0.35
21 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAAATTTATAAAAAAA
Found at i:23369458 original size:16 final size:14
Alignment explanation
Indices: 23369436--23369484 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
23369426 ATTAAAATTT
23369436 ATAAAAATAAATAA
1 ATAAAAATAAATAA
23369450 ATTTAAAAAT-AA-AA
1 A--TAAAAATAAATAA
23369464 ATAAAAATAAATAA
1 ATAAAAATAAATAA
23369478 A-AAAAAT
1 ATAAAAAT
23369485 TTAAAAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
12 7 0.23
13 8 0.26
14 7 0.23
15 2 0.06
16 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:23369461 original size:12 final size:12
Alignment explanation
Indices: 23369444--23369490 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
23369434 TTATAAAAAT
23369444 AAATAAATTTAA
1 AAATAAATTTAA
**
23369456 AAATAAAAATAA
1 AAATAAATTTAA
23369468 AAATAAA--TAA
1 AAATAAATTTAA
23369478 AAA-AAATTTAA
1 AAATAAATTTAA
23369489 AA
1 AA
23369491 GTTAAGTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 3 0.10
10 6 0.19
11 5 0.16
12 17 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAATTTAA
Found at i:23369964 original size:19 final size:18
Alignment explanation
Indices: 23369903--23369967 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
23369893 TTTTTTGGAC
*
23369903 TTTTAAACTTTATTTAATAT
1 TTTTAAACTTT-TATAAT-T
*
23369923 TTTTATAA-TTTTATGAATG
1 TTTTA-AACTTTTAT-AATT
23369942 TTTTAAACTTTTATAAGTT
1 TTTTAAACTTTTATAA-TT
23369961 TTTTAAA
1 TTTTAAA
23369968 AAATATTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.11
19 21 0.55
20 11 0.29
21 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (18 bp):
TTTTAAACTTTTATAATT
Found at i:23379698 original size:46 final size:46
Alignment explanation
Indices: 23379557--23379849 Score: 385
Period size: 46 Copynumber: 6.6 Consensus size: 46
23379547 TACGTATGAT
*
23379557 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
23379601 CACTTATCACTTTGTCACTTGATCAAAAAAAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATC--AGATAAGTGTAGCTAAGGCTAC
23379649 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
23379695 CACTTATCACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
23379741 CATTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
23379777 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
23379823 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
23379850 AGTACTCAAA
Statistics
Matches: 222, Mismatches: 13, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
36 28 0.13
38 3 0.01
40 2 0.01
41 2 0.01
42 2 0.01
44 13 0.06
45 5 0.02
46 123 0.55
48 44 0.20
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:23379785 original size:36 final size:36
Alignment explanation
Indices: 23379744--23379813 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
23379734 AAGCTAACAT
23379744 TTATCACTTTGTCACTTGATCAGATAAGTATAGCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTATAGCAC
* *
23379780 TTATCACTTTTTCACTTGATCAGATAAGTGTAGC
1 TTATCACTTTGTCACTTGATCAGATAAGTATAGC
23379814 TAAAGCTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (36 bp):
TTATCACTTTGTCACTTGATCAGATAAGTATAGCAC
Found at i:23379832 original size:82 final size:82
Alignment explanation
Indices: 23379695--23379849 Score: 256
Period size: 82 Copynumber: 1.9 Consensus size: 82
23379685 CTAAGGCTAC
* *
23379695 CACTTATCACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTAACATTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTAACACTTATCACTTTATCACT
23379760 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
* * * *
23379777 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTAACACTTATCACTTTATCACT
23379842 TGATCAGA
66 TGATCAGA
23379850 AGTACTCAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTAACACTTATCACTTTATCACT
TGATCAGATAAGTATAG
Found at i:23408944 original size:23 final size:22
Alignment explanation
Indices: 23408901--23408944 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
23408891 TTGTAAGTCG
23408901 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
23408924 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
23408945 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:23409053 original size:45 final size:45
Alignment explanation
Indices: 23408989--23409082 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
23408979 AACAGATACT
* *
23408989 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
23409034 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
23409079 CGGT
1 CGGT
23409083 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:23409146 original size:51 final size:50
Alignment explanation
Indices: 23409079--23409263 Score: 228
Period size: 51 Copynumber: 3.7 Consensus size: 50
23409069 CAATGATGTT
* *
23409079 CGGTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCA-TACCATC
* * * * *
23409130 CGATACACGTAGTAGCCTACACATAGTACTACACATGTGATCGAAACTATT
1 CGGTACACGTAGTAGCCTACACATAGTACTACACATGTGA-CCATACCATC
* * * *
23409181 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATACCA-TC
*
23409231 CGGTACACGTAGTAGCCTGCACATAGTACTACA
1 CGGTACACGTAGTAGCCTACACATAGTACTACA
23409264 TACATGACCA
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 33 0.29
51 77 0.68
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCATACCATC
Found at i:23409294 original size:101 final size:101
Alignment explanation
Indices: 23409084--23409270 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 101
23409074 ATGTTCGGTT
23409084 CACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTA
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCA-TACCATCCGATACACGTAGTAGCCTA
** * *
23409149 CACATAGTACTACACATGTGATCGAAACTATTCGGTA
65 CACATAGTACTACACACATGATCCAAACTATTCCGTA
* * * * *
23409186 CGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCATACCA-TCCGATACACGTAGTAGCCTA
*
23409250 CACATAGTACTACATACATGA
65 CACATAGTACTACACACATGA
23409271 CCATCACTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 35 0.46
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
CACATAGTAGCCTACACATAGTACTACACATGTGACCATACCATCCGATACACGTAGTAGCCTAC
ACATAGTACTACACACATGATCCAAACTATTCCGTA
Done.