Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 120 of 120
Found at i:37025556 original size:33 final size:33
Alignment explanation
Indices: 37025485--37025558 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
37025475 TACCAACTTT
* * *
37025485 AAAAAAAAGTGTCAAGTTTAAGAATCAAATTAG
1 AAAAAAAAGTATCAAGTTTAAGAATAAAATTAA
* *
37025518 AAAAAAAA-TATCAAGTTTGAGTATAAAATTAA
1 AAAAAAAAGTATCAAGTTTAAGAATAAAATTAA
37025550 ACAAAAAAA
1 A-AAAAAAA
37025559 AATTTAAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (33 bp):
AAAAAAAAGTATCAAGTTTAAGAATAAAATTAA
Found at i:37031176 original size:24 final size:24
Alignment explanation
Indices: 37031168--37031218 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
37031158 AGTTTGACTT
37031168 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
37031192 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
37031216 AAA
1 AAA
37031219 GATTATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:37033095 original size:24 final size:24
Alignment explanation
Indices: 37033068--37033114 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
37033058 TTGACTCAAA
* *
37033068 CAAATAAATAGAGTTTAATTGAAG
1 CAAATAAACAGAATTTAATTGAAG
37033092 CAAATAAACAGAATTTAATTGAA
1 CAAATAAACAGAATTTAATTGAA
37033115 AGATTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.13, T:0.28
Consensus pattern (24 bp):
CAAATAAACAGAATTTAATTGAAG
Found at i:37058583 original size:3 final size:3
Alignment explanation
Indices: 37058565--37058612 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
37058555 TAATGTGAAG
37058565 GAA GAAA GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
37058610 GAA
1 GAA
37058613 TTGCCTCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:37075361 original size:15 final size:15
Alignment explanation
Indices: 37075343--37075375 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37075333 AAAAACAGTA
37075343 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
*
37075358 AAAAGAAAAAGAAAG
1 AAAAAAAAAAGAAAG
37075373 AAA
1 AAA
37075376 GCAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:37086328 original size:3 final size:3
Alignment explanation
Indices: 37086320--37086345 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37086310 TCACACTAGA
37086320 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
37086346 CACAGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37088354 original size:13 final size:14
Alignment explanation
Indices: 37088337--37088374 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
37088327 AATTTAAGAT
37088337 AATTAATTAATTCG
1 AATTAATTAATTCG
*
37088351 -ATTAATTAAATCG
1 AATTAATTAATTCG
37088364 AATTAATTAAT
1 AATTAATTAAT
37088375 AATGGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (14 bp):
AATTAATTAATTCG
Found at i:37088755 original size:19 final size:19
Alignment explanation
Indices: 37088716--37088771 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
37088706 TATAAAATAA
*
37088716 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-TAAAAT
*
37088736 TTAAAATAATTTTTAAAAT
1 TCAAAATAATTTTTAAAAT
*
37088755 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTTTAAAA
37088772 ATTTTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 9 0.28
19 11 0.34
20 12 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAAATAATTTTTAAAAT
Found at i:37088770 original size:18 final size:19
Alignment explanation
Indices: 37088705--37088771 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
37088695 TTAACAAAAA
37088705 TTATAAAATAATCAAAATAAT
1 TTATAAAAT--TCAAAATAAT
*
37088726 TT-TCAAAAATTTAAAATAAT
1 TTAT--AAAATTCAAAATAAT
*
37088746 TTTTAAAATTCAAAAT-AT
1 TTATAAAATTCAAAATAAT
37088764 TTATAAAA
1 TTATAAAA
37088772 ATTTTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 9 0.22
19 11 0.28
20 12 0.30
21 3 0.08
22 5 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
TTATAAAATTCAAAATAAT
Found at i:37088776 original size:27 final size:26
Alignment explanation
Indices: 37088727--37088826 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 26
37088717 CAAAATAATT
37088727 TTCAAAAATTTA-AAATAATTTTTAAAA
1 TTCAAAAATTTATAAA-AA-TTTTAAAA
*
37088754 TTCAAAATATTTATAAAAATTTTAAATT
1 TTCAAAA-ATTTATAAAAATTTTAAA-A
** * *
37088782 TTGTAAAATATATAGAAAATTTAAAAA
1 TTCAAAAATTTATA-AAAATTTTAAAA
*
37088809 TTTAAAAATTTTATAAAA
1 TTCAAAAA-TTTATAAAA
37088827 TAATAATTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
27 29 0.49
28 27 0.46
29 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
TTCAAAAATTTATAAAAATTTTAAAA
Found at i:37088780 original size:19 final size:18
Alignment explanation
Indices: 37088718--37088827 Score: 84
Period size: 19 Copynumber: 5.9 Consensus size: 18
37088708 TAAAATAATC
37088718 AAAATAATTTTCAAAAATTT
1 AAAAT-ATTTT-AAAAATTT
* *
37088738 AAAATAATTTTTAAAATTC
1 AAAAT-ATTTTAAAAATTT
37088757 AAAATATTTATAAAAATTT
1 AAAATATTT-TAAAAATTT
* *
37088776 TAAAT-TTTGTAAAATATAT
1 AAAATATTT-TAAAA-ATTT
37088795 AGAAA-A-TTTAAAAATTT
1 A-AAATATTTTAAAAATTT
37088812 AAAA-ATTTTATAAAAT
1 AAAATATTTTA-AAAAT
37088828 AATAATTTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
16 4 0.05
17 8 0.11
18 22 0.29
19 27 0.36
20 14 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATATTTTAAAAATTT
Found at i:37094994 original size:58 final size:58
Alignment explanation
Indices: 37094927--37095046 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 58
37094917 ACCCATCGAC
* *
37094927 AAACTAAACCCAAATATTTTTAAACCCACATATAATTTCATTCTTCAAA-AACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCAT
*
37094985 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
37095043 AAAC
1 AAAC
37095047 AACTCCTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 3 0.05
58 55 0.95
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.31
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:37099273 original size:17 final size:18
Alignment explanation
Indices: 37099238--37099276 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
37099228 CCATAATTTT
37099238 TAATTTTTATATTTCTAA
1 TAATTTTTATATTTCTAA
*
37099256 TAATTTTTAT-TTTTTAA
1 TAATTTTTATATTTCTAA
37099273 TAAT
1 TAAT
37099277 ACTACTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTTTTATATTTCTAA
Found at i:37100561 original size:27 final size:28
Alignment explanation
Indices: 37100506--37100598 Score: 93
Period size: 30 Copynumber: 3.3 Consensus size: 28
37100496 AATTTTTGTT
37100506 TTTTTTTTAATTTTTAAGGGGCCTCAAA
1 TTTTTTTTAATTTTTAAGGGGCCTCAAA
* *
37100534 TTTTTTTTAGTTTTTAA-GGG-TTCAAAA
1 TTTTTTTTAATTTTTAAGGGGCCTC-AAA
* *
37100561 TTTTTTTTACCAATTTTTAAGAGACCT-AAA
1 TTTTTTTT---AATTTTTAAGGGGCCTCAAA
37100591 TTTTTTTT
1 TTTTTTTT
37100599 TCTCTAACTT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 2 0.04
27 14 0.26
28 16 0.30
30 19 0.36
31 1 0.02
32 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.55
Consensus pattern (28 bp):
TTTTTTTTAATTTTTAAGGGGCCTCAAA
Found at i:37106147 original size:21 final size:20
Alignment explanation
Indices: 37106116--37106157 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
37106106 TTGAAATTAA
*
37106116 AAATGGAAAAGCTAAATCAT
1 AAATGGAAAAGCTAAACCAT
*
37106136 AAATGTGAAAAGTTAAACCAT
1 AAATG-GAAAAGCTAAACCAT
37106157 A
1 A
37106158 GCTTGCTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (20 bp):
AAATGGAAAAGCTAAACCAT
Found at i:37127829 original size:18 final size:18
Alignment explanation
Indices: 37127796--37127830 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37127786 ATTTCAACTC
* *
37127796 ACTTTCATTTATCACTTT
1 ACTTTCATATAACACTTT
37127814 ACTTTCATATAACACTT
1 ACTTTCATATAACACTT
37127831 CATTTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.49
Consensus pattern (18 bp):
ACTTTCATATAACACTTT
Found at i:37132532 original size:41 final size:41
Alignment explanation
Indices: 37132487--37132564 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
37132477 AAGTTAAAGA
*
37132487 TTATTATATA-TAAAAAAATTAATAA-ATAAAAATATATAAAT
1 TTATTAAATATTAAAAAAA--AATAACATAAAAATATATAAAT
* *
37132528 TTATTAAATATTAAATAAAAATAACATAAATATATAT
1 TTATTAAATATTAAAAAAAAATAACATAAAAATATAT
37132565 TTTTTAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.16
41 20 0.62
42 7 0.22
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (41 bp):
TTATTAAATATTAAAAAAAAATAACATAAAAATATATAAAT
Found at i:37134663 original size:31 final size:31
Alignment explanation
Indices: 37134628--37134692 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
37134618 AATAGTCTAG
*
37134628 TGACTTAAATAAAAACAT-TCAAATGATTTAA
1 TGACTTAAATAAAAAC-TCTCAAATAATTTAA
* *
37134659 TGACTTAAATGAAAACTCTCAATTAATTTAA
1 TGACTTAAATAAAAACTCTCAAATAATTTAA
37134690 TGA
1 TGA
37134693 TCATTTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.34
Consensus pattern (31 bp):
TGACTTAAATAAAAACTCTCAAATAATTTAA
Found at i:37138105 original size:20 final size:18
Alignment explanation
Indices: 37138082--37138130 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
37138072 ATTCAAGAGC
37138082 TAATTATTAAATAATTTAAA
1 TAATTATTAAAT--TTTAAA
*
37138102 TAATTTTTAAATTTTAAA
1 TAATTATTAAATTTTAAA
*
37138120 AAATTAATTAA
1 TAATT-ATTAA
37138131 TTGTTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
20 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTATTAAATTTTAAA
Found at i:37138132 original size:26 final size:28
Alignment explanation
Indices: 37138083--37138137 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
37138073 TTCAAGAGCT
* *
37138083 AATTATTAAATAATTTAAATAATTTTTA
1 AATTATTAAATAAATTAAATAATTGTTA
*
37138111 AATT-TTAAA-AAATTAATTAATTGTTA
1 AATTATTAAATAAATTAAATAATTGTTA
37138137 A
1 A
37138138 TATGAATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
AATTATTAAATAAATTAAATAATTGTTA
Found at i:37141672 original size:39 final size:39
Alignment explanation
Indices: 37141629--37141754 Score: 102
Period size: 39 Copynumber: 3.3 Consensus size: 39
37141619 TTCCCATGCA
37141629 TTGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACAT
1 TTGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACAT
* * ** * *
37141668 TTGCTTCTTCTT-CA-ATGG-TT-T--CCTTTTCCCCAT
1 TTGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACAT
**
37141701 GCAGCGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACAT
1 ---TTGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACAT
*
37141743 TTGCTTCCTCTT
1 TTGCTTCTTCTT
37141755 CAATGGTTTC
Statistics
Matches: 61, Mismatches: 17, Indels: 18
0.64 0.18 0.19
Matches are distributed among these distances:
33 8 0.13
35 1 0.02
36 12 0.20
37 4 0.07
38 4 0.07
39 23 0.38
40 1 0.02
42 8 0.13
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (39 bp):
TTGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACAT
Found at i:37141839 original size:75 final size:75
Alignment explanation
Indices: 37141611--37141828 Score: 384
Period size: 75 Copynumber: 2.9 Consensus size: 75
37141601 GGTGCTGCCA
**
37141611 TTTCCTTCTT-CCCATGCATTGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACATTTGCTTC
1 TTTCCTT-TTCCCCATGCAGCGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACATTTGCTTC
*
37141675 TTCTTCAATGG
65 CTCTTCAATGG
37141686 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACATTTGCTTCC
37141751 TCTTCAATGG
66 TCTTCAATGG
*
37141761 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTACTTGGCTTGTGGCAATTACCACATTTGCTTCC
1 TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACATTTGCTTCC
37141826 TCT
66 TCT
37141829 ACTATTGTTT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
74 2 0.01
75 136 0.99
ACGTcount: A:0.13, C:0.28, G:0.15, T:0.44
Consensus pattern (75 bp):
TTTCCTTTTCCCCATGCAGCGCTTCTTCTTGTACTTGGTTTGTGGCAATTACCACATTTGCTTCC
TCTTCAATGG
Found at i:37145357 original size:52 final size:52
Alignment explanation
Indices: 37145211--37145425 Score: 215
Period size: 52 Copynumber: 4.3 Consensus size: 52
37145201 TTTGTATTTG
* *
37145211 ATACTCACGATGACACAG-AGTCATCGAACCT-TTAATTCGTAATAGATTCAT
1 ATACTCACGATGACACAGTAGTCATCGGACCTCATAATTCGTAA-AGATTCAT
* * *
37145262 ATACTCACGATGACACA-TAGCCATCAGACCACATAA-TCTGTAAAGAATTCAT
1 ATACTCACGATGACACAGTAGTCATCGGACCTCATAATTC-GTAAAG-ATTCAT
37145314 ATACTCACGATGACA-AGTAGTCATCGGACCTCATAATTCGTAAAAGA--C--
1 ATACTCACGATGACACAGTAGTCATCGGACCTCATAATTCGT-AAAGATTCAT
* *
37145362 -T--T-ACGATGACAC-GTAGTCATCGGGCCTCATAATCCGTAAATGATTCAT
1 ATACTCACGATGACACAGTAGTCATCGGACCTCATAATTCGTAAA-GATTCAT
*
37145410 ATACTCACAATGACAC
1 ATACTCACGATGACAC
37145426 GTAATTATCG
Statistics
Matches: 136, Mismatches: 11, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
43 3 0.02
44 34 0.25
45 1 0.01
46 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
51 32 0.24
52 56 0.41
53 6 0.04
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACAGTAGTCATCGGACCTCATAATTCGTAAAGATTCAT
Found at i:37145647 original size:3 final size:3
Alignment explanation
Indices: 37145639--37145675 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
37145629 TTTGAGTATC
37145639 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37145676 TTATGTGTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37156412 original size:13 final size:13
Alignment explanation
Indices: 37156394--37156419 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37156384 TTTCAGTTCC
37156394 AACATTTTTGGTT
1 AACATTTTTGGTT
37156407 AACATTTTTGGTT
1 AACATTTTTGGTT
37156420 TTGCAGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
AACATTTTTGGTT
Found at i:37165179 original size:6 final size:6
Alignment explanation
Indices: 37165168--37165192 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37165158 TCTGTGCCAA
37165168 ACCTTC ACCTTC ACCTTC ACCTTC A
1 ACCTTC ACCTTC ACCTTC ACCTTC A
37165193 AACTTCATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.48, G:0.00, T:0.32
Consensus pattern (6 bp):
ACCTTC
Found at i:37180495 original size:15 final size:15
Alignment explanation
Indices: 37180477--37180506 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37180467 CCAAGAAAAT
37180477 CTGGAGCTCTTTTGA
1 CTGGAGCTCTTTTGA
*
37180492 CTGGAGTTCTTTTGA
1 CTGGAGCTCTTTTGA
37180507 TGTGGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.27, T:0.43
Consensus pattern (15 bp):
CTGGAGCTCTTTTGA
Found at i:37188871 original size:6 final size:6
Alignment explanation
Indices: 37188860--37188888 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
37188850 TAACAACAAA
37188860 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
37188889 GGAGGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:37191072 original size:17 final size:17
Alignment explanation
Indices: 37191042--37191118 Score: 77
Period size: 17 Copynumber: 4.4 Consensus size: 17
37191032 TTAAATTGAT
37191042 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
*
37191058 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
37191075 TTTAAAATTAAATGTTTAAA
1 TTT-AAATT-TAT-TTTAAA
*
37191095 TTT-AATTTGAATTTAAA
1 TTTAAATTT-ATTTTAAA
37191112 TTTAAAT
1 TTTAAAT
37191119 AAAAATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
16 9 0.18
17 18 0.36
18 12 0.24
19 2 0.04
20 9 0.18
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:37191101 original size:5 final size:6
Alignment explanation
Indices: 37191042--37191149 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
37191032 TTAAATTGAT
* * *
37191042 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** *
37191087 TGTTTAAA TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 --TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
37191137 TTTAACA TTTAAA
1 TTTAA-A TTTAAA
37191150 AGTCCAAATG
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 55 0.66
7 11 0.13
8 5 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:37191108 original size:31 final size:31
Alignment explanation
Indices: 37191058--37191118 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
37191048 TTTATTTAAA
* *
37191058 TTTAGATTTATTTTAAATTTAAAATTAAATG
1 TTTAAATTTAATTTAAATTTAAAATTAAATG
* *
37191089 TTTAAATTTAATTTGAATTTAAATTTAAAT
1 TTTAAATTTAATTTAAATTTAAAATTAAAT
37191119 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTAAATTTAATTTAAATTTAAAATTAAATG
Found at i:37191199 original size:14 final size:14
Alignment explanation
Indices: 37191180--37191211 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
37191170 TGGCCCACGA
37191180 CCCAATTACAATGG
1 CCCAATTACAATGG
37191194 CCCAATTACAATGG
1 CCCAATTACAATGG
37191208 CCCA
1 CCCA
37191212 TTTTTCGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.19
Consensus pattern (14 bp):
CCCAATTACAATGG
Found at i:37194632 original size:23 final size:23
Alignment explanation
Indices: 37194602--37194726 Score: 153
Period size: 23 Copynumber: 5.3 Consensus size: 23
37194592 ACACTAGCGC
* *
37194602 GCTCTCTGTTTAGCACGTCT-CGT
1 GCTCTCTGATTAGCAC-TCTGTGT
*
37194625 GCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTCTGTGT
37194648 GCTCTCTGATTAGCACTCTGTGT
1 GCTCTCTGATTAGCACTCTGTGT
* *
37194671 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTCTGTGT
* *
37194694 ACTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTCTGTGT
37194719 GCTCTCTG
1 GCTCTCTG
37194727 TTGCCTAGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 2 0.02
23 67 0.75
25 20 0.22
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.42
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTCTGTGT
Found at i:37194727 original size:25 final size:24
Alignment explanation
Indices: 37194602--37194752 Score: 145
Period size: 23 Copynumber: 6.4 Consensus size: 24
37194592 ACACTAGCGC
*
37194602 GCTCTCTGT-TTAGCAC-GTCTCGT
1 GCTCTCTGTATTAGCACTGTGT-GT
*
37194625 GCTCTCTG-ATTAGCACTATGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
*
37194648 GCTCTCTG-ATTAGCACTCTGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
* *
37194671 GCTCTCTG-ATTAGTACTTTGTGT
1 GCTCTCTGTATTAGCACTGTGTGT
*
37194694 ACTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-TATTAGCACTGTGTGT
*
37194719 GCTCTCTGT-TGCCTAGCACT-TATGT
1 GCTCTCTGTAT---TAGCACTGTGTGT
37194744 GCTCTCTGT
1 GCTCTCTGT
37194753 TAGTACTTTG
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
23 68 0.61
24 3 0.03
25 33 0.30
26 7 0.06
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.42
Consensus pattern (24 bp):
GCTCTCTGTATTAGCACTGTGTGT
Found at i:37197745 original size:13 final size:13
Alignment explanation
Indices: 37197727--37197791 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
37197717 TTAAACCAAG
37197727 CTTTTCAAAAGTA
1 CTTTTCAAAAGTA
37197740 CTTTTCAAAA-TCA
1 CTTTTCAAAAGT-A
37197753 CTTTTCTAAAA-TA
1 CTTTTC-AAAAGTA
* * *
37197766 CTTTTTAATAGCA
1 CTTTTCAAAAGTA
*
37197779 ATTTTCAAAAGTA
1 CTTTTCAAAAGTA
37197792 ATGCTAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.10
13 33 0.79
14 5 0.12
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (13 bp):
CTTTTCAAAAGTA
Found at i:37197756 original size:26 final size:26
Alignment explanation
Indices: 37197727--37197791 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
37197717 TTAAACCAAG
*
37197727 CTTTTCAAAAGTACTTTTCAAAATCA
1 CTTTTCAAAAGTACTTTTCAAAAGCA
* *
37197753 CTTTTCTAAAA-TACTTTTTAATAGCA
1 CTTTTC-AAAAGTACTTTTCAAAAGCA
*
37197779 ATTTTCAAAAGTA
1 CTTTTCAAAAGTA
37197792 ATGCTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 4 0.12
26 25 0.76
27 4 0.12
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (26 bp):
CTTTTCAAAAGTACTTTTCAAAAGCA
Found at i:37201752 original size:24 final size:24
Alignment explanation
Indices: 37201691--37201753 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
37201681 TAGAGTAATA
* *
37201691 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
37201715 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
37201739 GGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
37201754 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:37209640 original size:314 final size:315
Alignment explanation
Indices: 37208725--37209988 Score: 2476
Period size: 315 Copynumber: 4.0 Consensus size: 315
37208715 TTGTAGGGAT
37208725 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
1 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
37208790 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
66 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
37208855 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
131 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
37208920 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
196 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
37208985 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
261 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
37209040 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
1 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
37209105 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
66 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
37209170 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
131 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
37209235 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
196 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
37209300 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
261 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
37209355 GAAATAGGGGTATAAGTTAAAGACTTAAAA-GCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
1 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
37209419 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
66 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
37209484 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
131 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
37209549 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
196 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
37209614 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
261 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
37209669 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
1 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
37209734 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
66 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
** * *
37209799 AAAGTTAAAGGATTAGGGAAGCAAATCAACTTCATTTGCATTAGATATTGTTTAAATTTCACCTT
131 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
*
37209864 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTGTTATTGGTAGTTTGGTA
196 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
37209929 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
261 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
37209984 GAAAT
1 GAAAT
37209989 GAGGACTGTC
Statistics
Matches: 943, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
314 314 0.33
315 629 0.67
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (315 bp):
GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
Found at i:37209953 original size:629 final size:630
Alignment explanation
Indices: 37208725--37209988 Score: 2476
Period size: 629 Copynumber: 2.0 Consensus size: 630
37208715 TTGTAGGGAT
37208725 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
1 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
37208790 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
66 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
37208855 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
131 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
37208920 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
196 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
37208985 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTAGAAATAGGGG
261 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTAGAAATAGGGG
37209050 TATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCTTGGTTTGTTA
326 TATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCTTGGTTTGTTA
37209115 AATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAAAAAGTTAAAG
391 AATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAAAAAGTTAAAG
*
37209180 GATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCTTAATTTGGTA
456 GATTAGGGAAACAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCTTAATTTGGTA
37209245 GAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTAACATCCAGCC
521 GAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTAACATCCAGCC
37209310 TTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
586 TTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
37209355 GAAATAGGGGTATAAGTTAAAGACTTAAAA-GCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
1 GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
37209419 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
66 TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
37209484 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
131 AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
37209549 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
196 TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
37209614 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTAGAAATAGGGG
261 ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTAGAAATAGGGG
37209679 TATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCTTGGTTTGTTA
326 TATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCTTGGTTTGTTA
37209744 AATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAAAAAGTTAAAG
391 AATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAAAAAGTTAAAG
* * *
37209809 GATTAGGGAAGCAAATCAACTTCATTTGCATTAGATATTGTTTAAATTTCACCTTTAATTTGGTA
456 GATTAGGGAAACAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCTTAATTTGGTA
*
37209874 GAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTGTTATTGGTAGTTTGGTAACATCCAGCC
521 GAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTAACATCCAGCC
37209939 TTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
586 TTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
37209984 GAAAT
1 GAAAT
37209989 GAGGACTGTC
Statistics
Matches: 629, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
629 599 0.95
630 30 0.05
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (630 bp):
GAAATAGGGGTATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCT
TGGTTTGTTAAATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAA
AAAGTTAAAGGATTAGGGAAATAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCT
TAATTTGGTAGAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTA
ACATCCAGCCTTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTAGAAATAGGGG
TATAAGTTAAAGACTTAAAATGCTGCAGTCATCATTGAGTCTCAGCACCCCACCTTGGTTTGTTA
AATTTACTTCGTGTAAAAATATCATTCCTCTATAGCAATTTTTTTCATCTGTGAAAAAGTTAAAG
GATTAGGGAAACAAATCAACTTCATGTGCATTAGATATTGTTTAAATTTCACCCTTAATTTGGTA
GAGTAATTTGCTAGTAAAAGCTTTTAAATTAAAGTCTATTATTGGTAGTTTGGTAACATCCAGCC
TTTGTCTTTTGATCATGGATGGTTTTCTTTGGAAGTCCCAATGTA
Found at i:37217115 original size:105 final size:105
Alignment explanation
Indices: 37216928--37217141 Score: 401
Period size: 105 Copynumber: 2.0 Consensus size: 105
37216918 AATAAAAGAA
*
37216928 CAAGTTTATACAATTAGGAACTTAATTTTTGAGTTAAATTTGTTTCAGGCACTTGGTTGATGTGA
1 CAAGTTTATACAATTAGGAACTTAATTTTTGAGTTAAATTTGTTTCAGGCACTTGGTTGATGCGA
37216993 AAATGAGAAGAACAAGAAATTGGAGTCAAGGTCACGATAC
66 AAATGAGAAGAACAAGAAATTGGAGTCAAGGTCACGATAC
*
37217033 CAAGTTTATACAATTAGGAACTTAATTTTTGAGTTAAGTTTGTTTCAGGCACTTGGTTGATGCGA
1 CAAGTTTATACAATTAGGAACTTAATTTTTGAGTTAAATTTGTTTCAGGCACTTGGTTGATGCGA
*
37217098 AAATGAGAAGAATAAGAAATTGGAGTCAAGGTCACGATAC
66 AAATGAGAAGAACAAGAAATTGGAGTCAAGGTCACGATAC
37217138 CAAG
1 CAAG
37217142 GTGTTGATAT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (105 bp):
CAAGTTTATACAATTAGGAACTTAATTTTTGAGTTAAATTTGTTTCAGGCACTTGGTTGATGCGA
AAATGAGAAGAACAAGAAATTGGAGTCAAGGTCACGATAC
Found at i:37228616 original size:22 final size:23
Alignment explanation
Indices: 37228567--37228616 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
37228557 GTGAGAAGAA
*
37228567 ATAAAAGTTTTTGGAAAAAAAGT
1 ATAAAAGTTTTGGGAAAAAAAGT
**
37228590 A-AAAAGTTTTGGGGTAAAAA-T
1 ATAAAAGTTTTGGGAAAAAAAGT
37228611 ATAAAA
1 ATAAAA
37228617 TATTATAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.09
22 20 0.87
23 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (23 bp):
ATAAAAGTTTTGGGAAAAAAAGT
Found at i:37228653 original size:18 final size:18
Alignment explanation
Indices: 37228630--37228666 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37228620 TATAGTTTAA
* *
37228630 TATTCGATTTATTCGAAT
1 TATTCGAGTTATTCAAAT
37228648 TATTCGAGTTATTCAAAT
1 TATTCGAGTTATTCAAAT
37228666 T
1 T
37228667 CGAAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:37237999 original size:17 final size:18
Alignment explanation
Indices: 37237977--37238010 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37237967 TTGTTTATAA
37237977 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
37237994 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
37238011 AAATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:37244882 original size:25 final size:25
Alignment explanation
Indices: 37244854--37244909 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
37244844 CTTCAAATCG
*
37244854 AAATT-AAAACTAAAACCACAATCCA
1 AAATTGAAAACTAAAACCA-AAACCA
* *
37244879 AAATTGAAAACTCAAAGCAAAACCA
1 AAATTGAAAACTAAAACCAAAACCA
37244904 AAATTG
1 AAATTG
37244910 TAACCCCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.59, C:0.20, G:0.05, T:0.16
Consensus pattern (25 bp):
AAATTGAAAACTAAAACCAAAACCA
Found at i:37244919 original size:25 final size:25
Alignment explanation
Indices: 37244866--37244924 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
37244856 ATTAAAACTA
* *
37244866 AAACCACAATCCAAAATTGAAAACTC
1 AAACCA-AAACCAAAATTGAAAACCC
* * *
37244892 AAAGCAAAACCAAAATTGTAACCCC
1 AAACCAAAACCAAAATTGAAAACCC
37244917 AAACCAAA
1 AAACCAAA
37244925 GCTGAAGCCG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.56, C:0.27, G:0.05, T:0.12
Consensus pattern (25 bp):
AAACCAAAACCAAAATTGAAAACCC
Found at i:37245100 original size:19 final size:20
Alignment explanation
Indices: 37245056--37245106 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
37245046 AAACTCCAAA
* *
37245056 TCAAAACCAAGATCGAAACGC
1 TCAAAA-CAAAATAGAAACGC
37245077 T-AAAACAAAATAGAAAC-C
1 TCAAAACAAAATAGAAACGC
37245095 TCAAAACAAAAT
1 TCAAAACAAAAT
37245107 CAAAACCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
19 20 0.74
20 4 0.15
21 1 0.04
ACGTcount: A:0.59, C:0.22, G:0.08, T:0.12
Consensus pattern (20 bp):
TCAAAACAAAATAGAAACGC
Found at i:37245112 original size:19 final size:19
Alignment explanation
Indices: 37245056--37245113 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
37245046 AAACTCCAAA
* *
37245056 TCAAAACCAAGATCGAAACGC
1 TCAAAA-CAAAATCAAAAC-C
37245077 T-AAAACAAAAT-AGAAACC
1 TCAAAACAAAATCA-AAACC
37245095 TCAAAACAAAATCAAAACC
1 TCAAAACAAAATCAAAACC
37245114 CCAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.06
19 24 0.75
20 5 0.16
21 1 0.03
ACGTcount: A:0.59, C:0.24, G:0.07, T:0.10
Consensus pattern (19 bp):
TCAAAACAAAATCAAAACC
Found at i:37246649 original size:163 final size:163
Alignment explanation
Indices: 37246373--37246698 Score: 589
Period size: 163 Copynumber: 2.0 Consensus size: 163
37246363 AGCTCCAAAA
* *
37246373 TCTTAGGCTTTTGGTTACTCTTTTTCATTAAACAAAATTTCTTGGTTTAGAATTCTATTTAAACC
1 TCTTAGGCTTTTGGTTACTCTTTTTCATTAAACAAAATTTATTGGTTTAGAATTCCATTTAAACC
* *
37246438 TTAAATTAATATTCTTGCTAAGCAAAACATTGCTTGGGTCTGAGTTTTTCAATGGTTTTTATTTT
66 TTAAATTAATATTCTTGCTAAGCAAAACATTGCTTGGGTCTAAGTTTTTCAATGATTTTTATTTT
37246503 AATCACTAAGTTATTAAAATCGTTTTCATATGG
131 AATCACTAAGTTATTAAAATCGTTTTCATATGG
37246536 TCTTAGGCTTTTGGTTACTCTTTTTCATTAAACAAAATTTATTGGTTTAGAATTCCATTTAAACC
1 TCTTAGGCTTTTGGTTACTCTTTTTCATTAAACAAAATTTATTGGTTTAGAATTCCATTTAAACC
* *
37246601 TTAAATTAATATTCTTGCTTAGCAGAACATTGCTTGGGTCTAAGTTTTTCAATGATTTTTATTTT
66 TTAAATTAATATTCTTGCTAAGCAAAACATTGCTTGGGTCTAAGTTTTTCAATGATTTTTATTTT
*
37246666 AATCACTAAGTTGTTAAAATCGTTTTCATATGG
131 AATCACTAAGTTATTAAAATCGTTTTCATATGG
37246699 CTTTTTTCGT
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 156 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (163 bp):
TCTTAGGCTTTTGGTTACTCTTTTTCATTAAACAAAATTTATTGGTTTAGAATTCCATTTAAACC
TTAAATTAATATTCTTGCTAAGCAAAACATTGCTTGGGTCTAAGTTTTTCAATGATTTTTATTTT
AATCACTAAGTTATTAAAATCGTTTTCATATGG
Found at i:37249626 original size:50 final size:50
Alignment explanation
Indices: 37249525--37249626 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
37249515 TTATTTCTTG
* * ** *
37249525 ATGTGGGTTGAGTTACCCTAGGCAGAGTAAATTTTTGGGTCTTCTCTTTT
1 ATGTGAGTTGAGTTACCCTAGGCAAAGTAAATTTTTGGGTCTTAACATTT
*
37249575 ATGTGAGTTGAGTTACCCTAGGCAAAGTAATTTTTTGGGTCTTAACATTT
1 ATGTGAGTTGAGTTACCCTAGGCAAAGTAAATTTTTGGGTCTTAACATTT
37249625 AT
1 AT
37249627 TTCTTGGTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.41
Consensus pattern (50 bp):
ATGTGAGTTGAGTTACCCTAGGCAAAGTAAATTTTTGGGTCTTAACATTT
Found at i:37250974 original size:7 final size:7
Alignment explanation
Indices: 37250936--37251857 Score: 391
Period size: 7 Copynumber: 132.9 Consensus size: 7
37250926 TATGGTTCGA
*
37250936 GGGTTCG
1 GGGTTTG
*
37250943 GGGTTTA
1 GGGTTTG
* *
37250950 GGGCTTA
1 GGGTTTG
* *
37250957 GGGCTTA
1 GGGTTTG
37250964 GGGTTTG
1 GGGTTTG
37250971 GGGTTTG
1 GGGTTTG
**
37250978 GGGTCGG
1 GGGTTTG
**
37250985 GGGTCGG
1 GGGTTTG
*
37250992 GGGTTCG
1 GGGTTTG
* *
37250999 GGCTTCG
1 GGGTTTG
* *
37251006 GGCTCT-
1 GGGTTTG
*
37251012 GGGTTTA
1 GGGTTTG
*
37251019 GGGTTTA
1 GGGTTTG
*
37251026 GGGTTTA
1 GGGTTTG
*
37251033 GGGTTTA
1 GGGTTTG
*
37251040 GGGTTCG
1 GGGTTTG
* *
37251047 GGGCTCG
1 GGGTTTG
* **
37251054 GGGCTCA
1 GGGTTTG
*
37251061 GAGTTT-
1 GGGTTTG
37251067 -GG-TTG
1 GGGTTTG
*
37251072 GGGCTTG
1 GGGTTTG
*
37251079 GGGCTTCG
1 GGG-TTTG
37251087 GGGTTTG
1 GGGTTTG
37251094 GGGTTTG
1 GGGTTTG
*
37251101 GGG-TTC
1 GGGTTTG
* *
37251107 GGGTCTC
1 GGGTTTG
* *
37251114 GGGTCTC
1 GGGTTTG
* *
37251121 GGGTCTC
1 GGGTTTG
* *
37251128 GGGTCTC
1 GGGTTTG
*
37251135 GGGTCTG
1 GGGTTTG
*
37251142 GGGTCTG
1 GGGTTTG
*
37251149 GGGTCT-
1 GGGTTTG
*
37251155 GGGTCTTC
1 GGGT-TTG
*
37251163 GGGCTTG
1 GGGTTTG
* *
37251170 GGGCTCG
1 GGGTTTG
* *
37251177 GGGCTCG
1 GGGTTTG
*
37251184 GGGCTTG
1 GGGTTTG
* * *
37251191 AGG-CTC
1 GGGTTTG
*
37251197 GGGATTG
1 GGGTTTG
*
37251204 AGGTTTTG
1 GGGT-TTG
*
37251212 GGGTTTT
1 GGGTTTG
37251219 GGGTTTG
1 GGGTTTG
*
37251226 GGGGTTG
1 GGGTTTG
*
37251233 GGGGTTG
1 GGGTTTG
*
37251240 GGGTTCG
1 GGGTTTG
*
37251247 GGGTTTC
1 GGGTTTG
*
37251254 GGGTTCG
1 GGGTTTG
* *
37251261 GGCTTCG
1 GGGTTTG
* *
37251268 GGCTTCG
1 GGGTTTG
* *
37251275 GGCTTCG
1 GGGTTTG
* *
37251282 GGCTTCG
1 GGGTTTG
* *
37251289 GGCTTCG
1 GGGTTTG
* *
37251296 GGCTTCG
1 GGGTTTG
37251303 GGG-TTG
1 GGGTTTG
37251309 GCGG-TTG
1 G-GGTTTG
*
37251316 GGGGTTG
1 GGGTTTG
37251323 GGGTTTAG
1 GGGTTT-G
37251331 GGG-TTG
1 GGGTTTG
*
37251337 GGGTCTCG
1 GGGT-TTG
37251345 GGG-TTG
1 GGGTTTG
* *
37251351 GGGCTTC
1 GGGTTTG
* *
37251358 GGGCTTC
1 GGGTTTG
* *
37251365 GGGCTTC
1 GGGTTTG
* *
37251372 GGGCTTC
1 GGGTTTG
* *
37251379 GGGCTTA
1 GGGTTTG
*
37251386 GGGTTTA
1 GGGTTTG
*
37251393 GGGTTTA
1 GGGTTTG
*
37251400 GGGTTTA
1 GGGTTTG
*
37251407 GGGTTTA
1 GGGTTTG
37251414 GGGTTTAG
1 GGGTTT-G
*
37251422 GGGTTCG
1 GGGTTTG
*
37251429 GGGTTCG
1 GGGTTTG
*
37251436 GGGTTCG
1 GGGTTTG
*
37251443 GGGTTCG
1 GGGTTTG
37251450 GGG-TT-
1 GGGTTTG
* *
37251455 CGGTTTA
1 GGGTTTG
*
37251462 GGGTCTG
1 GGGTTTG
*
37251469 GGGTTCG
1 GGGTTTG
*
37251476 GGGTTCG
1 GGGTTTG
*
37251483 GGG-TTC
1 GGGTTTG
*
37251489 GGGTTTA
1 GGGTTTG
*
37251496 GGGTTTA
1 GGGTTTG
*
37251503 GGGTTTA
1 GGGTTTG
*
37251510 GGGTTTA
1 GGGTTTG
37251517 GGGTTTG
1 GGGTTTG
37251524 GGGTTTG
1 GGGTTTG
37251531 GGGTTTG
1 GGGTTTG
37251538 GGGTTTG
1 GGGTTTG
37251545 GGGTTTG
1 GGGTTTG
37251552 GGGTTTG
1 GGGTTTG
*
37251559 GGGTTCG
1 GGGTTTG
*
37251566 GGGTTCG
1 GGGTTTG
*
37251573 GGGTTCG
1 GGGTTTG
*
37251580 GGGTTCG
1 GGGTTTG
*
37251587 GGG-TTC
1 GGGTTTG
37251593 GGGTTTCG
1 GGGTTT-G
*
37251601 GGGTTCG
1 GGGTTTG
*
37251608 GGG-TTC
1 GGGTTTG
*
37251614 GGGTTCG
1 GGGTTTG
*
37251621 GGGTTCG
1 GGGTTTG
*
37251628 GGGTTCG
1 GGGTTTG
*
37251635 GGGTTCG
1 GGGTTTG
*
37251642 GGGTTCG
1 GGGTTTG
*
37251649 GGGTTCG
1 GGGTTTG
*
37251656 GGGTTCG
1 GGGTTTG
*
37251663 GGGTTCG
1 GGGTTTG
*
37251670 GGGTTCG
1 GGGTTTG
*
37251677 GGGTTCG
1 GGGTTTG
*
37251684 GGGTTCG
1 GGGTTTG
*
37251691 GGGTTCG
1 GGGTTTG
*
37251698 GGGTTCG
1 GGGTTTG
*
37251705 GGGTTCG
1 GGGTTTG
*
37251712 GGGTTCG
1 GGGTTTG
*
37251719 GGGTTTA
1 GGGTTTG
*
37251726 GGGTTTA
1 GGGTTTG
*
37251733 GGGTTTC
1 GGGTTTG
*
37251740 GGGTTTC
1 GGGTTTG
*
37251747 GGGTTTC
1 GGGTTTG
*
37251754 GGGTTTC
1 GGGTTTG
*
37251761 GGGTTTC
1 GGGTTTG
*
37251768 GGGTTTC
1 GGGTTTG
*
37251775 GGGTTTC
1 GGGTTTG
*
37251782 GGGTTTC
1 GGGTTTG
*
37251789 GGGTTTC
1 GGGTTTG
*
37251796 GGGTTTC
1 GGGTTTG
*
37251803 GGGTTTC
1 GGGTTTG
*
37251810 GGGTTTC
1 GGGTTTG
*
37251817 GGGTTTC
1 GGGTTTG
*
37251824 GGGTTTC
1 GGGTTTG
*
37251831 GGGTTTC
1 GGGTTTG
*
37251838 GGGTTTC
1 GGGTTTG
*
37251845 GGGTTTC
1 GGGTTTG
37251852 GGGTTT
1 GGGTTT
37251858 CGGGCTTCGG
Statistics
Matches: 807, Mismatches: 85, Indels: 46
0.86 0.09 0.05
Matches are distributed among these distances:
4 2 0.00
5 3 0.00
6 47 0.06
7 722 0.89
8 33 0.04
ACGTcount: A:0.03, C:0.13, G:0.51, T:0.34
Consensus pattern (7 bp):
GGGTTTG
Found at i:37251094 original size:15 final size:14
Alignment explanation
Indices: 37250964--37252039 Score: 400
Period size: 14 Copynumber: 76.7 Consensus size: 14
37250954 TTAGGGCTTA
*
37250964 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTCG
* *
37250978 GGG-TCGGGGGTCGG
1 GGGTTTGGGGTTC-G
* *
37250992 GGGTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * **
37251006 GGCTCT-GGGTTTA
1 GGGTTTGGGGTTCG
* **
37251019 GGGTTTAGGGTTTA
1 GGGTTTGGGGTTCG
*
37251033 GGGTTTAGGGTTCG
1 GGGTTTGGGGTTCG
* * * *
37251047 GGGCTCGGGGCTCA
1 GGGTTTGGGGTTCG
*
37251061 GAGTTT--GGTT-G
1 GGGTTTGGGGTTCG
*
37251072 GGGCTTGGGGCTTCG
1 GGGTTTGGGG-TTCG
*
37251087 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTCG
*
37251101 GGG-TTCGGGTCTC-
1 GGGTTTGGGGT-TCG
* *
37251114 GGGTCTCGGGTCTC-
1 GGGTTTGGGGT-TCG
* *
37251128 GGGTCTCGGG-TCTG
1 GGGTTTGGGGTTC-G
* *
37251142 GGGTCTGGGG-TCT
1 GGGTTTGGGGTTCG
*
37251155 GGGTCTTCGGGCTT-G
1 GGGT-TT-GGGGTTCG
* * *
37251170 GGGCTCGGGGCTCG
1 GGGTTTGGGGTTCG
* * *
37251184 GGGCTTGAGGCTC-
1 GGGTTTGGGGTTCG
* * *
37251197 GGGATTGAGGTTTTG
1 GGGTTTG-GGGTTCG
* *
37251212 GGGTTTTGGGTTTGG
1 GGG-TTTGGGGTTCG
*
37251227 GGGTTGGGGGTT-G
1 GGGTTTGGGGTTCG
*
37251240 GGGTTCGGGGTTTC-
1 GGGTTTGGGG-TTCG
* *
37251254 GGGTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251268 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251282 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* *
37251296 GGCTTCGGGGTT-G
1 GGGTTTGGGGTTCG
*
37251309 GCGGTTGGGGGTT-G
1 G-GGTTTGGGGTTCG
37251323 GGGTTTAGGGGTT-G
1 GGGTTT-GGGGTTCG
*
37251337 GGGTCTCGGGGTT-G
1 GGGT-TTGGGGTTCG
* *
37251351 GGGCTTCGGGCTTCG
1 GGG-TTTGGGGTTCG
* * *
37251366 GGCTTCGGGCTTCGGG
1 GGGTTTGGGGTTC--G
* **
37251382 CTTAGGGTTTAGGGTTTA
1 ----GGGTTTGGGGTTCG
* **
37251400 GGGTTTAGGGTTTA
1 GGGTTTGGGGTTCG
37251414 GGGTTTAGGGGTTCG
1 GGGTTT-GGGGTTCG
*
37251429 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251443 GGGTTCGGGGTTC-
1 GGGTTTGGGGTTCG
*
37251456 -GGTTTAGGG-TCTG
1 GGGTTTGGGGTTC-G
*
37251469 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
* **
37251483 GGG-TTCGGGTTTA
1 GGGTTTGGGGTTCG
* **
37251496 GGGTTTAGGGTTTA
1 GGGTTTGGGGTTCG
* *
37251510 GGGTTTAGGGTTTG
1 GGGTTTGGGGTTCG
*
37251524 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTCG
*
37251538 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTCG
37251552 GGGTTTGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251566 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251580 GGGTTCGGGGTTC-
1 GGGTTTGGGGTTCG
37251593 GGGTTTCGGGGTTCG
1 GGGTTT-GGGGTTCG
*
37251608 GGG-TTCGGGTTCG
1 GGGTTTGGGGTTCG
*
37251621 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251635 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251649 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251663 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251677 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251691 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
*
37251705 GGGTTCGGGGTTCG
1 GGGTTTGGGGTTCG
* **
37251719 GGGTTTAGGGTTTA
1 GGGTTTGGGGTTCG
*
37251733 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251747 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251761 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251775 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251789 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251803 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251817 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251831 GGGTTTCGGGTTTC-
1 GGGTTT-GGGGTTCG
*
37251845 GGGTTTCGGGTTTCG
1 GGGTTT-GGGGTTCG
* * *
37251860 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251874 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251888 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251902 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251916 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251930 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251944 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251958 GGCTTCGGGCTTCG
1 GGGTTTGGGGTTCG
* * *
37251972 GGCTTCGGGCTTC-
1 GGGTTTGGGGTTCG
* *
37251985 GGGTTTCGGGCTTGG
1 GGGTTT-GGGGTTCG
* *
37252000 GGGCTTGGGGCTTGG
1 GGGTTTGGGG-TTCG
* *
37252015 GGGCTTGGGGCTTGG
1 GGGTTTGGGG-TTCG
*
37252030 GGGCTTGGGG
1 GGGTTTGGGG
Statistics
Matches: 912, Mismatches: 104, Indels: 91
0.82 0.09 0.08
Matches are distributed among these distances:
11 6 0.01
12 12 0.01
13 86 0.09
14 698 0.77
15 97 0.11
16 5 0.01
20 8 0.01
ACGTcount: A:0.02, C:0.15, G:0.50, T:0.33
Consensus pattern (14 bp):
GGGTTTGGGGTTCG
Found at i:37251101 original size:22 final size:21
Alignment explanation
Indices: 37251069--37251109 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
37251059 CAGAGTTTGG
37251069 TTGGGGCTTGGGGCTTCGGGGT
1 TTGGGGCTTGGGG-TTCGGGGT
*
37251091 TTGGGGTTTGGGGTTCGGG
1 TTGGGGCTTGGGGTTCGGG
37251110 TCTCGGGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.00, C:0.10, G:0.56, T:0.34
Consensus pattern (21 bp):
TTGGGGCTTGGGGTTCGGGGT
Found at i:37251107 original size:21 final size:21
Alignment explanation
Indices: 37251069--37251868 Score: 436
Period size: 21 Copynumber: 37.9 Consensus size: 21
37251059 CAGAGTTTGG
*
37251069 TTGGGGCTTGGGGCTTCGGGGT
1 TTGGGGTTTGGGG-TTCGGGGT
37251091 TTGGGGTTTGGGGTTC-GGGT
1 TTGGGGTTTGGGGTTCGGGGT
* * * *
37251111 CTCGGGTCTCGGGTCTCGGGTCTCGGGT
1 TTGGGGTTTGGGGT-TC--G----GGGT
* * *
37251139 CTGGGGTCTGGGG-TCTGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* * * *
37251159 CTTCGGGCTTGGGGCTCGGGGC
1 -TTGGGGTTTGGGGTTCGGGGT
* * * * *
37251181 TCGGGGCTTGAGGCTC-GGGA
1 TTGGGGTTTGGGGTTCGGGGT
* **
37251201 TTGAGGTTTTGGGGTTTTGGGT
1 TTG-GGGTTTGGGGTTCGGGGT
*
37251223 TTGGGGGTTGGGGGTT-GGGGT
1 TT-GGGGTTTGGGGTTCGGGGT
* * *
37251244 TCGGGGTTTCGGGTTCGGGCT
1 TTGGGGTTTGGGGTTCGGGGT
* * * * *
37251265 TCGGGCTTCGGGCTTCGGGCT
1 TTGGGGTTTGGGGTTCGGGGT
* * * *
37251286 TCGGGCTTCGGGCTTCGGGG-
1 TTGGGGTTTGGGGTTCGGGGT
*
37251306 TTGGCGGTTGGGGGTT-GGGGT
1 TTGG-GGTTTGGGGTTCGGGGT
37251327 TTAGGGG-TTGGGGTCTCGGGG-
1 TT-GGGGTTTGGGGT-TCGGGGT
* * *
37251348 TTGGGGCTTCGGGCTTCGGGCT
1 TTGGGG-TTTGGGGTTCGGGGT
* * * * *
37251370 TCGGGCTTCGGGCTT-AGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* * **
37251390 TTAGGGTTTAGGGTTTAGGGT
1 TTGGGGTTTGGGGTTCGGGGT
*
37251411 TTAGGGTTTAGGGGTTCGGGGT
1 TTGGGGTTT-GGGGTTCGGGGT
* *
37251433 TCGGGGTTCGGGGTTCGGGG-
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251453 TT-CGGTTTAGGG-TCTGGGGT
1 TTGGGGTTTGGGGTTC-GGGGT
* *
37251473 TCGGGGTTCGGGGTTC-GGGT
1 TTGGGGTTTGGGGTTCGGGGT
* * **
37251493 TTAGGGTTTAGGGTTTAGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251514 TTAGGGTTTGGGGTTTGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
*
37251535 TTGGGGTTTGGGGTTTGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
*
37251556 TTGGGGTTCGGGGTTCGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251577 TCGGGGTTCGGGGTTC-GGGT
1 TTGGGGTTTGGGGTTCGGGGT
*
37251597 TTCGGGGTTCGGGGTTC-GGGT
1 TT-GGGGTTTGGGGTTCGGGGT
* *
37251618 TCGGGGTTCGGGGTTCGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251639 TCGGGGTTCGGGGTTCGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251660 TCGGGGTTCGGGGTTCGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251681 TCGGGGTTCGGGGTTCGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251702 TCGGGGTTCGGGGTTCGGGGT
1 TTGGGGTTTGGGGTTCGGGGT
* *
37251723 TTAGGGTTTAGGGTTTC-GGGT
1 TTGGGGTTT-GGGGTTCGGGGT
* *
37251744 TTCGGGTTTCGGGTTTC-GGGT
1 TTGGGGTTT-GGGGTTCGGGGT
* *
37251765 TTCGGGTTTCGGGTTTC-GGGT
1 TTGGGGTTT-GGGGTTCGGGGT
* *
37251786 TTCGGGTTTCGGGTTTC-GGGT
1 TTGGGGTTT-GGGGTTCGGGGT
* *
37251807 TTCGGGTTTCGGGTTTC-GGGT
1 TTGGGGTTT-GGGGTTCGGGGT
* *
37251828 TTCGGGTTTCGGGTTTC-GGGT
1 TTGGGGTTT-GGGGTTCGGGGT
* *
37251849 TTCGGGTTTCGGGCTTCGGG
1 TTGGGGTTT-GGGGTTCGGG
37251869 CTTCGGGCTT
Statistics
Matches: 656, Mismatches: 89, Indels: 66
0.81 0.11 0.08
Matches are distributed among these distances:
18 2 0.00
19 11 0.02
20 99 0.15
21 454 0.69
22 72 0.11
23 1 0.00
26 2 0.00
28 15 0.02
ACGTcount: A:0.02, C:0.13, G:0.51, T:0.34
Consensus pattern (21 bp):
TTGGGGTTTGGGGTTCGGGGT
Found at i:37251235 original size:6 final size:7
Alignment explanation
Indices: 37251226--37251994 Score: 669
Period size: 7 Copynumber: 110.4 Consensus size: 7
37251216 TTTGGGTTTG
*
37251226 GGGGTTG
1 GGGGTTC
37251233 GGGGTT-
1 GGGGTTC
37251239 GGGGTTC
1 GGGGTTC
37251246 GGGGTTTC
1 GGGG-TTC
37251254 -GGGTTC
1 GGGGTTC
*
37251260 GGGCTTC
1 GGGGTTC
*
37251267 GGGCTTC
1 GGGGTTC
*
37251274 GGGCTTC
1 GGGGTTC
*
37251281 GGGCTTC
1 GGGGTTC
*
37251288 GGGCTTC
1 GGGGTTC
*
37251295 GGGCTTC
1 GGGGTTC
37251302 GGGGTT-
1 GGGGTTC
*
37251308 GGCGGTTG
1 GG-GGTTC
37251316 GGGGTT-
1 GGGGTTC
*
37251322 GGGGTTTA
1 GGGG-TTC
37251330 GGGGTT-
1 GGGGTTC
37251336 GGGGTCTC
1 GGGGT-TC
37251344 GGGGTT-
1 GGGGTTC
37251350 GGGGCTTC
1 GGGG-TTC
*
37251358 GGGCTTC
1 GGGGTTC
*
37251365 GGGCTTC
1 GGGGTTC
*
37251372 GGGCTTC
1 GGGGTTC
* *
37251379 GGGCTTA
1 GGGGTTC
* *
37251386 GGGTTTA
1 GGGGTTC
* *
37251393 GGGTTTA
1 GGGGTTC
* *
37251400 GGGTTTA
1 GGGGTTC
* *
37251407 GGGTTTA
1 GGGGTTC
* *
37251414 GGGTTTA
1 GGGGTTC
37251421 GGGGTTC
1 GGGGTTC
37251428 GGGGTTC
1 GGGGTTC
37251435 GGGGTTC
1 GGGGTTC
37251442 GGGGTTC
1 GGGGTTC
37251449 GGGGTTC
1 GGGGTTC
*
37251456 --GGTTT
1 GGGGTTC
*
37251461 AGGG-TC
1 GGGGTTC
37251467 TGGGGTTC
1 -GGGGTTC
37251475 GGGGTTC
1 GGGGTTC
37251482 GGGGTTC
1 GGGGTTC
*
37251489 -GGGTTT
1 GGGGTTC
* *
37251495 AGGGTTT
1 GGGGTTC
* *
37251502 AGGGTTT
1 GGGGTTC
* *
37251509 AGGGTTT
1 GGGGTTC
* *
37251516 AGGGTTT
1 GGGGTTC
*
37251523 GGGGTTT
1 GGGGTTC
*
37251530 GGGGTTT
1 GGGGTTC
*
37251537 GGGGTTT
1 GGGGTTC
*
37251544 GGGGTTT
1 GGGGTTC
*
37251551 GGGGTTT
1 GGGGTTC
37251558 GGGGTTC
1 GGGGTTC
37251565 GGGGTTC
1 GGGGTTC
37251572 GGGGTTC
1 GGGGTTC
37251579 GGGGTTC
1 GGGGTTC
37251586 GGGGTTC
1 GGGGTTC
*
37251593 GGGTTTC
1 GGGGTTC
37251600 GGGGTTC
1 GGGGTTC
37251607 GGGGTTC
1 GGGGTTC
37251614 -GGGTTC
1 GGGGTTC
37251620 GGGGTTC
1 GGGGTTC
37251627 GGGGTTC
1 GGGGTTC
37251634 GGGGTTC
1 GGGGTTC
37251641 GGGGTTC
1 GGGGTTC
37251648 GGGGTTC
1 GGGGTTC
37251655 GGGGTTC
1 GGGGTTC
37251662 GGGGTTC
1 GGGGTTC
37251669 GGGGTTC
1 GGGGTTC
37251676 GGGGTTC
1 GGGGTTC
37251683 GGGGTTC
1 GGGGTTC
37251690 GGGGTTC
1 GGGGTTC
37251697 GGGGTTC
1 GGGGTTC
37251704 GGGGTTC
1 GGGGTTC
37251711 GGGGTTC
1 GGGGTTC
*
37251718 GGGGTTTA
1 GGGG-TTC
* *
37251726 GGGTTTA
1 GGGGTTC
*
37251733 GGGTTTC
1 GGGGTTC
*
37251740 GGGTTTC
1 GGGGTTC
*
37251747 GGGTTTC
1 GGGGTTC
*
37251754 GGGTTTC
1 GGGGTTC
*
37251761 GGGTTTC
1 GGGGTTC
*
37251768 GGGTTTC
1 GGGGTTC
*
37251775 GGGTTTC
1 GGGGTTC
*
37251782 GGGTTTC
1 GGGGTTC
*
37251789 GGGTTTC
1 GGGGTTC
*
37251796 GGGTTTC
1 GGGGTTC
*
37251803 GGGTTTC
1 GGGGTTC
*
37251810 GGGTTTC
1 GGGGTTC
*
37251817 GGGTTTC
1 GGGGTTC
*
37251824 GGGTTTC
1 GGGGTTC
*
37251831 GGGTTTC
1 GGGGTTC
*
37251838 GGGTTTC
1 GGGGTTC
*
37251845 GGGTTTC
1 GGGGTTC
*
37251852 GGGTTTC
1 GGGGTTC
*
37251859 GGGCTTC
1 GGGGTTC
*
37251866 GGGCTTC
1 GGGGTTC
*
37251873 GGGCTTC
1 GGGGTTC
*
37251880 GGGCTTC
1 GGGGTTC
*
37251887 GGGCTTC
1 GGGGTTC
*
37251894 GGGCTTC
1 GGGGTTC
*
37251901 GGGCTTC
1 GGGGTTC
*
37251908 GGGCTTC
1 GGGGTTC
*
37251915 GGGCTTC
1 GGGGTTC
*
37251922 GGGCTTC
1 GGGGTTC
*
37251929 GGGCTTC
1 GGGGTTC
*
37251936 GGGCTTC
1 GGGGTTC
*
37251943 GGGCTTC
1 GGGGTTC
*
37251950 GGGCTTC
1 GGGGTTC
*
37251957 GGGCTTC
1 GGGGTTC
*
37251964 GGGCTTC
1 GGGGTTC
*
37251971 GGGCTTC
1 GGGGTTC
*
37251978 GGGCTTC
1 GGGGTTC
*
37251985 GGGTTTC
1 GGGGTTC
37251992 GGG
1 GGG
37251995 CTTGGGGGCT
Statistics
Matches: 724, Mismatches: 20, Indels: 36
0.93 0.03 0.05
Matches are distributed among these distances:
5 4 0.01
6 36 0.05
7 660 0.91
8 24 0.03
ACGTcount: A:0.02, C:0.15, G:0.50, T:0.34
Consensus pattern (7 bp):
GGGGTTC
Found at i:37252005 original size:8 final size:8
Alignment explanation
Indices: 37251992--37252039 Score: 82
Period size: 8 Copynumber: 6.2 Consensus size: 8
37251982 TTCGGGTTTC
37251992 GGGCTTGG
1 GGGCTTGG
37252000 GGGCTT-G
1 GGGCTTGG
37252007 GGGCTTGG
1 GGGCTTGG
37252015 GGGCTT-G
1 GGGCTTGG
37252022 GGGCTTGG
1 GGGCTTGG
37252030 GGGCTTGG
1 GGGCTTGG
37252038 GG
1 GG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.37
8 24 0.63
ACGTcount: A:0.00, C:0.12, G:0.62, T:0.25
Consensus pattern (8 bp):
GGGCTTGG
Done.