Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 70 of 136
Found at i:23070532 original size:28 final size:28
Alignment explanation
Indices: 23070485--23070579 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 28
23070475 ATAAATAAGT
* *
23070485 ATTATATTAATTATATTATTATAATATTA
1 ATTATAAT-ATTATAATATTATAATATTA
*
23070514 ATTATAATATTATAATATTACAATATTA
1 ATTATAATATTATAATATTATAATATTA
23070542 ATTATAATATTATAATA-T-T-ATATTA
1 ATTATAATATTATAATATTATAATATTA
*
23070567 ATTATATTATTAT
1 ATTATAATATTAT
23070580 TTGGGTTTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
25 18 0.30
27 1 0.02
28 35 0.57
29 7 0.11
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATAATATTATAATATTATAATATTA
Found at i:23071466 original size:25 final size:25
Alignment explanation
Indices: 23071438--23071524 Score: 147
Period size: 25 Copynumber: 3.5 Consensus size: 25
23071428 ACTTTAGCGC
23071438 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
23071463 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
* **
23071488 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACGTTGGT
23071513 GCTCTCTGATTA
1 GCTCTCTGATTA
23071525 GCACATCTGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTGGT
Found at i:23071515 original size:50 final size:48
Alignment explanation
Indices: 23071438--23071572 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 48
23071428 ACTTTAGCGC
** *
23071438 GCTCTCTGATTATTAGCACGTTGGTGCTCTCTGATTATTAGCACGT-TGGT
1 GCTCTCTGATTA-TAGCACGTCAGTGCTCTCTG-TTATTAGCACATCT-GT
23071488 GCTCTCTGATTACTAGCACGTCAGTGCTCTCTG--ATTAGCACATCTGT
1 GCTCTCTGATTA-TAGCACGTCAGTGCTCTCTGTTATTAGCACATCTGT
*
23071535 GCTCTCTG--TATAGCACTTCAGTGCTCTCTGTTCATTAG
1 GCTCTCTGATTATAGCACGTCAGTGCTCTCTGTT-ATTAG
23071573 TGCATAATAA
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
44 19 0.25
45 2 0.03
47 24 0.32
48 1 0.01
50 30 0.39
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (48 bp):
GCTCTCTGATTATAGCACGTCAGTGCTCTCTGTTATTAGCACATCTGT
Found at i:23071536 original size:22 final size:23
Alignment explanation
Indices: 23071438--23071564 Score: 105
Period size: 25 Copynumber: 5.3 Consensus size: 23
23071428 ACTTTAGCGC
* **
23071438 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGA-TA-TAGCACATCAGT
* **
23071463 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGA-TA-TAGCACATCAGT
*
23071488 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGA-TA-TAGCACATCAGT
*
23071513 GCTCTCTGAT-TAGCACATCTGT
1 GCTCTCTGATATAGCACATCAGT
*
23071535 GCTCTCTG-TATAGCACTTCAGT
1 GCTCTCTGATATAGCACATCAGT
23071557 GCTCTCTG
1 GCTCTCTG
23071565 TTCATTAGTG
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
21 1 0.01
22 36 0.38
24 1 0.01
25 56 0.60
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (23 bp):
GCTCTCTGATATAGCACATCAGT
Found at i:23071565 original size:22 final size:23
Alignment explanation
Indices: 23071486--23071565 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 23
23071476 TAGCACGTTG
*
23071486 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTG--TACTAGCACATCA
* *
23071511 GTGCTCTCTG-ATTAGCACATCT
1 GTGCTCTCTGTACTAGCACATCA
*
23071533 GTGCTCTCTGTA-TAGCACTTCA
1 GTGCTCTCTGTACTAGCACATCA
23071555 GTGCTCTCTGT
1 GTGCTCTCTGT
23071566 TCATTAGTGC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
22 38 0.78
23 1 0.02
25 10 0.20
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (23 bp):
GTGCTCTCTGTACTAGCACATCA
Found at i:23071691 original size:31 final size:31
Alignment explanation
Indices: 23071656--23071714 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
23071646 AAGAATATGA
* *
23071656 GATAGTGAATTGAAAATAGAATGTGAAAAAC
1 GATAGTGAATTGAAAACAGAATATGAAAAAC
23071687 GATAGTGAATTGAAAACAGAATATGAAA
1 GATAGTGAATTGAAAACAGAATATGAAA
23071715 TATGTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.22
Consensus pattern (31 bp):
GATAGTGAATTGAAAACAGAATATGAAAAAC
Found at i:23072824 original size:23 final size:24
Alignment explanation
Indices: 23072786--23072838 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
23072776 TTATTGGATT
*
23072786 AAATTATTAAATTAAAATT-ATTTA
1 AAATTATTAAATT-AAATTAAATTA
23072810 AAATTATTAAA-TAAATTAAATTA
1 AAATTATTAAATTAAATTAAATTA
23072833 AAATTA
1 AAATTA
23072839 AAGAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
24 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTATTAAATTAAATTAAATTA
Found at i:23072895 original size:23 final size:23
Alignment explanation
Indices: 23072860--23072904 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23072850 GGGTCAGTCG
* *
23072860 AAAAAATGTATGTTAATTAATCC
1 AAAAAAGGCATGTTAATTAATCC
23072883 AAAAAAGGCATGTTAATTAATC
1 AAAAAAGGCATGTTAATTAATC
23072905 AAAGGTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (23 bp):
AAAAAAGGCATGTTAATTAATCC
Found at i:23076468 original size:5 final size:6
Alignment explanation
Indices: 23076453--23076477 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23076443 TATGATATAT
23076453 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
23076478 ATAGTTTCTC
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:23077326 original size:16 final size:18
Alignment explanation
Indices: 23077295--23077327 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
23077285 CTCTTATTTA
23077295 AAAATGATATAAAATATG
1 AAAATGATATAAAATATG
23077313 AAAA-GATA-AAAATAT
1 AAAATGATATAAAATAT
23077328 CATCATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
AAAATGATATAAAATATG
Found at i:23077621 original size:22 final size:23
Alignment explanation
Indices: 23077569--23077622 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
23077559 TTTTATTTAG
*
23077569 ATATTTT-ATAATTTATAAAATT
1 ATATTTTAATAATTGATAAAATT
* **
23077591 TTAAATTAATAA-TGATAAAATT
1 ATATTTTAATAATTGATAAAATT
23077613 ATATTTTAAT
1 ATATTTTAAT
23077623 CCCTCAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTTTAATAATTGATAAAATT
Found at i:23079905 original size:14 final size:15
Alignment explanation
Indices: 23079864--23079909 Score: 58
Period size: 14 Copynumber: 3.0 Consensus size: 15
23079854 AAAAAATATT
*
23079864 TTTTTACAATTTTATA
1 TTTTTATAATTTT-TA
23079880 TTTTTAATAATTTTTA
1 TTTTT-ATAATTTTTA
23079896 -TTTTATAATTTTTA
1 TTTTTATAATTTTTA
23079910 AAAAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 10 0.36
15 4 0.14
16 7 0.25
17 7 0.25
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTTTA
Found at i:23081411 original size:9 final size:9
Alignment explanation
Indices: 23081399--23081539 Score: 116
Period size: 9 Copynumber: 16.2 Consensus size: 9
23081389 TATTTTTTAT
23081399 TTTTTCTTC
1 TTTTTCTTC
23081408 -TTTT-TTC
1 TTTTTCTTC
*
23081415 CTTTT-TTC
1 TTTTTCTTC
*
23081423 TTTTTTTTC
1 TTTTTCTTC
*
23081432 TTTCTTC-CC
1 TTT-TTCTTC
23081441 TTTCTTCTTC
1 TTT-TTCTTC
*
23081451 TTCTTCTTC
1 TTTTTCTTC
*
23081460 TTCTTCTTC
1 TTTTTCTTC
23081469 TTTTTCTTC
1 TTTTTCTTC
23081478 ---TTCTTC
1 TTTTTCTTC
*
23081484 TTCTTCTTC
1 TTTTTCTTC
*
23081493 TTCTTCTTC
1 TTTTTCTTC
* *
23081502 TTCTTCATC
1 TTTTTCTTC
*
23081511 TTCTTCTTC
1 TTTTTCTTC
23081520 TTTTTCTTC
1 TTTTTCTTC
*
23081529 TTCTTCTTC
1 TTTTTCTTC
23081538 TT
1 TT
23081540 CCTCCTCCTC
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
6 6 0.05
7 3 0.03
8 15 0.13
9 86 0.75
10 5 0.04
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:23081448 original size:3 final size:3
Alignment explanation
Indices: 23081442--23081540 Score: 171
Period size: 3 Copynumber: 33.0 Consensus size: 3
23081432 TTTCTTCCCT
*
23081442 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
23081490 TTC TTC TTC TTC TTC TTC ATC TTC TTC TTC TTT TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
23081538 TTC
1 TTC
23081541 CTCCTCCTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:23082887 original size:155 final size:150
Alignment explanation
Indices: 23082516--23082916 Score: 551
Period size: 155 Copynumber: 2.6 Consensus size: 150
23082506 TTTTTTTTTG
23082516 AAAAATACAAATTGAAAGATACCTCGGCATGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGA
1 AAAAATA-AAA-TGAAAG-TACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCATTATGA
* * * *
23082581 GTTGATTTTTGAAAAAATAGAAATCGAAAAGTACCTCGGCATGTGCCCGAGACTCAACTCACCCC
62 GTTGATTTTT-AAAAAACAGAAATTGAAAAATACCTCGGCATGTACCCGAGACTCAACTCACCCC
* *
23082646 TTGCATTTTGAGTTGATTTTTGAAA
126 TCGCATTATGAGTTGATTTTTGAAA
23082671 AAAAAT----TGAAAAGTACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTT
1 AAAAATAAAATG-AAAGTACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTT
* * * *
23082732 GATTTTT-AAAAACAGTAATTGAAAAATACCTCGGCGTGTAACCCGAGGCTCAACTCACCTCTCG
65 GATTTTTAAAAAACAGAAATTGAAAAATACCTCGGCATGT-ACCCGAGACTCAACTCACCCCTCG
23082796 CATTATGAGTTGATTTTTGAAAAA
129 CATTATGAGTTGATTTTTG--AAA
*
23082820 AAAAATAGAAATAGAAATGTACCTCAGCATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAG
1 AAAAATA-AAAT-GAAA-GTACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAG
23082885 TTGATTTTTTAAAAAACAGAAATTGAAAAATA
63 TTGA-TTTTTAAAAAACAGAAATTGAAAAATA
23082917 ATTTTTGAAA
Statistics
Matches: 221, Mismatches: 12, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
146 27 0.12
147 38 0.17
148 41 0.19
149 25 0.11
150 4 0.02
154 4 0.02
155 57 0.26
156 5 0.02
157 20 0.09
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (150 bp):
AAAAATAAAATGAAAGTACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTG
ATTTTTAAAAAACAGAAATTGAAAAATACCTCGGCATGTACCCGAGACTCAACTCACCCCTCGCA
TTATGAGTTGATTTTTGAAA
Found at i:23087600 original size:5 final size:5
Alignment explanation
Indices: 23087590--23087623 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
23087580 AAGAAGCATA
23087590 AAAAC AAAAC AAAAC AAAAC AAAAAC AAAA- AAAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAAA
23087624 AAACAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:23087614 original size:6 final size:6
Alignment explanation
Indices: 23087589--23087629 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
23087579 AAAGAAGCAT
*
23087589 AAAAAC -AAAAC -AAAAC -AAAAC AAAAAC AAAAAA AAAAAC AA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA
23087630 TAATGGGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:23087853 original size:18 final size:18
Alignment explanation
Indices: 23087830--23087868 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23087820 CCTGAGATGT
23087830 TTTTTTATTTTTTTCTTC
1 TTTTTTATTTTTTTCTTC
* *
23087848 TTTTTTCTTTTTTTTTTC
1 TTTTTTATTTTTTTCTTC
23087866 TTT
1 TTT
23087869 ATTCCATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTATTTTTTTCTTC
Found at i:23087861 original size:21 final size:20
Alignment explanation
Indices: 23087829--23087867 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23087819 ACCTGAGATG
23087829 TTTTTTTATTTTTTTCTTCT
1 TTTTTTTATTTTTTTCTTCT
*
23087849 TTTTTCTTTTTTTTTTCTT
1 TTTTT-TTATTTTTTTCTT
23087868 TATTCCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTTATTTTTTTCTTCT
Found at i:23088086 original size:33 final size:34
Alignment explanation
Indices: 23088049--23088113 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
23088039 TTTGTCGAAG
23088049 TTTTTCTCTCTTTTTT-TGGATT-TTGCTTGCTGT
1 TTTTTCTCTCTTTTTTGT-GATTCTTGCTTGCTGT
*
23088082 TTTTTTTCTCTTTTTTGTGATTCTTGCTTGCT
1 TTTTTCTCTCTTTTTTGTGATTCTTGCTTGCT
23088114 TTGCTAGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.03, C:0.15, G:0.14, T:0.68
Consensus pattern (34 bp):
TTTTTCTCTCTTTTTTGTGATTCTTGCTTGCTGT
Found at i:23088146 original size:14 final size:14
Alignment explanation
Indices: 23088127--23088164 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
23088117 CTAGGTGTTG
23088127 GCGATGGTGGTGCT
1 GCGATGGTGGTGCT
23088141 GCGATGGTGGTGCT
1 GCGATGGTGGTGCT
23088155 GCGATGGTGG
1 GCGATGGTGG
23088165 GCAAGGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.08, C:0.13, G:0.53, T:0.26
Consensus pattern (14 bp):
GCGATGGTGGTGCT
Found at i:23088643 original size:5 final size:5
Alignment explanation
Indices: 23088633--23088666 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
23088623 GAGAAGCATA
23088633 AAAAC AAAAC AAAAC AAAAC AAAAAC AAAA- AAAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAAA
23088667 AAACAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:23088657 original size:6 final size:6
Alignment explanation
Indices: 23088632--23088672 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
23088622 AGAGAAGCAT
*
23088632 AAAAAC -AAAAC -AAAAC -AAAAC AAAAAC AAAAAA AAAAAC AA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA
23088673 TAATGGGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:23102204 original size:18 final size:18
Alignment explanation
Indices: 23102181--23102219 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23102171 CCTGAGATGT
23102181 TTTTTTATTTTTTTCTTC
1 TTTTTTATTTTTTTCTTC
* *
23102199 TTTTTTCTTTTTTTTTTC
1 TTTTTTATTTTTTTCTTC
23102217 TTT
1 TTT
23102220 ATTCCATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTATTTTTTTCTTC
Found at i:23102212 original size:21 final size:20
Alignment explanation
Indices: 23102180--23102218 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23102170 ACCTGAGATG
23102180 TTTTTTTATTTTTTTCTTCT
1 TTTTTTTATTTTTTTCTTCT
*
23102200 TTTTTCTTTTTTTTTTCTT
1 TTTTT-TTATTTTTTTCTT
23102219 TATTCCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTTATTTTTTTCTTCT
Found at i:23102437 original size:33 final size:34
Alignment explanation
Indices: 23102400--23102464 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
23102390 TTTGTCGAAG
23102400 TTTTTCTCTCTTTTTT-TGGATT-TTGCTTGCTGT
1 TTTTTCTCTCTTTTTTGT-GATTCTTGCTTGCTGT
*
23102433 TTTTTTTCTCTTTTTTGTGATTCTTGCTTGCT
1 TTTTTCTCTCTTTTTTGTGATTCTTGCTTGCT
23102465 TTGCTAGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.03, C:0.15, G:0.14, T:0.68
Consensus pattern (34 bp):
TTTTTCTCTCTTTTTTGTGATTCTTGCTTGCTGT
Found at i:23102497 original size:14 final size:14
Alignment explanation
Indices: 23102478--23102515 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
23102468 CTAGGTGTTG
23102478 GCGATGGTGGTGCT
1 GCGATGGTGGTGCT
23102492 GCGATGGTGGTGCT
1 GCGATGGTGGTGCT
23102506 GCGATGGTGG
1 GCGATGGTGG
23102516 GCAAGGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.08, C:0.13, G:0.53, T:0.26
Consensus pattern (14 bp):
GCGATGGTGGTGCT
Found at i:23102994 original size:6 final size:6
Alignment explanation
Indices: 23102985--23103025 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
23102975 AGAGAAGCAT
*
23102985 AAAAAC -AAAAC -AAAAC -AAAAC AAAAAC AAAAAA AAAAAC AA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA
23103026 TAATGGGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:23102996 original size:5 final size:5
Alignment explanation
Indices: 23102986--23103019 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
23102976 GAGAAGCATA
23102986 AAAAC AAAAC AAAAC AAAAC AAAAAC AAAA- AAAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAAA
23103020 AAACAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:23123664 original size:12 final size:11
Alignment explanation
Indices: 23123637--23123662 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23123627 TATTTTTAAA
23123637 TTTTAAAATAT
1 TTTTAAAATAT
23123648 TTTTAAAATAT
1 TTTTAAAATAT
23123659 TTTT
1 TTTT
23123663 TATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:23129404 original size:23 final size:21
Alignment explanation
Indices: 23129350--23129404 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
23129340 AGGAGGAAGT
* *
23129350 ATTGGCAGTTTATCTACAAAC
1 ATTGGTAGTTTATCCACAAAC
*
23129371 ATTGGTGGTTTATCCACAAAC
1 ATTGGTAGTTTATCCACAAAC
23129392 ATACTGGTAGTTT
1 AT--TGGTAGTTT
23129405 TTATTTGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 20 0.71
23 8 0.29
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (21 bp):
ATTGGTAGTTTATCCACAAAC
Found at i:23129521 original size:91 final size:88
Alignment explanation
Indices: 23129366--23129662 Score: 319
Period size: 91 Copynumber: 3.3 Consensus size: 88
23129356 AGTTTATCTA
* * *
23129366 CAAACATTGGTGGTTTATCCACAAACATACTGGTAGTTTTTATTTGCAAACACGTTGTGCATTCA
1 CAAACACTGGTGGTTTATCCACAAACATACT-GCA-ATTTT-TTTGCAAACACGTTGTGCATTCA
* *
23129431 CAACCTACTAGTAGCGTATTAACTTG
63 CAACCTACTAGCAGCGTATTAACCTG
* * * *
23129457 CAAACACTGGTGGTTTATCCAGAAACGTACTGACAACTTTTTTCTGCAGATACGTTGTGCATTCA
1 CAAACACTGGTGGTTTATCCACAAACATACTG-CAA-TTTTTT-TGCAAACACGTTGTGCATTCA
** *
23129522 CAACCTACTAGCAATGTATTAACCTA
63 CAACCTACTAGCAGCGTATTAACCTG
* * * ** * *
23129548 AAAACATTGGTGGTTTAACCACAAATTTACTGGCATATTTTATTTGCAAACCCGTTGTGTATTCA
1 CAAACACTGGTGGTTTATCCACAAACATACT-GCA-ATTTT-TTTGCAAACACGTTGTGCATTCA
23129613 CAA-CTACTAGCAGCGTATTAACCTG
63 CAACCTACTAGCAGCGTATTAACCTG
*
23129638 CAAA-ACTGGTGGTTCATCCACAAAC
1 CAAACACTGGTGGTTTATCCACAAAC
23129663 TGGAGTGTTT
Statistics
Matches: 170, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
89 17 0.10
90 25 0.15
91 124 0.73
92 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (88 bp):
CAAACACTGGTGGTTTATCCACAAACATACTGCAATTTTTTTGCAAACACGTTGTGCATTCACAA
CCTACTAGCAGCGTATTAACCTG
Found at i:23131907 original size:327 final size:328
Alignment explanation
Indices: 23131301--23131957 Score: 1307
Period size: 327 Copynumber: 2.0 Consensus size: 328
23131291 TTTATTAAAT
23131301 TATTTTTCTACAACAGTCTGTTAATATTTGGTACACTAATAATATATATTTTTTCACAAGTATTT
1 TATTTTTCTACAACAGTCTGTTAATATTTGGTACACTAATAATATATATTTTTTCACAAGTATTT
23131366 CTTTCTACATACAGCCTTAAAAAATTGGCATGTCTATTTTTTAAATATTTTTCTATACCCCTAAG
66 CTTTCTACATACAGCCTTAAAAAATTGGCATGTCTATTTTTTAAATATTTTTCTATACCCCTAAG
23131431 TGTATCAAATATTTTCCCTTTTATTAAACGAAAACAATCATTGATAAATAAAAATTACATTTATA
131 TGTATCAAATATTTTCCCTTTTATTAAACGAAAACAATCATTGATAAATAAAAATTACATTTATA
23131496 AATTTTATAATTTTTAATTTAAAAATTAAAAACAACTAAAATATGATCTGAAGTTAAGATATATT
196 AATTTTATAATTTTTAATTTAAAAATTAAAAACAACTAAAATATGATCTGAAGTTAAGATATATT
23131561 AATGTGACACTTTGAAATTATGCCACATATTTTTTATCTTAATTTTTTTATAAAATTATATTTTT
261 AATGTGACACTTTGAAATTATGCCACATATTTTTTATCTTAATTTTTTTATAAAATTATATTTTT
23131626 TAA
326 TAA
23131629 TATTTTTCTAC-ACAGTCTGTTAATATTTGGTACACTAATAATATATATTTTTTCACAAGTATTT
1 TATTTTTCTACAACAGTCTGTTAATATTTGGTACACTAATAATATATATTTTTTCACAAGTATTT
23131693 CTTTCTACATACAGCCTTAAAAAATTGGCATGTCTATTTTTTAAATATTTTTCTATACCCCTAAG
66 CTTTCTACATACAGCCTTAAAAAATTGGCATGTCTATTTTTTAAATATTTTTCTATACCCCTAAG
23131758 TGTATCAAATATTTTCCCTTTTATTAAACGAAAACAATCATTGATAAATAAAAATTACATTTATA
131 TGTATCAAATATTTTCCCTTTTATTAAACGAAAACAATCATTGATAAATAAAAATTACATTTATA
23131823 AATTTTATAATTTTTAATTTAAAAATTAAAAACAACTAAAATATGATCTGAAGTTAAGATATATT
196 AATTTTATAATTTTTAATTTAAAAATTAAAAACAACTAAAATATGATCTGAAGTTAAGATATATT
23131888 AATGTGACACTTTGAAATTATGCCACATATTTTTTATCTTAATTTTTTTATAAAATTATATTTTT
261 AATGTGACACTTTGAAATTATGCCACATATTTTTTATCTTAATTTTTTTATAAAATTATATTTTT
23131953 TAA
326 TAA
23131956 TA
1 TA
23131958 CTTTCTATAT
Statistics
Matches: 329, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
327 318 0.97
328 11 0.03
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (328 bp):
TATTTTTCTACAACAGTCTGTTAATATTTGGTACACTAATAATATATATTTTTTCACAAGTATTT
CTTTCTACATACAGCCTTAAAAAATTGGCATGTCTATTTTTTAAATATTTTTCTATACCCCTAAG
TGTATCAAATATTTTCCCTTTTATTAAACGAAAACAATCATTGATAAATAAAAATTACATTTATA
AATTTTATAATTTTTAATTTAAAAATTAAAAACAACTAAAATATGATCTGAAGTTAAGATATATT
AATGTGACACTTTGAAATTATGCCACATATTTTTTATCTTAATTTTTTTATAAAATTATATTTTT
TAA
Found at i:23134296 original size:24 final size:24
Alignment explanation
Indices: 23134269--23134316 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23134259 CAGTATTGGC
* * *
23134269 TTTGAGATGCTTATTTAAGAAAAG
1 TTTGAAATGCTCATTCAAGAAAAG
23134293 TTTGAAATGCTCATTCAAGAAAAG
1 TTTGAAATGCTCATTCAAGAAAAG
23134317 GTACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (24 bp):
TTTGAAATGCTCATTCAAGAAAAG
Found at i:23135974 original size:13 final size:13
Alignment explanation
Indices: 23135953--23136014 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
23135943 TTTGGTAATA
23135953 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
23135966 CTTTCGAAAAGTG
1 CTTTTGAAAAGTG
** * *
23135979 CGGTGGAAAAATG
1 CTTTTGAAAAGTG
*
23135992 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
23136005 CTTTTGAAAA
1 CTTTTGAAAA
23136015 ATTTGAGTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:23137686 original size:27 final size:26
Alignment explanation
Indices: 23137642--23137705 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
23137632 TAATGGACAC
*
23137642 ATAAATAAATAAATAAATAATAACGAT
1 ATAAA-AAATAAATAAATAATAAAGAT
* *
23137669 A-AAGAAAATGAATAAAATTATAAAGAT
1 ATAA-AAAATAAAT-AAATAATAAAGAT
23137696 ATAAAAAATA
1 ATAAAAAATA
23137706 TATATGTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
26 9 0.30
27 19 0.63
28 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (26 bp):
ATAAAAAATAAATAAATAATAAAGAT
Found at i:23143020 original size:18 final size:17
Alignment explanation
Indices: 23142988--23143022 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23142978 GTTATGATTT
*
23142988 TATTTTAAAAAAATATA
1 TATTTAAAAAAAATATA
23143005 TATTTAAAATAAAATATA
1 TATTTAAAA-AAAATATA
23143023 CCTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATTTAAAAAAAATATA
Found at i:23146671 original size:24 final size:24
Alignment explanation
Indices: 23146644--23146694 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
23146634 ATACGGAGAC
*
23146644 GAAGACGAGGGTGGAGAAGAAGAT
1 GAAGACGAGGGTCGAGAAGAAGAT
* * *
23146668 GAAGAGGATGGTCGAGATGAAGAT
1 GAAGACGAGGGTCGAGAAGAAGAT
23146692 GAA
1 GAA
23146695 TACAGGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.43, T:0.12
Consensus pattern (24 bp):
GAAGACGAGGGTCGAGAAGAAGAT
Found at i:23148995 original size:16 final size:17
Alignment explanation
Indices: 23148974--23149006 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23148964 CGTGGCAATT
23148974 TTAAAA-ATAGAAAAAA
1 TTAAAACATAGAAAAAA
23148990 TTAAAACATAGAAAAAA
1 TTAAAACATAGAAAAAA
23149007 ATTCATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
TTAAAACATAGAAAAAA
Found at i:23149534 original size:12 final size:12
Alignment explanation
Indices: 23149517--23149554 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23149507 TACATGTGGA
23149517 AAATAATAAAAT
1 AAATAATAAAAT
*
23149529 AAATAATAAATT
1 AAATAATAAAAT
23149541 AAATTAA-AAAAT
1 AAA-TAATAAAAT
23149553 AA
1 AA
23149555 CTCTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:23150602 original size:21 final size:21
Alignment explanation
Indices: 23150555--23150602 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
23150545 CACACGGGTG
* * **
23150555 GCCACACGGGCGTGTGCCTTG
1 GCCACACGGCCGTGTCCCTCA
*
23150576 GACACACGGCCGTGTCCCTCA
1 GCCACACGGCCGTGTCCCTCA
23150597 GCCACA
1 GCCACA
23150603 GGAGCGTATG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.15
Consensus pattern (21 bp):
GCCACACGGCCGTGTCCCTCA
Found at i:23153492 original size:3 final size:3
Alignment explanation
Indices: 23153478--23153508 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
23153468 ACCAGCCCAT
23153478 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
23153509 ATAAATAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23161414 original size:23 final size:23
Alignment explanation
Indices: 23161383--23161433 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
23161373 CCCTACTTTC
* *
23161383 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
23161406 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
23161429 TTACA
1 TTACA
23161434 TGTTCCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:23166995 original size:22 final size:24
Alignment explanation
Indices: 23166960--23167005 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
23166950 TTTAGAATTT
23166960 AATTTTTATAC-TTTTA-TTTTTA
1 AATTTTTATACTTTTTACTTTTTA
23166982 AATTTTTA-ATCTTTTTACTTTTTA
1 AATTTTTATA-CTTTTTACTTTTTA
23167006 GTTAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.05
22 9 0.43
23 5 0.24
24 6 0.29
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
AATTTTTATACTTTTTACTTTTTA
Found at i:23167014 original size:29 final size:29
Alignment explanation
Indices: 23166957--23167015 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
23166947 AAATTTAGAA
**
23166957 TTTAATTTTTATACTTTTATTTTTAAATT
1 TTTAATTTTTATACTTTTATAGTTAAATT
23166986 TTTAATCTTTT-TACTTTT-TAGTTAGAATT
1 TTTAAT-TTTTATACTTTTATAGTTA-AATT
23167015 T
1 T
23167016 GGGAACTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 18 0.69
30 4 0.15
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTAATTTTTATACTTTTATAGTTAAATT
Found at i:23167408 original size:22 final size:22
Alignment explanation
Indices: 23167372--23167428 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
23167362 AAAGGAGGCC
*
23167372 CAGAGAATGTTAGCACCAGGGA
1 CAGAGAATGTCAGCACCAGGGA
*
23167394 CAGGGAATGTCAGCACCAGGGA
1 CAGAGAATGTCAGCACCAGGGA
23167416 CAGAGAATGTCAG
1 CAGAGAATGTCAG
23167429 TGCCCTCGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.33, T:0.12
Consensus pattern (22 bp):
CAGAGAATGTCAGCACCAGGGA
Found at i:23169810 original size:24 final size:24
Alignment explanation
Indices: 23169747--23169798 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23169737 TTTCTAAAAG
* * *
23169747 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
23169771 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
23169795 ATTT
1 ATTT
23169799 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:23169860 original size:24 final size:24
Alignment explanation
Indices: 23169826--23169877 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
23169816 GGTTTTTTCA
* *
23169826 ATTTAGTATTTTATGAGTAT-ATAT
1 ATTTAG-AATTTATGAGCATAATAT
*
23169850 ATTTAGAATTTATTAGCATAATAT
1 ATTTAGAATTTATGAGCATAATAT
23169874 ATTT
1 ATTT
23169878 TACTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGAATTTATGAGCATAATAT
Found at i:23169883 original size:79 final size:79
Alignment explanation
Indices: 23169747--23169905 Score: 275
Period size: 79 Copynumber: 2.0 Consensus size: 79
23169737 TTTCTAAAAG
* *
23169747 ATTTAGTATTTATGAGTATAATATATTTAGCATTTATTAGCATAATATATTTGACTTTGATTAGA
1 ATTTAGTATTTATGAGTATAATATATTTAGAATTTATTAGCATAATATATTTGACTTTAATTAGA
23169812 ATTAGGTTTTTTCA
66 ATTAGGTTTTTTCA
*
23169826 ATTTAGTATTTTATGAGTAT-ATATATTTAGAATTTATTAGCATAATATATTTTACTTTAATTAG
1 ATTTAGTA-TTTATGAGTATAATATATTTAGAATTTATTAGCATAATATATTTGACTTTAATTAG
23169890 AATTAGGTTTTTTCA
65 AATTAGGTTTTTTCA
23169905 A
1 A
23169906 CCAATAAATA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 65 0.86
80 11 0.14
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.50
Consensus pattern (79 bp):
ATTTAGTATTTATGAGTATAATATATTTAGAATTTATTAGCATAATATATTTGACTTTAATTAGA
ATTAGGTTTTTTCA
Found at i:23178896 original size:51 final size:51
Alignment explanation
Indices: 23178820--23178922 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
23178810 GTTCATTAGA
* *
23178820 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATG-GAATGGAGTTGTAATT
1 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAG-ATAGAGCTGTAATT
23178871 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAGATAGAGCTGTAATT
1 ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAGATAGAGCTGTAATT
23178922 A
1 A
23178923 GTAATTCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 48 0.98
52 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (51 bp):
ATTGAATAGGGTTGTAATAGTAAAGAGCTATAATGAGATAGAGCTGTAATT
Found at i:23183924 original size:33 final size:32
Alignment explanation
Indices: 23183888--23183973 Score: 129
Period size: 32 Copynumber: 2.6 Consensus size: 32
23183878 AAAATTTTAA
23183888 AAAAATTAAAAAAA-GTATTTTAAAAATATTTT
1 AAAAA-TAAAAAAATGTATTTTAAAAATATTTT
23183920 AAAAATAAAAAAATGTATTTTAAAAATATTTTT
1 AAAAATAAAAAAATGTATTTTAAAAATA-TTTT
*
23183953 AAAAATAAAAAATATATATTT
1 AAAAATAAAAAA-ATGTATTT
23183974 ATTATATTCG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
31 8 0.16
32 19 0.38
33 16 0.32
34 7 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (32 bp):
AAAAATAAAAAAATGTATTTTAAAAATATTTT
Found at i:23183925 original size:11 final size:11
Alignment explanation
Indices: 23183875--23183959 Score: 68
Period size: 11 Copynumber: 7.6 Consensus size: 11
23183865 ATAAACACCA
*
23183875 AAAAAAATTTT
1 AAAAATATTTT
* **
23183886 AAAAAAATTAA
1 AAAAATATTTT
23183897 AAAAAGTATTTT
1 AAAAA-TATTTT
23183909 AAAAATATTTT
1 AAAAATATTTT
*
23183920 AAAAATA---A
1 AAAAATATTTT
23183928 AAAAATGTATTTT
1 AAAAA--TATTTT
23183941 AAAAATATTTTT
1 AAAAATA-TTTT
23183953 AAAAATA
1 AAAAATA
23183960 AAAAATATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.08
10 2 0.03
11 29 0.48
12 19 0.32
13 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:23190308 original size:22 final size:22
Alignment explanation
Indices: 23190269--23190316 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
23190259 TTTTAAAACC
23190269 ATATAAAATTAATAAAATATT-A
1 ATATAAAATTAATAAAAT-TTCA
*
23190291 ATATAAAA-TATTATAAATTTCA
1 ATATAAAATTAATA-AAATTTCA
23190313 ATAT
1 ATAT
23190317 TATTAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAAAATTAATAAAATTTCA
Found at i:23190957 original size:687 final size:687
Alignment explanation
Indices: 23189644--23191017 Score: 2739
Period size: 687 Copynumber: 2.0 Consensus size: 687
23189634 AATTCAAGAA
23189644 GGGATATCACAAAAGGTAATGAAAAGGGAAAAGTGGGAACTTGTTATGGGGATTACCATGGTAGA
1 GGGATATCACAAAAGGTAATGAAAAGGGAAAAGTGGGAACTTGTTATGGGGATTACCATGGTAGA
23189709 AGTTAGAGGCCTTGATTTAATGGAGGAGGGAAATGAAGGGAAAGAATATTTGGGGAAGGGAAGAA
66 AGTTAGAGGCCTTGATTTAATGGAGGAGGGAAATGAAGGGAAAGAATATTTGGGGAAGGGAAGAA
23189774 AGGAATGGTGGAGAGGAGGGAATAGAGAGTTTCTGAGGAACAGAGGAGTGGCCATAAGATTAGAG
131 AGGAATGGTGGAGAGGAGGGAATAGAGAGTTTCTGAGGAACAGAGGAGTGGCCATAAGATTAGAG
23189839 AGAAACGGTGACTGGTGAGTCCACCTTCGCCACAAGTTTACCTTTCTTTTTCTCTTTAAATCTTT
196 AGAAACGGTGACTGGTGAGTCCACCTTCGCCACAAGTTTACCTTTCTTTTTCTCTTTAAATCTTT
23189904 GCTCAGTTGATGAAGGTAAGTTGTAATTCTGCCATCTGCCGAATTCTCTTTTCATTAATTTATTC
261 GCTCAGTTGATGAAGGTAAGTTGTAATTCTGCCATCTGCCGAATTCTCTTTTCATTAATTTATTC
23189969 ATTTTTTTTAGTATTATATTTAGCTCTTTCTATTATAAAAACTGGAGGAAATTAGTTTGTATTAT
326 ATTTTTTTTAGTATTATATTTAGCTCTTTCTATTATAAAAACTGGAGGAAATTAGTTTGTATTAT
23190034 TGATTCTTTGTTAAGTAATAAATATTAATTATTTTTTATATTTATTCCGTGAAAAACAACTTAGC
391 TGATTCTTTGTTAAGTAATAAATATTAATTATTTTTTATATTTATTCCGTGAAAAACAACTTAGC
23190099 CAACGAAAAATAGTTTATAACTCAATAGGAAATAAGTGTTTTTTTTTAAATGACTTTCCGAAGCA
456 CAACGAAAAATAGTTTATAACTCAATAGGAAATAAGTGTTTTTTTTTAAATGACTTTCCGAAGCA
23190164 CAAATCTTTTAAAATAAAAAACTTATTTACGAATGATTTTATTTTTATACAAAAATTAACTTAAG
521 CAAATCTTTTAAAATAAAAAACTTATTTACGAATGATTTTATTTTTATACAAAAATTAACTTAAG
23190229 TCAAGCTTAATTATTATATTAATAATTTATTTTTAAAACCATATAAAATTAATAAAATATTAATA
586 TCAAGCTTAATTATTATATTAATAATTTATTTTTAAAACCATATAAAATTAATAAAATATTAATA
23190294 TAAAATATTATAAATTTCAATATTATTAAACATACCT
651 TAAAATATTATAAATTTCAATATTATTAAACATACCT
23190331 GGGATATCACAAAAGGTAATGAAAAGGGAAAAGTGGGAACTTGTTATGGGGATTACCATGGTAGA
1 GGGATATCACAAAAGGTAATGAAAAGGGAAAAGTGGGAACTTGTTATGGGGATTACCATGGTAGA
23190396 AGTTAGAGGCCTTGATTTAATGGAGGAGGGAAATGAAGGGAAAGAATATTTGGGGAAGGGAAGAA
66 AGTTAGAGGCCTTGATTTAATGGAGGAGGGAAATGAAGGGAAAGAATATTTGGGGAAGGGAAGAA
23190461 AGGAATGGTGGAGAGGAGGGAATAGAGAGTTTCTGAGGAACAGAGGAGTGGCCATAAGATTAGAG
131 AGGAATGGTGGAGAGGAGGGAATAGAGAGTTTCTGAGGAACAGAGGAGTGGCCATAAGATTAGAG
23190526 AGAAACGGTGACTGGTGAGTCCACCTTCGCCACAAGTTTACCTTTCTTTTTCTCTTTAAATCTTT
196 AGAAACGGTGACTGGTGAGTCCACCTTCGCCACAAGTTTACCTTTCTTTTTCTCTTTAAATCTTT
23190591 GCTCAGTTGATGAAGGTAAGTTGTAATTCTGCCATCTGCCGAATTCTCTTTTCATTAATTTATTC
261 GCTCAGTTGATGAAGGTAAGTTGTAATTCTGCCATCTGCCGAATTCTCTTTTCATTAATTTATTC
23190656 ATTTTTTTTAGTATTATATTTAGCTCTTTCTATTATAAAAACTGGAGGAAATTAGTTTGTATTAT
326 ATTTTTTTTAGTATTATATTTAGCTCTTTCTATTATAAAAACTGGAGGAAATTAGTTTGTATTAT
23190721 TGATTCTTTGTTAAGTAATAAATATTAATTATTTTTTATATTTATTCCGTGAAAAACAACTTAGC
391 TGATTCTTTGTTAAGTAATAAATATTAATTATTTTTTATATTTATTCCGTGAAAAACAACTTAGC
23190786 CAACGAAAAATAGTTTATAACTCAATAGGAAATAAGTGTTTTTTTTTAAATGACTTTCCGAAGCA
456 CAACGAAAAATAGTTTATAACTCAATAGGAAATAAGTGTTTTTTTTTAAATGACTTTCCGAAGCA
23190851 CAAATCTTTTAAAATAAAAAACTTATTTACGAATGATTTTATTTTTATACAAAAATTAACTTAAG
521 CAAATCTTTTAAAATAAAAAACTTATTTACGAATGATTTTATTTTTATACAAAAATTAACTTAAG
23190916 TCAAGCTTAATTATTATATTAATAATTTATTTTTAAAACCATATAAAATTAATAAAATATTAATA
586 TCAAGCTTAATTATTATATTAATAATTTATTTTTAAAACCATATAAAATTAATAAAATATTAATA
*
23190981 TAAAATATTATAATTTTCAATATTATTAAACATACCT
651 TAAAATATTATAAATTTCAATATTATTAAACATACCT
23191018 ATTTAATTAT
Statistics
Matches: 686, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
687 686 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (687 bp):
GGGATATCACAAAAGGTAATGAAAAGGGAAAAGTGGGAACTTGTTATGGGGATTACCATGGTAGA
AGTTAGAGGCCTTGATTTAATGGAGGAGGGAAATGAAGGGAAAGAATATTTGGGGAAGGGAAGAA
AGGAATGGTGGAGAGGAGGGAATAGAGAGTTTCTGAGGAACAGAGGAGTGGCCATAAGATTAGAG
AGAAACGGTGACTGGTGAGTCCACCTTCGCCACAAGTTTACCTTTCTTTTTCTCTTTAAATCTTT
GCTCAGTTGATGAAGGTAAGTTGTAATTCTGCCATCTGCCGAATTCTCTTTTCATTAATTTATTC
ATTTTTTTTAGTATTATATTTAGCTCTTTCTATTATAAAAACTGGAGGAAATTAGTTTGTATTAT
TGATTCTTTGTTAAGTAATAAATATTAATTATTTTTTATATTTATTCCGTGAAAAACAACTTAGC
CAACGAAAAATAGTTTATAACTCAATAGGAAATAAGTGTTTTTTTTTAAATGACTTTCCGAAGCA
CAAATCTTTTAAAATAAAAAACTTATTTACGAATGATTTTATTTTTATACAAAAATTAACTTAAG
TCAAGCTTAATTATTATATTAATAATTTATTTTTAAAACCATATAAAATTAATAAAATATTAATA
TAAAATATTATAAATTTCAATATTATTAAACATACCT
Found at i:23193110 original size:21 final size:20
Alignment explanation
Indices: 23193069--23193173 Score: 70
Period size: 21 Copynumber: 5.0 Consensus size: 20
23193059 CAAAAGCCCG
*
23193069 AAGGCTAAACA-AAAGCACAT
1 AAGGCTAAACAGAAA-CTCAT
23193089 AAGTGCTAAACAGAAACTCAT
1 AAG-GCTAAACAGAAACTCAT
* * * *
23193110 AAGGATTGAACGGAAGCTCAT
1 AAGG-CTAAACAGAAACTCAT
* *
23193131 AAGAGCTGAACGGAAAC-CTAT
1 AAG-GCTAAACAGAAACTC-AT
*
23193152 AAGGGTTAAACAGAAACTCAT
1 AA-GGCTAAACAGAAACTCAT
23193173 A
1 A
23193174 TGAGTTGAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.07
21 57 0.84
22 6 0.09
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (20 bp):
AAGGCTAAACAGAAACTCAT
Found at i:23193133 original size:42 final size:42
Alignment explanation
Indices: 23193074--23193173 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
23193064 GCCCGAAGGC
* * *
23193074 TAAACAAAAGCACATAAGTGCTAAACAGAAA-CTCATAAGGAT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCT-ATAAGGAT
* * * * *
23193116 TGAACGGAAGCTCATAAGAGCTGAACGGAAACCTATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCTATAAGGAT
*
23193158 TAAACAGAAACTCATA
1 TAAACAGAAGCTCATA
23193174 TGAGTTGAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACAGAAACCTATAAGGAT
Found at i:23193183 original size:42 final size:42
Alignment explanation
Indices: 23193086--23193187 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
23193076 AACAAAAGCA
* * * * * *
23193086 CATAAGTGCTAAACAGAAA-CTCATAAGGATTGAACGGAAGCT
1 CATAAGAGCTGAACGGAAACCT-ATAAGGATTAAACAGAAACT
*
23193128 CATAAGAGCTGAACGGAAACCTATAAGGGTTAAACAGAAACT
1 CATAAGAGCTGAACGGAAACCTATAAGGATTAAACAGAAACT
* *
23193170 CATATGAGTTGAACGGAA
1 CATAAGAGCTGAACGGAA
23193188 GCTCGTAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.19
Consensus pattern (42 bp):
CATAAGAGCTGAACGGAAACCTATAAGGATTAAACAGAAACT
Found at i:23193817 original size:17 final size:17
Alignment explanation
Indices: 23193795--23193828 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23193785 ATTTGGTCCT
23193795 AAAATTAATATCTAAAA
1 AAAATTAATATCTAAAA
* *
23193812 AAAATTACTATGTAAAA
1 AAAATTAATATCTAAAA
23193829 TCATCATACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAATTAATATCTAAAA
Found at i:23200102 original size:15 final size:16
Alignment explanation
Indices: 23200078--23200110 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23200068 ACTTATAACA
23200078 ATTTTATTTATTTAAT
1 ATTTTATTTATTTAAT
*
23200094 ATTTT-TTTATTTCAT
1 ATTTTATTTATTTAAT
23200109 AT
1 AT
23200111 AATTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTATTTAAT
Found at i:23200748 original size:123 final size:125
Alignment explanation
Indices: 23200432--23200781 Score: 492
Period size: 125 Copynumber: 2.8 Consensus size: 125
23200422 CAATTTCGAG
** *
23200432 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTACCAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
*
23200497 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTT
66 AAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTT
* * * *
23200557 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
* * *
23200622 AAATTGCGGCCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCA-TGTAAGAAATAA-T-TTTT
66 AAATCGCGCCCTCGT-AGACGCGCTTTTGCTACAGTAGGTCACAG-AAGAAATAATTATTTT
* *
23200680 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTATACCAGGATGCTATTTGGGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
* * * * *
23200745 AAATCGCTCCATCGTGGACGCGATTTTGCTATAGTAG
66 AAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAG
23200782 CATGTTTGGG
Statistics
Matches: 198, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
122 1 0.01
123 91 0.46
124 2 0.01
125 103 0.52
126 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTT
Found at i:23200995 original size:40 final size:40
Alignment explanation
Indices: 23200940--23201020 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
23200930 GCCACACCGA
* *
23200940 GAATGGTGTTGTTTTTTTGTCGGAGAATACGGTGCGACTG
1 GAATGGTGTTGTTTTTTTGTCGAAGAATACGGTGCAACTG
23200980 GAATGGGTGTT-TTTTTTTGTCGAAGAATACGGTGCAACTG
1 GAAT-GGTGTTGTTTTTTTGTCGAAGAATACGGTGCAACTG
23201020 G
1 G
23201021 TTTTTAACCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 32 0.84
41 6 0.16
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.37
Consensus pattern (40 bp):
GAATGGTGTTGTTTTTTTGTCGAAGAATACGGTGCAACTG
Found at i:23203932 original size:116 final size:116
Alignment explanation
Indices: 23203728--23203945 Score: 409
Period size: 116 Copynumber: 1.9 Consensus size: 116
23203718 TGATAAATTG
* *
23203728 TATTAAGTCAAAATATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
23203793 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
23203844 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
*
23203909 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAATCAAAACATTTTTCCAAATCTAACATTA
23203946 CTTTAAGGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
TAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:23204020 original size:50 final size:50
Alignment explanation
Indices: 23203961--23204210 Score: 186
Period size: 50 Copynumber: 4.8 Consensus size: 50
23203951 AGGTTAGGGT
*
23203961 TTTTAATTAAATTAGGTTAGGGTTATGGTTTTTATTTAAGGGTTTAGGAC
1 TTTTAATTAAATTAGGTTAGGGTTACGGTTTTTATTTAAGGGTTTAGGAC
* * *
23204011 TTTTAATTAAATTAGGCTAGGGTTAGGGTTTAGGGTTTTTAATGAATTAAGTTAGGGTTAGGAT
1 TTTTAATTAAA-T----TA-GGTTAGGG-TTACGGTTTTT-AT---TTAAG---GGTTTAGGAC
* * *
23204075 TTTTAATTGAATTATGTTAGGGTTACGG--TTT-TTTAAGGGTTTAGGGC
1 TTTTAATTAAATTAGGTTAGGGTTACGGTTTTTATTTAAGGGTTTAGGAC
* * * *
23204122 TTTTAATTAAATTAGGCTAGGGTTACGG-TTTAAGGTTT-AGGGTTTAAGAT
1 TTTTAATTAAATTAGGTTAGGGTTACGGTTTTTA--TTTAAGGGTTTAGGAC
* * * *
23204172 TTTTAAATGAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 TTTTAATTAAATTAGGTTAGGGTTACGGTTTTTATTTAA
23204211 ATTAGGTTAG
Statistics
Matches: 158, Mismatches: 22, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
47 32 0.20
48 2 0.01
49 2 0.01
50 50 0.32
51 8 0.05
53 1 0.01
55 5 0.03
56 8 0.05
57 15 0.09
58 9 0.06
59 2 0.01
61 5 0.03
63 1 0.01
64 18 0.11
ACGTcount: A:0.27, C:0.02, G:0.26, T:0.45
Consensus pattern (50 bp):
TTTTAATTAAATTAGGTTAGGGTTACGGTTTTTATTTAAGGGTTTAGGAC
Found at i:23204064 original size:29 final size:29
Alignment explanation
Indices: 23204032--23204107 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
23204022 TTAGGCTAGG
23204032 GTTAGGGTTTAGGGTTTTTAA-TGAATTAA
1 GTTAGGG-TTAGGGTTTTTAATTGAATTAA
* *
23204061 GTTAGGGTTAGGATTTTTAATTGAATTAT
1 GTTAGGGTTAGGGTTTTTAATTGAATTAA
*
23204090 GTTAGGGTTACGGTTTTT
1 GTTAGGGTTAGGGTTTTT
23204108 TAAGGGTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 12 0.29
29 30 0.71
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (29 bp):
GTTAGGGTTAGGGTTTTTAATTGAATTAA
Found at i:23204067 original size:35 final size:36
Alignment explanation
Indices: 23203999--23204072 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 36
23203989 TTTTTATTTA
*
23203999 AGGGTTTAGGACTTTTAATTAAATTAGGCTAGGGTT
1 AGGGTTTAGGACTTTTAATTAAATTAAGCTAGGGTT
** * *
23204035 AGGGTTTAGGGTTTTTAA-TGAATTAAGTTAGGGTT
1 AGGGTTTAGGACTTTTAATTAAATTAAGCTAGGGTT
23204070 AGG
1 AGG
23204073 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.39
Consensus pattern (36 bp):
AGGGTTTAGGACTTTTAATTAAATTAAGCTAGGGTT
Found at i:23204152 original size:111 final size:113
Alignment explanation
Indices: 23203952--23204159 Score: 330
Period size: 111 Copynumber: 1.8 Consensus size: 113
23203942 ATTACTTTAA
* *
23203952 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTATTTAAGGGTTTAGGACTTTTAA
1 GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTACGG-TTTTATTTAAGGGTTTAGGACTTTTAA
* *
23204017 TTAAATTAGGCTAGGGTTAGGGTTTAGGGTTTTTAATGAATTAAGTTAG
65 TTAAATTAGGCTAGGGTTACGGTTTAAGGTTTTTAATGAATTAAGTTAG
* * *
23204066 GGTTAGGATTTTTAATTGAATTATGTTAGGGTTACGG-TTT-TTTAAGGGTTTAGGGCTTTTAAT
1 GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTACGGTTTTATTTAAGGGTTTAGGACTTTTAAT
23204129 TAAATTAGGCTAGGGTTACGGTTTAAGGTTT
66 TAAATTAGGCTAGGGTTACGGTTTAAGGTTT
23204160 AGGGTTTAAG
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
111 51 0.59
112 3 0.03
114 33 0.38
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (113 bp):
GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTACGGTTTTATTTAAGGGTTTAGGACTTTTAAT
TAAATTAGGCTAGGGTTACGGTTTAAGGTTTTTAATGAATTAAGTTAG
Found at i:23204222 original size:23 final size:23
Alignment explanation
Indices: 23204192--23204675 Score: 349
Period size: 23 Copynumber: 20.4 Consensus size: 23
23204182 ATTAGGTTAG
23204192 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
23204215 GGTTAGGGTTTTTAATT-AA--G
1 GGTTAGGGTTTTTAATTAAATTA
23204235 GGTTCAGGGTTTTTAAATGAATTAAATTA
1 GGTT-AGGG-TTTT---T-AATTAAATTA
*
23204264 GGCTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
23204287 GGTTAGGATTTTTAATT-AA--G
1 GGTTAGGGTTTTTAATTAAATTA
23204307 GGTTGAGGGTTTTTAAATGAATTAAATTA
1 GGTT-AGGG-TTTT---T-AATTAAATTA
* *
23204336 GGCTAGGGTTTTTAATT-AA--G
1 GGTTAGGGTTTTTAATTAAATTA
23204356 GGTTTAGGGTTTTTAAATAAATTAAATTA
1 GG-TTAGGG-TTTT---T-AATTAAATTA
23204385 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
23204408 GGTTAGGGTTTTTAAATTAAATTA
1 GGTTAGGGTTTTT-AATTAAATTA
23204432 -GTTAAGGG-TTTTAATTAAATTA
1 GGTT-AGGGTTTTTAATTAAATTA
**
23204454 GGTTAGGGTTTTTAATT-AAGGA
1 GGTTAGGGTTTTTAATTAAATTA
*
23204476 -TTTAGGGTTTTTAAATGAATTAAATTA
1 GGTTAGGG-TTTT---T-AATTAAATTA
* *
23204503 GGTTAGGGTTTTAAATTGAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* * *
23204526 GGTTAGGGCTAGGGTTTTTATTTAA--G
1 GGTTAGGG-T----TTTTAATTAAATTA
*
23204552 GGTTTAGGGCTTTTAATTAAATTA
1 GG-TTAGGGTTTTTAATTAAATTA
* *
23204576 GGCTAGGGTTTTTAA-GACAATTA
1 GGTTAGGGTTTTTAATTA-AATTA
*
23204599 GGCTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
23204622 GGTTAGGGTTTTT-ATTTAA--G
1 GGTTAGGGTTTTTAATTAAATTA
*
23204642 GGTTTAGGGTTTTTAATTGAATTA
1 GG-TTAGGGTTTTTAATTAAATTA
23204666 GGTTAGGGTT
1 GGTTAGGGTT
23204676 AGGGTTTTTA
Statistics
Matches: 372, Mismatches: 37, Indels: 104
0.73 0.07 0.20
Matches are distributed among these distances:
20 12 0.03
21 29 0.08
22 59 0.16
23 160 0.43
24 23 0.06
25 4 0.01
26 18 0.05
27 31 0.08
28 28 0.08
29 8 0.02
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:23204299 original size:72 final size:72
Alignment explanation
Indices: 23204171--23204354 Score: 314
Period size: 72 Copynumber: 2.5 Consensus size: 72
23204161 GGGTTTAAGA
** * *
23204171 TTTTTAAATGAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGG
1 TTTTTAAATGAATTAAATTA-GGCTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAGG
23204236 GTTCAGGG
65 GTTCAGGG
23204244 TTTTTAAATGAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAGGG
1 TTTTTAAATGAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAGGG
*
23204309 TTGAGGG
66 TTCAGGG
23204316 TTTTTAAATGAATTAAATTAGGCTAGGGTTTTTAATTAA
1 TTTTTAAATGAATTAAATTAGGCTAGGGTTTTTAATTAA
23204355 GGGTTTAGGG
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 88 0.83
73 18 0.17
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (72 bp):
TTTTTAAATGAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAGGG
TTCAGGG
Found at i:23204427 original size:28 final size:27
Alignment explanation
Indices: 23204359--23204550 Score: 125
Period size: 28 Copynumber: 7.6 Consensus size: 27
23204349 AATTAAGGGT
*
23204359 TTAGGGTTTTTAAATAAATTAAATTAGG
1 TTAGGGTTTTT-AATTAATTAAATTAGG
23204387 TTAGGG--TTT--TTAATTAAATTAGG
1 TTAGGGTTTTTAATTAATTAAATTAGG
23204410 TTAGGGTTTTT-A--AATTAAATTA-G
1 TTAGGGTTTTTAATTAATTAAATTAGG
23204433 TTAAGGG---TT--TTAATTAAATTAGG
1 TT-AGGGTTTTTAATTAATTAAATTAGG
**
23204456 TTAGGGTTTTTAATTAA--GGA-T---
1 TTAGGGTTTTTAATTAATTAAATTAGG
*
23204477 TTAGGGTTTTTAAATGAATTAAATTAGG
1 TTAGGGTTTTT-AATTAATTAAATTAGG
* **
23204505 TTAGGGTTTTAAATTGAATTAGGTTAGGG
1 TTAGGGTTTTTAATT-AATTAAATTA-GG
* *
23204534 CTAGGGTTTTTATTTAA
1 TTAGGGTTTTTAATTAA
23204551 GGGTTTAGGG
Statistics
Matches: 130, Mismatches: 13, Indels: 42
0.70 0.07 0.23
Matches are distributed among these distances:
21 13 0.10
22 19 0.15
23 25 0.19
24 16 0.12
25 7 0.05
26 3 0.02
27 7 0.05
28 26 0.20
29 14 0.11
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (27 bp):
TTAGGGTTTTTAATTAATTAAATTAGG
Found at i:23204635 original size:168 final size:163
Alignment explanation
Indices: 23204194--23204683 Score: 518
Period size: 168 Copynumber: 2.9 Consensus size: 163
23204184 TAGGTTAGGG
* * *
23204194 TTAGGGTTTTT-A-ATTAAATTAGGTTAGGGTTTTTAATT-AA--GGGTTCAGGGTTTTTAAATG
1 TTAGGGTTTTTAATATTAAA-TAGGTTAGGGCTTTTAATTAAATTAGGCT-AGGGTTTTT--A--
* *
23204254 AATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAGGGTTGAGGGTTT
60 AA-TAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTT
* * *
23204319 TTAAATGAATTAAATTAGGCTAGGGTTTTTAATTAAGGGT
124 TTAAATGAATTAAATTAGGTTAGGGTTTTAAATTAAAGGT
* *
23204359 TTAGGGTTTTTAAATAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAA
1 TTAGGGTTTTT-AAT--ATTAAA-TAGGTTAGGGCTTTTAATTAAATTAGGCTAGGGTTTTTAAA
* *
23204424 TTAAATTA-GTTAAGGG-TTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGATTTAGGGTTTT
62 -TAAATTAGGCT-AGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTT
23204487 TAAATGAATTAAATTAGGTTAGGGTTTTAAATTGAATTAGGT
125 TAAATGAATTAAATTAGGTTAGGGTTTTAAATT-AA--AGGT
*
23204529 TAGGGCTAGGGTTTTT-AT-TT-AA-GGGTTTAGGGCTTTTAATTAAATTAGGCTAGGGTTTTTA
1 T-----TAGGGTTTTTAATATTAAATAGG-TTAGGGCTTTTAATTAAATTAGGCTAGGGTTTTTA
* *
23204590 AGA-CAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTT
60 A-ATAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTT
* **
23204654 TTAATTGAATTAGGTTAGGGTTAGGGTTTT
124 TTAAATGAATTAAATTA-GGTTAGGGTTTT
23204684 TATTTAAGGG
Statistics
Matches: 285, Mismatches: 18, Indels: 40
0.83 0.05 0.12
Matches are distributed among these distances:
165 11 0.04
167 89 0.31
168 110 0.39
169 15 0.05
170 33 0.12
171 2 0.01
172 9 0.03
173 6 0.02
175 10 0.04
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (163 bp):
TTAGGGTTTTTAATATTAAATAGGTTAGGGCTTTTAATTAAATTAGGCTAGGGTTTTTAAATAAA
TTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAAATG
AATTAAATTAGGTTAGGGTTTTAAATTAAAGGT
Found at i:23204665 original size:49 final size:48
Alignment explanation
Indices: 23204275--23204786 Score: 251
Period size: 49 Copynumber: 10.6 Consensus size: 48
23204265 GCTAGGGTTT
* * *
23204275 TTAATTAAATTAGGTTAGGATTTTTAATTAAGGGTTGAGGGTTTTTAAA
1 TTAATTAAATTAGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTT-AA
* * *
23204324 TGAATTAAATTAGGCTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAAA
1 TTAATTAAATTAGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTT-AA
* * *
23204373 TAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTT-A
1 TTAATTAAATTAGGTTAGGGTTTTT-ATTTAA--GGGTTTAGGGTTTTTAA
* * *
23204422 --AATTAAATTA-GTTAAGGGTTTTAATTAAATTAGG-TTAGGGTTTTTAA
1 TTAATTAAATTAGGTT-AGGGTTTTTATTTAA--GGGTTTAGGGTTTTTAA
** * *
23204469 TTAA--GGA-T---TTAGGGTTTTTAAATGAATTAAATTAGG-TTAGGGTTTTAAA
1 TTAATTAAATTAGGTTAGGGTTTTT--AT---TT-AA--GGGTTTAGGGTTTTTAA
** * *
23204518 TTGAATTAGGTTAGGGCTAGGGTTTTTATTTAAGGGTTTAGGG--CTT--
1 TT-AATTAAATTA-GGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAA
* *** * *
23204564 TTAATTAAATTAGGCTAGGGTTTTTAAGACAATTAGG-CTAGGG--TTT--
1 TTAATTAAATTAGGTTAGGGTTTTT-ATTTAA--GGGTTTAGGGTTTTTAA
23204610 TTAATTAAATTAGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAA
1 TTAATTAAATTAGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAA
** ****
23204658 TTGAATTAGGTTAGGGTTAGGGTTTTTATTTAAGGGTTT-GGAAAAATTAA
1 TT-AATTAAATTA-GGTTAGGGTTTTTATTTAAGGGTTTAGG-GTTTTTAA
* *** *
23204708 TTAAATCAGGCTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAAA
1 TT-AATTAAATTA-GGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTT-AA
* ** *
23204759 TGAATTAGGTTAGGCTAGGGTTTTTATT
1 TTAATTAAATTAGGTTAGGGTTTTTATT
23204787 AAATGTCATA
Statistics
Matches: 374, Mismatches: 54, Indels: 70
0.75 0.11 0.14
Matches are distributed among these distances:
43 10 0.03
44 20 0.05
45 16 0.04
46 62 0.17
47 22 0.06
48 4 0.01
49 118 0.32
50 86 0.23
51 18 0.05
52 5 0.01
53 1 0.00
55 2 0.01
57 10 0.03
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.44
Consensus pattern (48 bp):
TTAATTAAATTAGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAA
Found at i:23205215 original size:18 final size:18
Alignment explanation
Indices: 23205192--23205226 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23205182 CAGAAAAGGA
*
23205192 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
23205210 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
23205227 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:23205877 original size:7 final size:7
Alignment explanation
Indices: 23205867--23205891 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23205857 TTATATACAT
23205867 AATACTA
1 AATACTA
23205874 AATACTA
1 AATACTA
23205881 AATACTA
1 AATACTA
23205888 AATA
1 AATA
23205892 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:23207669 original size:24 final size:24
Alignment explanation
Indices: 23207619--23207670 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
23207609 TTTGTAGAAG
* *
23207619 ATTTAGTATTTATTAGTACAATAT
1 ATTTAGCATTTATTAGCACAATAT
* *
23207643 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCACAATAT
23207667 ATTT
1 ATTT
23207671 GACATACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCACAATAT
Found at i:23212270 original size:18 final size:18
Alignment explanation
Indices: 23212237--23212284 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
23212227 AATATATTTA
23212237 TAAAATTA-TAATAAAAG
1 TAAAATTATTAATAAAAG
* *
23212254 TAAAATTATTTATAAAAT
1 TAAAATTATTAATAAAAG
*
23212272 TATAATTA-TAATA
1 TAAAATTATTAATA
23212285 GTAATTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAATTATTAATAAAAG
Found at i:23214456 original size:17 final size:17
Alignment explanation
Indices: 23214423--23214456 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23214413 GTTTATATTA
*
23214423 TTTTCTTTTTCTTTTTT
1 TTTTCTTTTTCTCTTTT
*
23214440 TTTTCTTTTTGTCTTTT
1 TTTTCTTTTTCTCTTTT
23214457 CTTGTGTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTTCTCTTTT
Found at i:23215752 original size:87 final size:87
Alignment explanation
Indices: 23215606--23215878 Score: 343
Period size: 87 Copynumber: 3.1 Consensus size: 87
23215596 GATCTGCCAG
* * * *
23215606 TTTAACTGCAACTTATGGGTATAGCGGTTTACCGTACTGTACCACTTGTATGTCAGCTTTGCTGC
1 TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACTTGTACGTCAGCTTTGCTGC
* * *
23215671 ATACTATTATATGATTTGGCAA
66 GTACTATTATATGATCTAGCAA
* *
23215693 TTTAACTATAACTTATCGGTATAGCGGTTTACCGCACTGAACCACTTGTACGTCAGCTTTGCTGC
1 TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACTTGTACGTCAGCTTTGCTGC
* * *
23215758 GTACTATTATCTGATCTAGTAG
66 GTACTATTATATGATCTAGCAA
* * * * *
23215780 TTTAATTGTAACTTATCGGTATAGCAGTTTACTGCACTGTACC-GTATGTACAT-AGCTTTGCTG
1 TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACT-TGTACGTCAGCTTTGCTG
* *
23215843 CGTACTATTATCTAATCTAGCAA
65 CGTACTATTATATGATCTAGCAA
23215866 TTTAAACTGTAAC
1 TTT-AACTGTAAC
23215879 ATGTTTGTGC
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
86 34 0.21
87 127 0.79
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTAACTGTAACTTATCGGTATAGCGGTTTACCGCACTGTACCACTTGTACGTCAGCTTTGCTGC
GTACTATTATATGATCTAGCAA
Found at i:23227901 original size:3 final size:3
Alignment explanation
Indices: 23227895--23227922 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23227885 ATTAAAATTT
23227895 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23227923 AAAAGAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23230501 original size:21 final size:21
Alignment explanation
Indices: 23230471--23230510 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23230461 TGACATTTTG
*
23230471 TTATTCTTTATTTTACTTAGC
1 TTATTCTTTAATTTACTTAGC
*
23230492 TTATTTTTTAATTTACTTA
1 TTATTCTTTAATTTACTTA
23230511 TTTAACCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTCTTTAATTTACTTAGC
Found at i:23231464 original size:154 final size:154
Alignment explanation
Indices: 23231182--23231473 Score: 435
Period size: 154 Copynumber: 1.9 Consensus size: 154
23231172 ATAACCGTTT
* * *
23231182 AGCCAGTTTACGTTTTATAACCCCTATTAGTTGGACATGGACCAAGGACGGATACACGGATCATC
1 AGCCAGTTTACGTTTTATAACCCCTATTAGATGGACACGGACCAAGGACAGATACACGGATCATC
** * * * * **
23231247 CGACCACCACGTCAATCTGGCAGTCAGTGCCTCATCGAAACGATCGAAGTATAATTTGTGCCTAA
66 AAAACACCACGTCAATCTGGCAATCAGTGCCTCATCAAAACGATCGAAGTAAAATTTACGCCTAA
23231312 CACTCATCGGTATAGTTATCGGGC
131 CACTCATCGGTATAGTTATCGGGC
23231336 AGCCAGTTTACGTTTTATAACCCCTATTAGAT-GAGCACGGACCAAGGACAGATACACGGATCAT
1 AGCCAGTTTACGTTTTATAACCCCTATTAGATGGA-CACGGACCAAGGACAGATACACGGATCAT
* *
23231400 CAAAACATCATGTCAATCTGGCAATCAGTGCCTCATCAAAACGA-CTGAAGTAAAATTTACGCCT
65 CAAAACACCACGTCAATCTGGCAATCAGTGCCTCATCAAAACGATC-GAAGTAAAATTTACGCCT
23231464 AACACTCATC
129 AACACTCATC
23231474 AATATATCCA
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
153 3 0.02
154 120 0.98
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (154 bp):
AGCCAGTTTACGTTTTATAACCCCTATTAGATGGACACGGACCAAGGACAGATACACGGATCATC
AAAACACCACGTCAATCTGGCAATCAGTGCCTCATCAAAACGATCGAAGTAAAATTTACGCCTAA
CACTCATCGGTATAGTTATCGGGC
Found at i:23232142 original size:29 final size:30
Alignment explanation
Indices: 23232105--23232163 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
23232095 AATTTTTTGT
*
23232105 ATAACATTGCACA-AAA-TAAAAGTTCATGA
1 ATAAAATTGCACATAAACT-AAAGTTCATGA
23232134 ATAAAATTGCACATTAAACTAAAGTTCATG
1 ATAAAATTGCACA-TAAACTAAAGTTCATG
23232164 TATTGCTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 12 0.46
31 13 0.50
32 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (30 bp):
ATAAAATTGCACATAAACTAAAGTTCATGA
Found at i:23234678 original size:7 final size:7
Alignment explanation
Indices: 23234666--23234697 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
23234656 TTATCTGATC
23234666 AGTGACA
1 AGTGACA
23234673 AGTGACA
1 AGTGACA
23234680 AGTGACA
1 AGTGACA
*
23234687 AGTGATA
1 AGTGACA
23234694 AGTG
1 AGTG
23234698 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:23234712 original size:58 final size:58
Alignment explanation
Indices: 23234622--23234945 Score: 328
Period size: 58 Copynumber: 6.1 Consensus size: 58
23234612 ACTTTTGATC
* **
23234622 AGTGATAAGTGATAAGCAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * *
23234680 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAATGACAAGTGGCA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
23234738 AGTGACAAGTGAT-A---GT---TTTAGCTACACTTATCT-A--A-T--C-AGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * *
23234782 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
23234840 AGTG---A-T-A-AA-TGGTAGCTTTAGCTACACTTATCTGATCAGTG---A-T-A-A
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
23234885 A-TGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGATAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
23234941 AGTGA
1 AGTGA
23234946 TCATACGTAA
Statistics
Matches: 223, Mismatches: 15, Indels: 57
0.76 0.05 0.19
Matches are distributed among these distances:
44 20 0.09
45 4 0.02
46 1 0.00
47 3 0.01
48 4 0.02
49 1 0.00
50 26 0.12
51 69 0.31
52 3 0.01
53 2 0.01
54 5 0.02
55 3 0.01
56 2 0.01
57 4 0.02
58 76 0.34
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:23234730 original size:51 final size:51
Alignment explanation
Indices: 23234673--23234946 Score: 388
Period size: 51 Copynumber: 5.4 Consensus size: 51
23234663 ATCAGTGACA
*
23234673 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * * * * *
23234724 AATGACAAGTGGCAAGTGACAAGTGATAGTTTTAGCTACACTTATCTAATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * *
23234775 AGTGACAAGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
23234826 AGTGACAAGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * *
23234877 AGTGATAAATGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * *
23234927 AGGGATAAGTGATAAGTGAT
1 AGTGACAAGTGACAAGTGAT
23234947 CATACGTAAG
Statistics
Matches: 199, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
50 36 0.18
51 163 0.82
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:23234805 original size:102 final size:102
Alignment explanation
Indices: 23234641--23234945 Score: 387
Period size: 102 Copynumber: 2.9 Consensus size: 102
23234631 TGATAAGCAG
*
23234641 TAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACAAGTGATAAGTGGTAGCTTT
1 TAGCTTTAGCTACACTTATCT-A--A-T--C-AGTGACAAGTGGCAAGTGATAAGTGGTAGCTTT
* * *
23234706 AGCTACACTTATTTGATCAATGACAAGTGGCAAGTGACAAGTGA
59 AGCTACACTTATCTGATCAATGACAAGTGACAAGTGACAAATGA
* * *
23234750 TAGTTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGATAGCTTCAGCTACA
1 TAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGGTAGCTTTAGCTACA
* * *
23234815 CTTATCTGATCAGTGACAAGTGACAAGTGATAAATGG
66 CTTATCTGATCAATGACAAGTGACAAGTGACAAATGA
* * *
23234852 TAGCTTTAGCTACACTTATCTGATCAGTGATAAATGGCAAGTGATAAGTGGTAGC-TTAGCTACA
1 TAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGGTAGCTTTAGCTACA
** * *
23234916 CTTATCTGATCAGGGATAAGTGATAAGTGA
66 CTTATCTGATCAATGACAAGTGACAAGTGA
23234946 TCATACGTAA
Statistics
Matches: 177, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
101 35 0.20
102 118 0.67
103 1 0.01
105 1 0.01
106 1 0.01
108 1 0.01
109 20 0.11
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (102 bp):
TAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGGCAAGTGATAAGTGGTAGCTTTAGCTACA
CTTATCTGATCAATGACAAGTGACAAGTGACAAATGA
Found at i:23237539 original size:43 final size:43
Alignment explanation
Indices: 23237474--23237649 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
23237464 GGTTACCATG
*
23237474 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCAAATTGAAGA
1 ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCAAATTGAAGA
* * *
23237517 ACTAATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTGAAAA
1 ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCAAATTGAAGA
* * * * * * * *
23237560 TAGAAAATCTTATCTCTCTAAAGTTGCAGT-AAGGCAGATTAAAGCT
1 -A-CAAATCTTATCTCCCTAAAATTGTAGTGGA-GCAAATTGAAG-A
* *
23237606 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGA
1 ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCA-AATTGAAGA
23237650 TAGGGAACCT
Statistics
Matches: 106, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
43 39 0.37
44 28 0.26
45 39 0.37
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (43 bp):
ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCAAATTGAAGA
Found at i:23237620 original size:89 final size:88
Alignment explanation
Indices: 23237520--23237778 Score: 306
Period size: 90 Copynumber: 2.9 Consensus size: 88
23237510 TTGAAGAACT
* * * *
23237520 AATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCTCTGAAGAT
23237585 GCAGTAAGGCAGATTAAAGCTACA
66 GCAGT-AGGCAGATTAAAGCTACA
* ** *
23237609 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGATAGGGAACCTTATCTCTCTGAAGA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAG-ATTGAAAATAGAAAATCTTATCTCTCTGAAGA
*
23237674 GGCAGTAGAGCAGATTAAAGCTACA
65 TGCAGTAG-GCAGATTAAAGCTACA
* * * * * *
23237699 AACCTTATCTCTCTGAAGTTGCAGTGGAGTAGGTT-AAAGATA-ACAAATCTTATCTCCCTGAAG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-ATAGA-AAATCTTATCTCTCTGAAG
*
23237762 ATGCAGTGGGGCAGATT
64 ATGCAGT-AGGCAGATT
23237779 GAAAATAGTG
Statistics
Matches: 144, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
88 2 0.01
89 66 0.46
90 76 0.53
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCTCTGAAGAT
GCAGTAGGCAGATTAAAGCTACA
Found at i:23237628 original size:44 final size:44
Alignment explanation
Indices: 23237474--23238465 Score: 535
Period size: 44 Copynumber: 21.9 Consensus size: 44
23237464 GGTTACCATG
* * * *
23237474 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCAAATTGAAGA-
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
23237517 ACTAATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTGAAA-AT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
* * * * *
23237561 AGAAAATCTTATCTCTCTAAAGTTGCAGT-AAGGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTAAAGAT
* *
23237606 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGAT
** * * ** * *
23237651 AGGGAACCTTATCTCTCTGAAGAGGCAGTAGAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
23237696 ACAAACCTTATCTCTCTGAAGTTGCAGTGGAGTAGGTTAAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* *
23237740 AACAAATCTTATCTCCCTGAAGATGCAGTGGGGCAGATTGAAA-AT
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
** * * ** * *
23237785 AGTGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAGGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* ** * * * * *
23237830 ACAAACCACAAAACCTATACCGCTAAAGTTGCAATGG-GACGGATTGAAGTCATCGT
1 ACAAA--TC-TTA--TCT-CC-CTGAAGTTGCAGTGGAG-CAGATTAAAG--A---T
* * * * **
23237886 GGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTCAAGCC
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
23237931 ATAAAT-TT-TCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
*** * * * * * *
23237973 GTTAATATTATCTCCTTGAAATTGCATTGGAGTAGATTGAAA-AC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
* * * *
23238017 ACAAATCTTATCTCCCTGAAGTCGCAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * * *
23238061 ACAAATCTCATCTTCCTAAAGTTACAGTGGAGGAGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
** * * * *
23238105 AGTGAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
23238150 ATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
23238194 ATAAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGAT
* **
23238245 ACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
23238289 ACAAATCTTATCTCCCTAAAGTTGTAGTGCAGTAGA-TAGAGGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGAT
* * * * * **
23238333 ACATATCTTATTTCCCTAAAGTTGTAGTAGAATAGATTAAAACGAAAAATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-G----A-T
* * *
23238384 ACAAATCTCATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * * *
23238428 ATAAGTCTAATCTCCATGAAATTGCAGTGGAGTAGATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
23238466 GAAGCAACAC
Statistics
Matches: 726, Mismatches: 175, Indels: 95
0.73 0.18 0.10
Matches are distributed among these distances:
42 31 0.04
43 44 0.06
44 335 0.46
45 154 0.21
46 32 0.04
47 1 0.00
49 3 0.00
50 29 0.04
51 89 0.12
52 2 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 3 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
Found at i:23238010 original size:86 final size:88
Alignment explanation
Indices: 23237894--23238058 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 88
23237884 GTGGCGAATC
* ** * * *
23237894 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTCAAGCCATAAAT-TT-TCTCCCTGAGGTTGCAGT
1 TTATCTCCTTGAAATTGCAGTGGAGCAGATTCAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
23237957 GGAGTAGACTGAAGATGTTAATA
66 GGAGTAGACTGAAGATGTTAATA
* * *
23237980 TTATCTCCTTGAAATTGCATTGGAGTAGATTGAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
1 TTATCTCCTTGAAATTGCAGTGGAGCAGATTCAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
*
23238045 GGAGTAGATTGAAG
66 GGAGTAGACTGAAG
23238059 TTACAAATCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
86 36 0.54
87 2 0.03
88 29 0.43
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (88 bp):
TTATCTCCTTGAAATTGCAGTGGAGCAGATTCAAAACACAAATCTTATCTCCCTGAAGTCGCAGT
GGAGTAGACTGAAGATGTTAATA
Found at i:23238143 original size:89 final size:88
Alignment explanation
Indices: 23238019--23238317 Score: 238
Period size: 89 Copynumber: 3.3 Consensus size: 88
23238009 TTGAAAACAC
* * * *
23238019 AAATCTTATCTCCCTGAAGTCGCAGTGGAGTAGATTGAAGTTACAAATCTCATCTTCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTCATCTCCCTAAAGTT
* * *
23238084 ACAGTGGAGGAGATTGAAGATAGT
66 ACAGTGGAGCAAATTAAAGATA-T
* * * * * * * *
23238108 GAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGTTATAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTCATCTCCCTAAAGTT
** *
23238173 GTAGTGGAGCAAATTAAAGTTAT
66 ACAGTGGAGCAAATTAAAGATAT
* * * ** *
23238196 AAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAAATTTTATCTCCC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTACAAACCTCATCTCCC
* * * ** *
23238261 TGAAGTTGCAGTGGAGCAGATTAAAGCCAC
59 TAAAGTTACAGTGGAGCAAATTAAAGATAT
* *
23238291 AAATCTTATCTCCCTAAAGTTGTAGTG
1 AAATCTTATCTCCCTGAAGTTGCAGTG
23238318 CAGTAGATAG
Statistics
Matches: 165, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
88 30 0.18
89 69 0.42
95 66 0.40
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAACCTCATCTCCCTAAAGTT
ACAGTGGAGCAAATTAAAGATAT
Found at i:23238311 original size:139 final size:138
Alignment explanation
Indices: 23237474--23238465 Score: 483
Period size: 139 Copynumber: 7.3 Consensus size: 138
23237464 GGTTACCATG
* * * * * * *
23237474 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCAAATTGAAG-AACT-AATCTTATCTCCCTAAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTA-TAAATCTCATTTCCCTAAA
* * * * * * *
23237537 ATTGTAGTGGAGCAGATTGAA-AAT-AG--A-AAATCTTATCTCTCTAAAGTTGCAGT-AAGGCA
65 GTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGA-GCA
23237596 GATTAAAG-C
129 GATTAAAGAC
* * * ** * * * * *
23237605 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATTGAAGATAGGGAACCTTATCTCTCTG
1 -ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAG-ATTAAAGTTA-TAAATCTCATTTCCCTA
** * * * * * *
23237670 AAGAGGCAGTAGAGCAGATT-----A-AAGCTACAAACCTTATCTCTCTGAAGTTGCAGTGGAGT
63 AAGTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* *
23237729 AGGTTAAAGATA
128 AGATTAAAGA-C
* * * * * * *
23237741 ACAAATCTTATCTCCCTGAAGATGCAGTGGGGCAGATTGAAA-ATAGTGAATCTTATTTCCCTAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATT-AAAGTTA-TAAATCTCATTTCCCTAA
* * *** * * * * *
23237805 AGTTGCAGTGGAATAGATT-AAGGCTACAAACCACAAAACCTATAC-CGCTAAAGTTGCAATGG-
64 AGTTGCAGTGGAACAGATTGAA-GC-ATAAGTTACAAATCTTAT-CTCCCTGAAGTTGCAGTGGA
* *
23237867 GACGGATTGAAGTCATC
126 G-CAGATTAAAG--A-C
* * * * * * **
23237884 GTGGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTCAAGCCATAAAT-T--TTCTCCCT
1 ---ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCATT-TCCCT
* * ** * * * * *
23237946 GAGGTTGCAGTGGAGTAGACTGAAG-AT--GTT---AATATTATCTCCTTGAAATTGCATTGGAG
62 AAAGTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
*
23238005 TAGATTGAAA-AC
127 CAGATT-AAAGAC
* * * *
23238017 ACAAATCTTATCTCCCTGAAGTCGCAGTGGAGTAGATTGAAGTTACAAATCTCATCTT-CCTAAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCAT-TTCCCTAAA
* ** * * * *
23238081 GTTACAGTGGAGGAGATTGAAG-AT-AG-T--GAATCTTATCTCTCTGAAGTTACAGTAGAGCAG
65 GTTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
**
23238141 ATTAAAGTT
130 ATTAAAGAC
* * * * *
23238150 ATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGTTATAAATCTCATTTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCATTTCCCTAAAG
*
23238215 TTGCAGTGGAACAGATTGAAGCTATAAGTTACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAG
66 TTGCAGTGGAACAGATTGAAGC-ATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
*
23238280 ATTAAAGCC
130 ATTAAAGAC
* * * * *
23238289 ACAAATCTTATCTCCCTAAAGTTGTAGTGCAGTAGA-TAGAG-GATACATATCTTATTTCCCTAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATA-A-ATCTCATTTCCCTAA
* * * * * * * * *
23238352 AGTTGTAGTAGAATAGATTAAAACGAAAAATTACAAATCTCATCTCCTTGAAGTTGCAGTGGAGC
64 AGTTGCAGTGGAACAGATTGAAGC-ATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
**
23238417 AGATTAAAGTT
128 AGATTAAAGAC
* * * * * *
23238428 ATAAGTCTAATCTCCATGAAATTGCAGTGGAGTAGATT
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATT
23238466 GAAGCAACAC
Statistics
Matches: 665, Mismatches: 147, Indels: 88
0.74 0.16 0.10
Matches are distributed among these distances:
130 41 0.06
131 4 0.01
132 64 0.10
133 110 0.17
134 70 0.11
135 65 0.10
136 23 0.03
137 7 0.01
138 5 0.01
139 169 0.25
140 3 0.00
141 33 0.05
142 3 0.00
143 25 0.04
144 3 0.00
145 6 0.01
146 34 0.05
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (138 bp):
ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTATAAATCTCATTTCCCTAAAG
TTGCAGTGGAACAGATTGAAGCATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
TTAAAGAC
Found at i:23238494 original size:139 final size:139
Alignment explanation
Indices: 23238243--23238495 Score: 305
Period size: 139 Copynumber: 1.8 Consensus size: 139
23238233 AAGCTATAAG
* * * *
23238243 TTACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAA
1 TTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTAATCTCCATAA
* * * * *
23238308 AGTTGTAGTGCAGTAGATAGAGGATACATATCTTATTTCCCTAAAGTTGTAGTAGAATAGATTAA
66 AGTTGCAGTGCAGTAGATAGAGCATACACATCATATTACCCTAAAGTTGTAGTAGAATAGATTAA
23238373 AACGAAAAA
131 AACGAAAAA
* ** * *
23238382 TTACAAATCTCATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTTATAAGTCTAATCTCCATGA
1 TTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTAATCTCCAT-A
* * *
23238447 AA-TTGCAGTGGAGTAGATTGAAGCA-ACACATCATA-TACCTCTGAAGTTG
65 AAGTTGCAGTGCAGTAGATAG-AGCATACACATCATATTACC-CTAAAGTTG
23238496 CAATGGGCTA
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
138 3 0.03
139 85 0.90
140 6 0.06
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (139 bp):
TTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTAATCTCCATAA
AGTTGCAGTGCAGTAGATAGAGCATACACATCATATTACCCTAAAGTTGTAGTAGAATAGATTAA
AACGAAAAA
Found at i:23238782 original size:22 final size:23
Alignment explanation
Indices: 23238738--23238785 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
23238728 CAACACTTAC
23238738 AAGCCCAATTTACATTAAACCCAAA
1 AAGCCCAATTTAC--TAAACCCAAA
23238763 AAGCCCAATTTAC-AAACCCAAA
1 AAGCCCAATTTACTAAACCCAAA
23238785 A
1 A
23238786 TTAACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.43
25 13 0.57
ACGTcount: A:0.50, C:0.29, G:0.04, T:0.17
Consensus pattern (23 bp):
AAGCCCAATTTACTAAACCCAAA
Found at i:23240106 original size:13 final size:13
Alignment explanation
Indices: 23240085--23240132 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
23240075 TTCATCGGGC
23240085 ATCTATTTATTTT
1 ATCTATTTATTTT
*
23240098 ATTTATTTA-TTT
1 ATCTATTTATTTT
23240110 ATCTA-TTATTATT
1 ATCTATTTATT-TT
23240123 ATCTATTTAT
1 ATCTATTTAT
23240133 GTATTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 15 0.50
14 4 0.13
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (13 bp):
ATCTATTTATTTT
Found at i:23240116 original size:21 final size:21
Alignment explanation
Indices: 23240092--23240142 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
23240082 GGCATCTATT
*
23240092 TATTTTATTTATTTATTTATC
1 TATTTTATTTATCTATTTATC
*
23240113 TATTATTA-TTATCTATTTATG
1 TATT-TTATTTATCTATTTATC
23240134 TATTTTATT
1 TATTTTATT
23240143 ACAAATTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTTATTTATCTATTTATC
Found at i:23240124 original size:25 final size:25
Alignment explanation
Indices: 23240085--23240132 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
23240075 TTCATCGGGC
*
23240085 ATCTATTTATTTTATTTATTTATTT
1 ATCTATTTATTTTATCTATTTATTT
23240110 ATCTA-TTATTATTATCTATTTAT
1 ATCTATTTATT-TTATCTATTTAT
23240133 GTATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
ATCTATTTATTTTATCTATTTATTT
Found at i:23244772 original size:162 final size:159
Alignment explanation
Indices: 23244506--23244807 Score: 435
Period size: 162 Copynumber: 1.9 Consensus size: 159
23244496 CCCATCAACA
* * * * ** *
23244506 GTATTGTTTTGAACATTGTTTTCGTTTGTGTTAGTGCTTTCTTAGCATTTTGTTTGATCTGATTG
1 GTATTGTTTTGAACATTGTTTTCATTTCTGTTAATGCTTTCTTAACATTTCATCTGATCTGATTG
* *
23244571 TTTACATGTAAAATCATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAATTTTGAAGGTTG
66 TTTACACGTAAAATAATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAA-TTTGAA-GTTG
23244636 TTTGCTTGTTCATAGAGGGTTTTCCTTGGAT
129 TTTGCTTGTTCATAGAGGGTTTTCCTTGGAT
*
23244667 GTATTGTTTTTG-ACATTGTTTTTCATTTCTGTTAATGCTTTCTTAATATTTCATCTGATCTGAT
1 GTATTG-TTTTGAACATTG-TTTTCATTTCTGTTAATGCTTTCTTAACATTTCATCTGATCTGAT
* * * *
23244731 TGTTTACACGTAAAATAATGTAGGTTTAAGTTAATCAAGTCATTAGATTTGAGAATTTGGAGTTG
64 TGTTTACACGTAAAATAATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAATTTGAAGTTG
23244796 TTTGCTTGTTCA
129 TTTGCTTGTTCA
23244808 AAAAGGGGTT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
160 16 0.13
161 17 0.14
162 92 0.74
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (159 bp):
GTATTGTTTTGAACATTGTTTTCATTTCTGTTAATGCTTTCTTAACATTTCATCTGATCTGATTG
TTTACACGTAAAATAATGTAGATTTAAATCAATCAAGTCATTAGATTTGAGAATTTGAAGTTGTT
TGCTTGTTCATAGAGGGTTTTCCTTGGAT
Found at i:23247111 original size:20 final size:20
Alignment explanation
Indices: 23247069--23247109 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23247059 TATTTCGGAT
* *
23247069 AATATAAGAAAAACAATTAA
1 AATATAATATAAACAATTAA
23247089 AATATAATATAAA-AATTAA
1 AATATAATATAAACAATTAA
23247108 AA
1 AA
23247110 ATTACTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AATATAATATAAACAATTAA
Found at i:23248361 original size:22 final size:21
Alignment explanation
Indices: 23248321--23248362 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
23248311 ATTTTTACTG
*
23248321 AATTATGATTTTTTGTCACTT
1 AATTATGATTTTTTATCACTT
23248342 AATTATGATTTTTTTATCACT
1 AATTATGA-TTTTTTATCACT
23248363 CAACTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (21 bp):
AATTATGATTTTTTATCACTT
Found at i:23251536 original size:27 final size:27
Alignment explanation
Indices: 23251497--23251576 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
23251487 TACTACCCCG
*
23251497 ACATCACCGGACACAAATCCGACTCCA
1 ACATTACCGGACACAAATCCGACTCCA
* *
23251524 ACATTACCAGACACCAATCCGACTCCA
1 ACATTACCGGACACAAATCCGACTCCA
*
23251551 ACATTACCGGACACAAATCCGGCTCC
1 ACATTACCGGACACAAATCCGACTCC
23251577 CACCGGCCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.35, C:0.40, G:0.11, T:0.14
Consensus pattern (27 bp):
ACATTACCGGACACAAATCCGACTCCA
Found at i:23251608 original size:24 final size:24
Alignment explanation
Indices: 23251581--23251696 Score: 124
Period size: 24 Copynumber: 4.8 Consensus size: 24
23251571 GGCTCCCACC
*
23251581 GGCCCTACCACGACTCCTCCGACT
1 GGCCCTACCACAACTCCTCCGACT
23251605 GGCCCTACCACAACTCCTCCGACT
1 GGCCCTACCACAACTCCTCCGACT
** *
23251629 GGCCCTACCATGACTCCTCCAACT
1 GGCCCTACCACAACTCCTCCGACT
** * * *
23251653 GGGACAACCACAACTCCTCCAACA
1 GGCCCTACCACAACTCCTCCGACT
** *
23251677 GGGACAACCACAACTCCTCC
1 GGCCCTACCACAACTCCTCC
23251697 AACAGGGACA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.25, C:0.47, G:0.14, T:0.15
Consensus pattern (24 bp):
GGCCCTACCACAACTCCTCCGACT
Found at i:23251633 original size:48 final size:48
Alignment explanation
Indices: 23251581--23251711 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
23251571 GGCTCCCACC
* * *
23251581 GGCCCTACCACGACTCCTCCGACTGGCCCTACCACAACTCCTCCGACT
1 GGCCCTACCACGACTCCTCCAACTGGCACAACCACAACTCCTCCGACT
* * * *
23251629 GGCCCTACCATGACTCCTCCAACTGGGACAACCACAACTCCTCCAACA
1 GGCCCTACCACGACTCCTCCAACTGGCACAACCACAACTCCTCCGACT
** * * * *
23251677 GGGACAACCACAACTCCTCCAACAGGGACAACCAC
1 GGCCCTACCACGACTCCTCCAACTGGCACAACCAC
23251712 GAGTCCAGGA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.27, C:0.45, G:0.15, T:0.13
Consensus pattern (48 bp):
GGCCCTACCACGACTCCTCCAACTGGCACAACCACAACTCCTCCGACT
Found at i:23251697 original size:24 final size:24
Alignment explanation
Indices: 23251641--23251711 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
23251631 CCCTACCATG
*
23251641 ACTCCTCCAACTGGGACAACCACA
1 ACTCCTCCAACAGGGACAACCACA
23251665 ACTCCTCCAACAGGGACAACCACA
1 ACTCCTCCAACAGGGACAACCACA
23251689 ACTCCTCCAACAGGGACAACCAC
1 ACTCCTCCAACAGGGACAACCAC
23251712 GAGTCCAGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.35, C:0.42, G:0.13, T:0.10
Consensus pattern (24 bp):
ACTCCTCCAACAGGGACAACCACA
Found at i:23254533 original size:16 final size:16
Alignment explanation
Indices: 23254494--23254536 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
23254484 TCTTTAAATT
*
23254494 TTCAAGTCATTTTAGG
1 TTCAGGTCATTTTAGG
* * *
23254510 ATCGGGTCATTTTATG
1 TTCAGGTCATTTTAGG
23254526 TTCAGGTCATT
1 TTCAGGTCATT
23254537 CGGGTTTGCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (16 bp):
TTCAGGTCATTTTAGG
Found at i:23257595 original size:13 final size:14
Alignment explanation
Indices: 23257572--23257603 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
23257562 AAAATTTAAA
23257572 AATATTAAAATATT
1 AATATTAAAATATT
23257586 AATA-TAAAATATT
1 AATATTAAAATATT
23257599 -ATATT
1 AATATT
23257604 TTCATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAAAATATT
Found at i:23257693 original size:13 final size:14
Alignment explanation
Indices: 23257676--23257719 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
23257666 ATTTTAATTT
*
23257676 TATTTTAATAATAA
1 TATTTTAAAAATAA
23257690 -ATTTTAAAAATAA
1 TATTTTAAAAATAA
*
23257703 TATTTT-TAAATAA
1 TATTTTAAAAATAA
23257716 TATT
1 TATT
23257720 CTTCACATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTTAAAAATAA
Found at i:23258117 original size:16 final size:16
Alignment explanation
Indices: 23258096--23258130 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23258086 AAATAAAGTC
23258096 AATTAAATAATAAAAA
1 AATTAAATAATAAAAA
*
23258112 AATTAAATAATGAAAA
1 AATTAAATAATAAAAA
23258128 AAT
1 AAT
23258131 AAGAAAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AATTAAATAATAAAAA
Found at i:23258289 original size:14 final size:14
Alignment explanation
Indices: 23258270--23258305 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
23258260 GGAAAGCAAG
*
23258270 TCATTTTCCATAAA
1 TCATTTTCCAAAAA
23258284 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
23258298 TCATTTTC
1 TCATTTTC
23258306 AGTTAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:23267007 original size:19 final size:19
Alignment explanation
Indices: 23266982--23267035 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
23266972 AATATTCAAG
23266982 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
23267001 TATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23267020 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
23267036 AGATATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23267042 original size:22 final size:21
Alignment explanation
Indices: 23266982--23267066 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 21
23266972 AATATTCAAG
23266982 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAAAGATAT
*
23267001 TATATGCAATCTT--AGATAT
1 GATATGCAATCTTAAAGATAT
23267020 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTA-AAGATAT
* * *
23267042 GATATACAATATTATAATATAT
1 GATATGCAATCTTA-AAGATAT
23267064 GAT
1 GAT
23267067 TTTGTAATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 30 0.53
22 27 0.47
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAAAGATAT
Found at i:23267328 original size:23 final size:23
Alignment explanation
Indices: 23267284--23267328 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
23267274 TCTTATTTTG
* *
23267284 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
23267307 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
23267329 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:23269823 original size:12 final size:12
Alignment explanation
Indices: 23269806--23269836 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
23269796 ATTTAGCCTT
23269806 AAGTGAATATTG
1 AAGTGAATATTG
23269818 AAGTGAATATTG
1 AAGTGAATATTG
23269830 AAGTGAA
1 AAGTGAA
23269837 ATAAATTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (12 bp):
AAGTGAATATTG
Found at i:23277007 original size:16 final size:16
Alignment explanation
Indices: 23276986--23277033 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
23276976 NNNNNNNNNN
* *
23276986 CCTCTATTCCATTACA
1 CCTCTAATCCAATACA
*
23277002 CCTCTAATCTAATACA
1 CCTCTAATCCAATACA
*
23277018 CCTCTAATCTAATACA
1 CCTCTAATCCAATACA
23277034 GCGAACTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
CCTCTAATCCAATACA
Found at i:23291058 original size:23 final size:23
Alignment explanation
Indices: 23291032--23291126 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
23291022 TGAAAAGTTA
23291032 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
23291055 GAAGAGTGAAAAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
* *
23291078 GAATAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * *
23291101 GAAAAGTTAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
23291124 GAA
1 GAA
23291127 AGGATACACA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:23291602 original size:18 final size:18
Alignment explanation
Indices: 23291568--23291616 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
23291558 GGGTGTGCAT
23291568 AATTCGGTTAAAACCGAAAA
1 AATTCGGTT--AACCGAAAA
***
23291588 AATTCGGTTAACCGACCG
1 AATTCGGTTAACCGAAAA
23291606 AATTCGGTTAA
1 AATTCGGTTAA
23291617 GCGGTCGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
20 9 0.35
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (18 bp):
AATTCGGTTAACCGAAAA
Found at i:23292409 original size:27 final size:27
Alignment explanation
Indices: 23292371--23292423 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
23292361 AACTATGTCG
23292371 TTGTATACTATTGTCTTAATTTTTTCA
1 TTGTATACTATTGTCTTAATTTTTTCA
23292398 TTGTATACTATTGTCTTAATTTTTTC
1 TTGTATACTATTGTCTTAATTTTTTC
23292424 TTTCATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (27 bp):
TTGTATACTATTGTCTTAATTTTTTCA
Found at i:23292541 original size:8 final size:8
Alignment explanation
Indices: 23292528--23292560 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
23292518 CCTATATTGT
23292528 TAATTAAA
1 TAATTAAA
23292536 TAATTAAA
1 TAATTAAA
23292544 TAATTAAA
1 TAATTAAA
23292552 TAATTAAA
1 TAATTAAA
23292560 T
1 T
23292561 GCGGACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAATTAAA
Found at i:23292788 original size:17 final size:17
Alignment explanation
Indices: 23292766--23292801 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23292756 AATTCAGTCG
23292766 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
23292783 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
23292800 TA
1 TA
23292802 CCTTAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TATAAGATTATTTTTCA
Found at i:23301169 original size:23 final size:23
Alignment explanation
Indices: 23301143--23301237 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
23301133 TGAAAAGTTA
23301143 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
23301166 GAAGAGTGAAAAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
* *
23301189 GAATAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * *
23301212 GAAAAGTTAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
23301235 GAA
1 GAA
23301238 AGGATACACA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:23305807 original size:12 final size:12
Alignment explanation
Indices: 23305790--23305815 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23305780 CAAAACAGGC
23305790 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23305802 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23305814 TT
1 TT
23305816 GTACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Done.