Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 200 of 213
Found at i:59843979 original size:10 final size:10
Alignment explanation
Indices: 59843966--59843990 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59843956 AAAAATAAAA
59843966 AAAATATTTT
1 AAAATATTTT
59843976 AAAATATTTT
1 AAAATATTTT
59843986 AAAAT
1 AAAAT
59843991 TAAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATATTTT
Found at i:59844261 original size:18 final size:18
Alignment explanation
Indices: 59844219--59844261 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
59844209 GAAAATACAC
* *
59844219 ATAAAAAAATAAAGATTT
1 ATAAAAAAATAAAAAATT
59844237 A-ATAAAAAATAAAAAATT
1 ATA-AAAAAATAAAAAATT
59844255 ATAAAAA
1 ATAAAAA
59844262 TTTAGTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
ATAAAAAAATAAAAAATT
Found at i:59846863 original size:152 final size:152
Alignment explanation
Indices: 59846674--59846977 Score: 590
Period size: 152 Copynumber: 2.0 Consensus size: 152
59846664 ATTAGGGGCA
*
59846674 AAATAGTCATTTCACATCTCATATTCGAACACACACATAACAAAAATTTAGAACTACATTTTAAT
1 AAATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAAT
59846739 TCTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAA
66 TCTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAA
59846804 TTTTAAAAACAAGTGTTTTTGG
131 TTTTAAAAACAAGTGTTTTTGG
59846826 AAATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAAT
1 AAATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAAT
*
59846891 TCTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAATAATTCTCCTTTAA
66 TCTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAA
59846956 TTTTAAAAACAAGTGTTTTTGG
131 TTTTAAAAACAAGTGTTTTTGG
59846978 GACCAAAGTG
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (152 bp):
AAATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAAT
TCTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAA
TTTTAAAAACAAGTGTTTTTGG
Found at i:59850911 original size:37 final size:38
Alignment explanation
Indices: 59850852--59850964 Score: 113
Period size: 39 Copynumber: 3.0 Consensus size: 38
59850842 AGTAAACAGT
* * * * *
59850852 AATCAGTAACGGTAACAGTATTCGGCACGC-AGTGTCA
1 AATCGGTAACAGTAACAATATTCGGCACACAAGTGCCA
* *
59850889 AATCGGTAACAGTAACAATATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAATATTCGGCACAC-AAGTGCCA
* *
59850928 AATCGGTAACAGTAA-AAGTAGTCGGCACATAAGTGCC
1 AATCGGTAACAGTAACAA-TATTCGGCACACAAGTGCC
59850965 TGATCAGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
37 25 0.40
38 9 0.14
39 29 0.46
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (38 bp):
AATCGGTAACAGTAACAATATTCGGCACACAAGTGCCA
Found at i:59859780 original size:17 final size:18
Alignment explanation
Indices: 59859757--59859796 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
59859747 TAAAAAAAAC
59859757 ATAAAAAATTTAAAAATT
1 ATAAAAAATTTAAAAATT
* *
59859775 ATAAAAAATTTTAAATTT
1 ATAAAAAATTTAAAAATT
59859793 ATAA
1 ATAA
59859797 TAATTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAAAATTTAAAAATT
Found at i:59863530 original size:13 final size:13
Alignment explanation
Indices: 59863512--59863577 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
59863502 AAATTTGAAT
59863512 TATTTAGTGATAA
1 TATTTAGTGATAA
59863525 TATTTA---A-AA
1 TATTTAGTGATAA
*
59863534 TTATTTAGTGAAAA
1 -TATTTAGTGATAA
59863548 TATTTAGT-AT--
1 TATTTAGTGATAA
59863558 TATTTAGTGATAA
1 TATTTAGTGATAA
59863571 TATTTAG
1 TATTTAG
59863578 AAAAAATCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
9 2 0.05
10 15 0.34
11 2 0.05
12 1 0.02
13 22 0.50
14 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:59863577 original size:23 final size:23
Alignment explanation
Indices: 59863504--59863579 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
59863494 AATTTTTAAA
59863504 ATTT-GAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
59863526 ATTTAAAATTATTTAGTGAAAAT
1 ATTTAGAATTATTTAGTGATAAT
*
59863549 ATTTAGTATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
59863572 ATTTAGAA
1 ATTTAGAA
59863580 AAAATCTAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 4 0.09
23 43 0.91
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:59866546 original size:13 final size:13
Alignment explanation
Indices: 59866528--59866570 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
59866518 AAATTTGAAT
*
59866528 TATTTAGTAATAA
1 TATTTAGTGATAA
59866541 TATTTAG-GAT--
1 TATTTAGTGATAA
59866551 TATTTAGTGATAA
1 TATTTAGTGATAA
59866564 TATTTAG
1 TATTTAG
59866571 AAAAAACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:59866552 original size:23 final size:23
Alignment explanation
Indices: 59866526--59866570 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
59866516 TAAAATTTGA
59866526 ATTATTTAGTAATAATATTTAGG
1 ATTATTTAGTAATAATATTTAGG
*
59866549 ATTATTTAGTGATAATATTTAG
1 ATTATTTAGTAATAATATTTAG
59866571 AAAAAACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTATTTAGTAATAATATTTAGG
Found at i:59872485 original size:29 final size:30
Alignment explanation
Indices: 59872429--59872541 Score: 83
Period size: 29 Copynumber: 3.8 Consensus size: 30
59872419 TAAATACTTG
* *
59872429 AATTTAACTCTCTAATATTTACATATTTTATC
1 AATTTAA-TCT-TAATATTTAAAAATTTTATC
*
59872461 AATTTAATCTTAA-ATTTAAAAA-TTTAAC
1 AATTTAATCTTAATATTTAAAAATTTTATC
* *
59872489 CATATTAGTCCTTAATATTTATAAAATTTT-TC
1 AAT-TTAAT-CTTAATATTTA-AAAATTTTATC
* *
59872521 -ATTTAATTTTAAT-TCTAAAAA
1 AATTTAATCTTAATATTTAAAAA
59872542 AATAAAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
27 4 0.06
28 10 0.15
29 16 0.24
30 12 0.18
31 10 0.15
32 12 0.18
33 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.48
Consensus pattern (30 bp):
AATTTAATCTTAATATTTAAAAATTTTATC
Found at i:59873485 original size:48 final size:49
Alignment explanation
Indices: 59873390--59873489 Score: 139
Period size: 49 Copynumber: 2.1 Consensus size: 49
59873380 CAAACTTTAT
* * * *
59873390 AAACAAGGGCTAAAATTATTGAATTATTGATTTTAGGATCAAATTGATA
1 AAACAAGGGCTAAAATTATTGAATTATTGAGTTCAAGACCAAATTGATA
* *
59873439 AAACGAGGGCTAAAATTATTGAATT-TTTAGTTCAAGACCAAATTGATA
1 AAACAAGGGCTAAAATTATTGAATTATTGAGTTCAAGACCAAATTGATA
59873487 AAA
1 AAA
59873490 TGTGTAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (49 bp):
AAACAAGGGCTAAAATTATTGAATTATTGAGTTCAAGACCAAATTGATA
Found at i:59874526 original size:3 final size:3
Alignment explanation
Indices: 59874520--59874579 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
59874510 CAACAACAGC
* * *
59874520 AAG AAG AAG AAG AAG AAG AAG AAG AAG ATG ATG ATG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
59874568 ACA- AAG AAG AAG
1 A-AG AAG AAG AAG
59874580 CGCCAAAACC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 1 0.02
3 51 0.96
4 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.32, T:0.05
Consensus pattern (3 bp):
AAG
Found at i:59884339 original size:2 final size:2
Alignment explanation
Indices: 59884334--59884364 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59884324 TTAATACGGA
59884334 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
59884365 CTGTACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:59884662 original size:29 final size:29
Alignment explanation
Indices: 59884624--59884750 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
59884614 AGACTATATA
59884624 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
59884653 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
* * * *
59884682 ACATC-AAAATGAAATTAAAATA-TTAAAATTTATAT
1 A-ATCGATAATG--ATTGAAATACAT-CAA---A-AT
59884717 AAATCGATAATGATTGAAATACATCAAAAT
1 -AATCGATAATGATTGAAATACATCAAAAT
59884747 AATC
1 AATC
59884751 TAAAAATATT
Statistics
Matches: 79, Mismatches: 8, Indels: 22
0.72 0.07 0.20
Matches are distributed among these distances:
29 39 0.49
30 6 0.08
31 11 0.14
34 11 0.14
35 6 0.08
36 6 0.08
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (29 bp):
AATCGATAATGATTGAAATACATCAAAAT
Found at i:59886325 original size:12 final size:12
Alignment explanation
Indices: 59886308--59886335 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59886298 CTGGGAAAGA
59886308 CGCTCAAACAGC
1 CGCTCAAACAGC
59886320 CGCTCAAACAGC
1 CGCTCAAACAGC
59886332 CGCT
1 CGCT
59886336 GACGTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.18, T:0.11
Consensus pattern (12 bp):
CGCTCAAACAGC
Found at i:59887239 original size:17 final size:17
Alignment explanation
Indices: 59887217--59887250 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59887207 AAGAATAAGA
59887217 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887234 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887251 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:59887354 original size:117 final size:117
Alignment explanation
Indices: 59887133--59887737 Score: 1009
Period size: 117 Copynumber: 5.3 Consensus size: 117
59887123 AAGTAGATTA
*
59887133 TAAATTATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATTATATATTATGA--TT-TT
1 TAAATTATATTTAATAACAATTATGTTAAATTATA-TTT-TAGTATTATATATTATGATTTTATT
*
59887194 AGTAAATTCATATAAG---A---A-TAAGAATTTTATTAAATTATATATTTTAT
64 AGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* *
59887241 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
59887306 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
*
59887358 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
59887423 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
*
59887475 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
59887540 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* * * *
59887592 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATCATATATTATGGTTTTATTAG
1 TAAATTATATTTAATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
59887657 TAAATTCATATAAGAATATTTATTAA-AATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
*
59887708 TAAATTATATTTTATAACAATTATGTTAAA
1 TAAATTATATTTAATAACAATTATGTTAAA
59887738 ATATGATTAA
Statistics
Matches: 474, Mismatches: 12, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
107 18 0.04
108 27 0.06
109 12 0.03
110 18 0.04
113 1 0.00
116 53 0.11
117 345 0.73
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (117 bp):
TAAATTATATTTAATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
Found at i:59887372 original size:15 final size:17
Alignment explanation
Indices: 59887334--59887367 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59887324 TTTATTAACA
59887334 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887351 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887368 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:59887381 original size:16 final size:15
Alignment explanation
Indices: 59887334--59887381 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
59887324 TTTATTAACA
*
59887334 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
59887351 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
59887366 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
59887382 GTTAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:59887489 original size:15 final size:17
Alignment explanation
Indices: 59887451--59887484 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59887441 TTTATTAACA
59887451 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887468 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887485 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:59887498 original size:16 final size:15
Alignment explanation
Indices: 59887451--59887498 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
59887441 TTTATTAACA
*
59887451 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
59887468 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
59887483 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
59887499 GTTAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:59887588 original size:17 final size:17
Alignment explanation
Indices: 59887568--59887601 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59887558 TTTATTAACA
59887568 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887585 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887602 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:59887722 original size:15 final size:17
Alignment explanation
Indices: 59887684--59887717 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59887674 ATTTATTAAA
59887684 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887701 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59887718 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:59887731 original size:16 final size:15
Alignment explanation
Indices: 59887684--59887731 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
59887674 ATTTATTAAA
*
59887684 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
59887701 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
59887716 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
59887732 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:59887737 original size:54 final size:55
Alignment explanation
Indices: 59887560--59887757 Score: 143
Period size: 54 Copynumber: 3.5 Consensus size: 55
59887550 TAAGAATATT
* * *
59887560 TATTAACAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTA
1 TATTAATAATTTTATTAAATTATATATTTTATTAAATTATATTTTATAACAATTA
* * * * * * * * *
59887615 TTTTAAATTATATTTTAGTATCATATATTATGGTTTTATT--AGTAAATTCATATAAGAATATT
1 TATT-AA-TA-ATTTTATTA-AAT-TA-TAT-ATTTTATTAAATTATATT-TTATAACAAT-TA
59887677 TATTAA-AATTTTATTAAATTATATATTTTATTAAATTATATTTTATAACAATTA
1 TATTAATAATTTTATTAAATTATATATTTTATTAAATTATATTTTATAACAATTA
* * * *
59887731 TGTTAA-AATATGATTAAATTATTTATT
1 TATTAATAATTTTATTAAATTATATATT
59887758 ATTTATATTA
Statistics
Matches: 108, Mismatches: 24, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
54 31 0.29
55 14 0.13
56 10 0.09
57 3 0.03
58 16 0.15
59 3 0.03
60 8 0.07
61 12 0.11
62 11 0.10
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (55 bp):
TATTAATAATTTTATTAAATTATATATTTTATTAAATTATATTTTATAACAATTA
Found at i:59887909 original size:39 final size:41
Alignment explanation
Indices: 59887865--59887969 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 41
59887855 TTCCTTATGT
* *
59887865 TATTACACCTCTATTCCATTCAACCAAACACAAGAA-TACC
1 TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
59887905 -ATTACGCCTCTATTCCATTATATTCAACCAAACAAAAGAATTACC
1 TATTACGCCTCTATTCC-----ATTCAACCAAACAAAAGAATTACC
59887950 TATTACGCCTCTATTCCATT
1 TATTACGCCTCTATTCCATT
59887970 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 15 0.27
41 3 0.05
44 18 0.32
45 4 0.07
46 16 0.29
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (41 bp):
TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
Found at i:59887945 original size:44 final size:46
Alignment explanation
Indices: 59887882--59887970 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
59887872 CCTCTATTCC
*
59887882 ATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTAT
1 ATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTAT
59887926 ATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 ATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
59887971 CGCATCTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 18 0.43
45 4 0.10
46 20 0.48
ACGTcount: A:0.39, C:0.28, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTAT
Found at i:59887972 original size:16 final size:16
Alignment explanation
Indices: 59887951--59888003 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
59887941 AGAATTACCT
59887951 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
59887967 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
59887983 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
59887999 ATTAC
1 ATTAC
59888004 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:59891376 original size:18 final size:18
Alignment explanation
Indices: 59891350--59891384 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59891340 TTAGTTCTTT
* *
59891350 TATATATTTATATATTTA
1 TATAAATTTATAAATTTA
59891368 TATAAATTTATAAATTT
1 TATAAATTTATAAATTT
59891385 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATAAATTTATAAATTTA
Found at i:59891378 original size:26 final size:26
Alignment explanation
Indices: 59891348--59891401 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
59891338 TTTTAGTTCT
*
59891348 TTTATATA-TTTATATATTTATATAAA
1 TTTATAAATTTTATAT-TTTATATAAA
* *
59891374 TTTATAAATTTTTTATTTTTTATAAA
1 TTTATAAATTTTATATTTTATATAAA
59891400 TT
1 TT
59891402 AATGTCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTATAAATTTTATATTTTATATAAA
Found at i:59904237 original size:12 final size:12
Alignment explanation
Indices: 59904222--59904259 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
59904212 ATTGTATTAA
59904222 AAAAATAAATAT
1 AAAAATAAATAT
59904234 AAAAAT--ATAT
1 AAAAATAAATAT
*
59904244 AAAAATAAATTT
1 AAAAATAAATAT
59904256 AAAA
1 AAAA
59904260 TTTATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.43
12 13 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATAAATAT
Found at i:59906928 original size:20 final size:21
Alignment explanation
Indices: 59906896--59906947 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
59906886 AGATAGAACA
59906896 TTTAAATATTTA-TGTGATAT
1 TTTAAATATTTATTGTGATAT
*
59906916 TATTAAA-ATTTATTGTTATAT
1 T-TTAAATATTTATTGTGATAT
*
59906937 TTTAATTATTT
1 TTTAAATATTT
59906948 TAGGAGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (21 bp):
TTTAAATATTTATTGTGATAT
Found at i:59909823 original size:50 final size:48
Alignment explanation
Indices: 59909769--59909951 Score: 228
Period size: 50 Copynumber: 3.8 Consensus size: 48
59909759 GGCAGTGAGT
**
59909769 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGTCCGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-AC-GTGAGATGA
*
59909819 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATAGAGAAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-AC-G-T-GAGATGA
* *
59909871 GT-C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGATGG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACGTGAGATGA
* *
59909916 GTGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
59909952 ACACCGATAT
Statistics
Matches: 120, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
45 7 0.06
46 2 0.02
47 30 0.25
48 1 0.01
50 72 0.60
51 2 0.02
52 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.23
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACGTGAGATGA
Found at i:59913687 original size:13 final size:13
Alignment explanation
Indices: 59913661--59913706 Score: 67
Period size: 14 Copynumber: 3.5 Consensus size: 13
59913651 GCTTTGAACC
59913661 TTCTTTTC-TTCT
1 TTCTTTTCTTTCT
59913673 TTCTTTTCTTTCT
1 TTCTTTTCTTTCT
59913686 TTCTTTTTCTTTCT
1 TTC-TTTTCTTTCT
*
59913700 TCCTTTT
1 TTCTTTT
59913707 ACTATATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 8 0.26
13 11 0.35
14 12 0.39
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTTTCTTTCT
Found at i:59917573 original size:14 final size:14
Alignment explanation
Indices: 59917554--59917580 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59917544 TAATAATGTA
59917554 ACAATAACAATAAT
1 ACAATAACAATAAT
59917568 ACAATAACAATAA
1 ACAATAACAATAA
59917581 ACATAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (14 bp):
ACAATAACAATAAT
Found at i:59923032 original size:3 final size:3
Alignment explanation
Indices: 59922969--59923019 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
59922959 TTTTGCTCCA
59922969 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59923017 TAT
1 TAT
59923020 ACTCCATATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59923685 original size:21 final size:21
Alignment explanation
Indices: 59923660--59923700 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
59923650 AAAATGGCAA
59923660 CAAAACAACAACAAACAACAT
1 CAAAACAACAACAAACAACAT
** *
59923681 CAAAACTTCAGCAAACAACA
1 CAAAACAACAACAAACAACA
59923701 GTAGAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.29, G:0.02, T:0.07
Consensus pattern (21 bp):
CAAAACAACAACAAACAACAT
Found at i:59924802 original size:37 final size:36
Alignment explanation
Indices: 59924735--59924816 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 36
59924725 TGTATTTACG
* *
59924735 GTTGGGTTAGCTCTTATAAGCATTCAGCGTGTTATCA
1 GTTGGATTAGCTCTTATAAGCATTCAGCGTGCT-TCA
* * **
59924772 GTTGGATTAGCTCTTATGAGCGTTTGGCGTGCTTCA
1 GTTGGATTAGCTCTTATAAGCATTCAGCGTGCTTCA
*
59924808 ATTGGATTA
1 GTTGGATTA
59924817 CTCGTGTACT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 11 0.29
37 27 0.71
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (36 bp):
GTTGGATTAGCTCTTATAAGCATTCAGCGTGCTTCA
Found at i:59941130 original size:90 final size:90
Alignment explanation
Indices: 59940973--59941153 Score: 258
Period size: 91 Copynumber: 2.0 Consensus size: 90
59940963 GCTGACTGTA
* * * *
59940973 AAGAAAAAGAACAAAGAAGGATAGAAGCAAGTAACTTAGAGTAAGATGAATAAATATCTAGTTAT
1 AAGAAAAAGAACAAAGAAGGATAAAAGCAAGGAACATAGAGTAAGATGAATAAATATCTAG-CAT
59941038 CCTCTAGAGAA-AAATTAGAAATTCT
65 CCTCTAGAGAATAAATTAGAAATTCT
* * *
59941063 AAGAAAAAGCACAAAGAACGTATAAAAGCAAGGAACATAGAGTGAAGATGAATACATATCTA-CA
1 AAGAAAAAGAACAAAGAA-GGATAAAAGCAAGGAACATAGAGT-AAGATGAATAAATATCTAGCA
59941127 TCCTCTAGAGAATAAATTAGAAATTCT
64 TCCTCTAGAGAATAAATTAGAAATTCT
59941154 TAGTCAATAA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
90 30 0.37
91 34 0.42
92 17 0.21
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (90 bp):
AAGAAAAAGAACAAAGAAGGATAAAAGCAAGGAACATAGAGTAAGATGAATAAATATCTAGCATC
CTCTAGAGAATAAATTAGAAATTCT
Found at i:59950104 original size:13 final size:13
Alignment explanation
Indices: 59950086--59950110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59950076 AAATAAAAAA
59950086 TATATATTTATTT
1 TATATATTTATTT
59950099 TATATATTTATT
1 TATATATTTATT
59950111 ATATGAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATATTTATTT
Found at i:59958464 original size:6 final size:6
Alignment explanation
Indices: 59958453--59958500 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
59958443 TATAAGCAAC
59958453 CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG
1 CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG
59958501 ATTTTTGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.17, G:0.50, T:0.17
Consensus pattern (6 bp):
CATGGG
Found at i:59959027 original size:17 final size:16
Alignment explanation
Indices: 59959007--59959039 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
59958997 AAATTATAAA
59959007 AAATTATTAAATTATTT
1 AAATTATT-AATTATTT
59959024 AAATTATTAATTATTT
1 AAATTATTAATTATTT
59959040 TTAGAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATTATTAATTATTT
Found at i:59960153 original size:15 final size:15
Alignment explanation
Indices: 59960133--59960163 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59960123 ACCCAAAATA
59960133 TCAATCCTTCAACCT
1 TCAATCCTTCAACCT
*
59960148 TCAATCGTTCAACCT
1 TCAATCCTTCAACCT
59960163 T
1 T
59960164 ACCTTTACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.35, G:0.03, T:0.35
Consensus pattern (15 bp):
TCAATCCTTCAACCT
Found at i:59962127 original size:42 final size:39
Alignment explanation
Indices: 59962081--59962174 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 39
59962071 AGCGGCATTT
59962081 TTAGCGGCGTTTGGACAAAAAACGCCGCTAAAGCCCAGAGCA
1 TTAGCGGCGTTT-GA-AAAAAACGCCGCTAAAG-CCAGAGCA
* * **
59962123 TTAGCGGCGCTTTTATAAAAACGCCGCTAAAGGTAGAGCA
1 TTAGCGGCG-TTTGAAAAAAACGCCGCTAAAGCCAGAGCA
*
59962163 TTAGTGGCGTTT
1 TTAGCGGCGTTT
59962175 TCTGAAAAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.07
40 14 0.30
41 16 0.35
42 10 0.22
43 3 0.07
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (39 bp):
TTAGCGGCGTTTGAAAAAAACGCCGCTAAAGCCAGAGCA
Found at i:59962188 original size:40 final size:41
Alignment explanation
Indices: 59962098--59962189 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
59962088 CGTTTGGACA
59962098 AAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTTAT
1 AAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTTAT
** * *
59962139 AAAAACGCCGCTAAAG-GTAGAGCATTAGTGGCG-TTTTCT
1 AAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTTAT
*
59962178 GAAAAGCGCCGC
1 -AAAAACGCCGC
59962190 AAAAAGCCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 5 0.11
40 24 0.53
41 16 0.36
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTTAT
Found at i:59962288 original size:41 final size:41
Alignment explanation
Indices: 59962231--59962471 Score: 360
Period size: 41 Copynumber: 5.9 Consensus size: 41
59962221 GAGTTTTTAG
*
59962231 GGCCTTTAGCGTCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
* *
59962272 GGCCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAGTGCTC-
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
* * *
59962312 GGTCCTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCT
1 GG-CCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
* * *
59962354 GGGCTTTAGCGGCGTTTTTGATGTAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
59962395 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
*
59962436 GGCCTTTAGCGGCG-TTTTGAAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTG-AAGAAGCGCCGCTAAT
59962472 AATAATAAAA
Statistics
Matches: 179, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 7 0.04
41 170 0.95
42 2 0.01
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
Found at i:59963236 original size:21 final size:21
Alignment explanation
Indices: 59963212--59963252 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
59963202 AGGTTTATGT
* *
59963212 GTTAGGGGCTAGGGGTTAAGG
1 GTTAGAGGCTAGAGGTTAAGG
*
59963233 GTTAGAGGTTAGAGGTTAAG
1 GTTAGAGGCTAGAGGTTAAG
59963253 ATCAGTTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.46, T:0.27
Consensus pattern (21 bp):
GTTAGAGGCTAGAGGTTAAGG
Found at i:59963560 original size:15 final size:14
Alignment explanation
Indices: 59963538--59963572 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
59963528 CATATTTTAA
59963538 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
59963552 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
59963567 GGTTTA
1 GGTTTA
59963573 AGGTTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:59963579 original size:21 final size:21
Alignment explanation
Indices: 59963555--59963633 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
59963545 GGAGTATGGA
*
59963555 TTTAGGGATTATGGTTTAAGG
1 TTTAGGGATTAGGGTTTAAGG
** *
59963576 TTTAGGGGGTAGGGTTTAGGG
1 TTTAGGGATTAGGGTTTAAGG
* *
59963597 GTTAGATG-TTAGGGATTTAAGG
1 TTTAG-GGATTAGGG-TTTAAGG
59963619 TTTAGGGATTCAGGG
1 TTTAGGGATT-AGGG
59963634 GTCGAGTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 27 0.61
22 13 0.30
23 4 0.09
ACGTcount: A:0.22, C:0.01, G:0.41, T:0.37
Consensus pattern (21 bp):
TTTAGGGATTAGGGTTTAAGG
Found at i:59964199 original size:15 final size:15
Alignment explanation
Indices: 59964179--59964208 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59964169 ACTTTTTATT
59964179 TTAATTTATAAAAAA
1 TTAATTTATAAAAAA
59964194 TTAATTTATAAAAAA
1 TTAATTTATAAAAAA
59964209 CAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAATTTATAAAAAA
Found at i:59964500 original size:105 final size:104
Alignment explanation
Indices: 59964301--59964507 Score: 292
Period size: 105 Copynumber: 2.0 Consensus size: 104
59964291 AAAGGTAAGC
*
59964301 AATAGCGGCGTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAA
1 AATAGCGGCGTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
* * *
59964366 TTTTTAGCATAACAAAACGGTGTCATTTTGTTCAAAATGA
66 TTTTTAGAATAACAAAACGATGT-ATTTTGTTAAAAATGA
* *
59964406 AATAGCGGCGTTTTTCATAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAAAA
1 AATAGCGGCGTTTAT-AAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
**
59964470 ATTTTTAGAATAGTAAAACAGCATGT-TTTTGTTAAAAA
65 ATTTTTAGAATAACAAAAC-G-ATGTATTTTGTTAAAAA
59964508 AAATTTAGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
105 75 0.82
106 13 0.14
107 3 0.03
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (104 bp):
AATAGCGGCGTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
TTTTTAGAATAACAAAACGATGTATTTTGTTAAAAATGA
Found at i:59964522 original size:105 final size:105
Alignment explanation
Indices: 59964301--59964539 Score: 283
Period size: 105 Copynumber: 2.3 Consensus size: 105
59964291 AAAGGTAAGC
* * * *
59964301 AATAGCGGCGTTTATA-AAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
1 AATAGCAGCGTTTGTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
* * *
59964365 ATTTTTAGCATAACAAAACGGTGTCATTTTGTTCAAAATGA
66 ATTTTTAGAATAACAAAACGATGT-ATTTTGTTCAAAATAA
* *
59964406 AATAGCGGCGTTTTTCAT-AAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAAA
1 AATAGCAGCGTTTGT-ATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAA
**
59964469 AATTTTTAGAATAGTAAAACAGCATGT-TTTTGTT-AAAA-AA
65 AATTTTTAGAATAACAAAAC-G-ATGTATTTTGTTCAAAATAA
59964509 AATTTAGCAGCGTTTGTATGAAAAACGCCGC
1 AA--TAGCAGCGTTTGTATGAAAAACGCCGC
59964540 TAAAGGTAAG
Statistics
Matches: 118, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
103 3 0.03
104 6 0.05
105 93 0.79
106 13 0.11
107 3 0.03
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (105 bp):
AATAGCAGCGTTTGTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
ATTTTTAGAATAACAAAACGATGTATTTTGTTCAAAATAA
Found at i:59964642 original size:27 final size:25
Alignment explanation
Indices: 59964590--59964638 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
59964580 AAAAGGCCGC
*
59964590 AAAAAAATTTAATTTATAAAAAACA
1 AAAAAAAATTAATTTATAAAAAACA
59964615 AAAAATAAATTAATTTATAAAAAA
1 AAAAA-AAATTAATTTATAAAAAA
59964639 ACAATAGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAAAAATTAATTTATAAAAAACA
Found at i:59967362 original size:23 final size:23
Alignment explanation
Indices: 59967329--59967813 Score: 315
Period size: 23 Copynumber: 21.3 Consensus size: 23
59967319 GAAATTTGAT
59967329 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* * *
59967352 AGTGTTACAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
59967374 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
59967398 A-TCGCTG-TAATTGAGGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
59967420 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
59967443 AGTGCTGCAAATTTAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* *
59967466 AATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
59967489 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
*
59967511 AGTTGCTAG-AAATTG-AGATGTTTT
1 AG-TGCT-GCAAATTGAAG-TGTTTA
* * * *
59967535 ATTGCTG-TAATTGAGGTGTATA
1 AGTGCTGCAAATTGAAGTGTTTA
* * **
59967557 AATGTTGTTAATTGATA-TG-TTA
1 AGTGCTGCAAATTGA-AGTGTTTA
* *
59967579 AGTGCTTCAAATTTAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* *
59967602 AATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
59967625 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
59967647 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
59967671 A-TCGCTG-TAATTGAGGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
59967693 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
59967716 AATGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
59967739 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
59967761 AGTTGTTGCAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* *
59967785 A-TCGCTGTAAATTGAAGTGTTAA
1 AGT-GCTGCAAATTGAAGTGTTTA
59967808 AGTGCT
1 AGTGCT
59967814 ACTTTCCATT
Statistics
Matches: 365, Mismatches: 64, Indels: 66
0.74 0.13 0.13
Matches are distributed among these distances:
21 1 0.00
22 75 0.21
23 281 0.77
24 8 0.02
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.41
Consensus pattern (23 bp):
AGTGCTGCAAATTGAAGTGTTTA
Found at i:59967577 original size:137 final size:137
Alignment explanation
Indices: 59967331--59967776 Score: 761
Period size: 137 Copynumber: 3.3 Consensus size: 137
59967321 AATTTGATAG
* *
59967331 TGCTGCAAATTGAAGTGTTTAAGTGTTACAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
1 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
59967396 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
59967461 GTTTAAA
131 GTTTAAA
* * *
59967468 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAGAAATTGAGATGTT
1 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
* *
59967533 TTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG-TTAAGTGCTTCAAATTTAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
59967597 GTTTAAA
131 GTTTAAA
*
59967604 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
1 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
* *
59967669 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGCTGCAAATTGAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
*
59967734 GTTTAAG
131 GTTTAAA
*
59967741 TGCTGCAAATTGAAGTGTTT-AGTTGTTGCAAATTGA
1 TGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
59967777 GATGTTTTAT
Statistics
Matches: 291, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
136 134 0.46
137 157 0.54
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (137 bp):
TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
GTTTAAA
Found at i:59967737 original size:68 final size:67
Alignment explanation
Indices: 59967377--59967730 Score: 337
Period size: 68 Copynumber: 5.2 Consensus size: 67
59967367 AGTATTTAGT
*
59967377 TGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTT
1 TGCTGCAAATTGAGATGTTTTAT-GCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTT
59967442 AAG
65 AAG
* * * * * * **
59967445 TGCTGCAAATTTA-AGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTG
1 TGCTGCAAATTGAGA-TGTTT-TATGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-TG
59967508 TTT-AG
62 TTTAAG
59967513 TTGCTAG-AAATTGAGATGTTTTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG-
1 -TGCT-GCAAATTGAGATGTTTTA-TGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGT
59967576 TTAAG
63 TTAAG
* * * * * * * **
59967581 TGCTTCAAATTTA-AGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA-A-GT
1 TGCTGCAAATTGAGA-TGTTT-TATGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATATGT
*
59967643 ATTTAG
63 -TTAAG
*
59967649 TTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTT
1 -TGCTGCAAATTGAGATGTTTTAT-GCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTT
*
59967714 TAAA
64 TAAG
59967718 TGCTGCAAATTGA
1 TGCTGCAAATTGA
59967731 AGTGTTTAAG
Statistics
Matches: 225, Mismatches: 40, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
66 2 0.01
67 25 0.11
68 117 0.52
69 76 0.34
70 5 0.02
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (67 bp):
TGCTGCAAATTGAGATGTTTTATGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTA
AG
Found at i:59967739 original size:114 final size:114
Alignment explanation
Indices: 59967429--59967808 Score: 370
Period size: 114 Copynumber: 3.3 Consensus size: 114
59967419 AAATGTTGTT
* * * * * * *
59967429 AATTGATATGTTTAAGT-GCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGA-AGTGTTTAAGT
1 AATTGAGATGTTTTA-TCGCTGTAAATTGAAGTG-TTAAATGTTGTTAATTGATA-TGTTTAAAT
*
59967492 GCTGCAAATTGAAGTGTTT-AGTTGCTAG-AAATTGAGATGT-TTTA-TTGCTG-T
63 GCTGCAAATTGAAGTGTTTAAG-TGCT-GCAAATTGA-A-GTATTTAGTTGCTGCA
* ** * * * ** *
59967543 AATTGAGGTGTATAAAT-GTTGTTAATTGATA-TGTTAAGTGCTT-CAAATTTA-AGTGTTTAAA
1 AATTGAGATGT-TTTATCGCTGTAAATTGA-AGTGTTAAATG-TTGTTAATTGATA-TGTTTAAA
* *
59967604 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGA
62 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGCA
*
59967657 AATTGAGATGTTTTATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGC
1 AATTGAGATGTTTTATCGCTGTAAATTGAAGTGT-TAAATGTTGTTAATTGATATGTTTAAATGC
* *
59967721 TGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGTTGCA
65 TGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGCA
59967771 AATTGAGATGTTTTATCGCTGTAAATTGAAGTGTTAAA
1 AATTGAGATGTTTTATCGCTGTAAATTGAAGTGTTAAA
59967809 GTGCTACTTT
Statistics
Matches: 224, Mismatches: 28, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
111 2 0.01
112 6 0.03
113 71 0.32
114 130 0.58
115 15 0.07
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.41
Consensus pattern (114 bp):
AATTGAGATGTTTTATCGCTGTAAATTGAAGTGTTAAATGTTGTTAATTGATATGTTTAAATGCT
GCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGCA
Found at i:59968487 original size:43 final size:43
Alignment explanation
Indices: 59968440--59968669 Score: 363
Period size: 43 Copynumber: 5.3 Consensus size: 43
59968430 GTTTTTGGAG
*
59968440 AAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
*
59968483 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
** *
59968526 AAAGCGCCGCTAAAGGT-TCTGGTCTTTAGTAGCGTTTGTGGAA
1 AAAGCGCCGCTAAAGGTCT-TGGTCTTTAGCGGCGTTTGTGGGA
* *
59968569 AAAGCGCCGCTAAAGGTCCTGGTCTTTAGCAGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
* *
59968612 AAAGTGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
59968655 AAAGCGCCGCTAAAG
1 AAAGCGCCGCTAAAG
59968670 TTAGCGACAC
Statistics
Matches: 175, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 1 0.01
43 174 0.99
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
Found at i:59968650 original size:129 final size:129
Alignment explanation
Indices: 59968420--59968669 Score: 410
Period size: 129 Copynumber: 1.9 Consensus size: 129
59968410 TTTTTGTGAC
* * * * * * *
59968420 CTTTAGTGGTGTTTTTGGAGAAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA
1 CTTTAGTAGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCAGCGTTTGTGGGAAA
* *
59968485 AGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGT
66 AGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGT
59968549 CTTTAGTAGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCAGCGTTTGTGGGAAA
1 CTTTAGTAGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCAGCGTTTGTGGGAAA
*
59968614 AGTGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
66 AGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
59968670 TTAGCGACAC
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 111 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (129 bp):
CTTTAGTAGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCAGCGTTTGTGGGAAA
AGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTCTGGT
Found at i:59972883 original size:18 final size:18
Alignment explanation
Indices: 59972839--59972887 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
59972829 ATTTTAAAAA
* *
59972839 TTAATTTTT-TATTATTT
1 TTAATTTTTAAATCATTT
59972856 TTATACTTTTTAAATCATTT
1 TTA-A-TTTTTAAATCATTT
59972876 TTAATTTTTAAA
1 TTAATTTTTAAA
59972888 AATAATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 6 0.22
20 9 0.33
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAATTTTTAAATCATTT
Found at i:59974968 original size:3 final size:3
Alignment explanation
Indices: 59974960--59974989 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
59974950 TTTCCCTACT
59974960 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
59974990 TGTCACTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:59979889 original size:99 final size:99
Alignment explanation
Indices: 59979718--59979939 Score: 320
Period size: 99 Copynumber: 2.2 Consensus size: 99
59979708 TTAGGCTGAT
* * * * *
59979718 AAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCTCTGGCGTTACAGTGGAGCAGATT
1 AAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCTCTAGCGTTACAGTGGAACAGATG
59979783 AAAGCTACAAATTATGACAGATCTTATCATCCTG
66 AAAGCTACAAATTATGACAGATCTTATCATCCTG
* *
59979817 AAGTTACAGTGGAGCAGACTGAAGACAGCGAATCTTATTTC-CTTAGCGTTGCAGTGGAACAGAT
1 AAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCTC-TAGCGTTACAGTGGAACAGAT
*** *
59979881 GAAAGCTACAAATTATGGTGGATCTTATCTTCCTG
65 GAAAGCTACAAATTATGACAGATCTTATCATCCTG
*
59979916 AAGTTGCAGTGGAGCAGATTGAAG
1 AAGTTGCAGTGGAGCAGACTGAAG
59979940 CCACCAGCCT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 1 0.01
99 108 0.99
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (99 bp):
AAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCTCTAGCGTTACAGTGGAACAGATG
AAAGCTACAAATTATGACAGATCTTATCATCCTG
Found at i:59979983 original size:99 final size:99
Alignment explanation
Indices: 59979718--59979975 Score: 261
Period size: 99 Copynumber: 2.6 Consensus size: 99
59979708 TTAGGCTGAT
* * * * * * *
59979718 AAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCTCTG-GCGTTACAGTGGAGCAGAT
1 AAGTTACAGTGGAGCAGACTGAAGACAGCCAACCTTA-TTCCCTGAGAGTTACAGTGGAGCAGAT
*
59979782 TAAAGCTACAAATTATGACAGATCTTATCATCCTG
65 GAAAGCTACAAATTATGACAGATCTTATCATCCTG
* * * * * * *
59979817 AAGTTACAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCTTAGCGTTGCAGTGGAACAGATG
1 AAGTTACAGTGGAGCAGACTGAAGACAGCCAACCTTATTCCCTGAGAGTTACAGTGGAGCAGATG
*** *
59979882 AAAGCTACAAATTATGGTGGATCTTATCTTCCTG
66 AAAGCTACAAATTATGACAGATCTTATCATCCTG
* * * * *
59979916 AAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTCCCTGA-AGTTACAGCGGAGCA
1 AAGTTACAGTGGAGCAGACTGAAGACAGCCAACCTTAT-TCCCTGAGAGTTACAGTGGAGCA
59979976 AACTGAAAAC
Statistics
Matches: 132, Mismatches: 25, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
98 22 0.17
99 110 0.83
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (99 bp):
AAGTTACAGTGGAGCAGACTGAAGACAGCCAACCTTATTCCCTGAGAGTTACAGTGGAGCAGATG
AAAGCTACAAATTATGACAGATCTTATCATCCTG
Found at i:59980063 original size:143 final size:143
Alignment explanation
Indices: 59979805--59980260 Score: 648
Period size: 143 Copynumber: 3.2 Consensus size: 143
59979795 TATGACAGAT
* * * * *
59979805 CTTATCAT-CCTGAAGTTACAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCTTAGCGTTGC
1 CTTATC-TCCCTGAAGTTACAGCGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGA
* *
59979869 AGTGGAACAGATGAAAGCTACAAATTATGGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
65 AGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
59979934 TTGAAGCCACCAGC
130 TTGAAGCCACCAGC
* *
59979948 CTTATCTCCCTGAAGTTACAGCGGAGCAAACTGAAAACAACGAATCTTATTTCCCTGGCGTTGAA
1 CTTATCTCCCTGAAGTTACAGCGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGAA
* * * * *
59980013 ATGGAACAAATTAAAGTTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAATGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
*
59980078 TGAAGCCACCGGC
131 TGAAGCCACCAGC
* *
59980091 CTTATCTCTCTGAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTT-AC
1 CTTATCTCCCTGAAGTTACAGCGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGA-
* * * *
59980155 AGTGGAATAGATTAATGCTACAAATTATGGCGGATATTATCTTCCTGAAGTTACAGTGGAGCAGA
65 AGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
*
59980220 TTGAAGCCACCAATC
130 TTGAAGCCACC-AGC
* *
59980235 C-TATCTCCCTGAAGTTGCAGTGGAGC
1 CTTATCTCCCTGAAGTTACAGCGGAGC
59980261 GGATTAAAAC
Statistics
Matches: 278, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
142 2 0.01
143 274 0.99
144 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTACAGCGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGAA
GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAGC
Found at i:59982097 original size:15 final size:15
Alignment explanation
Indices: 59982079--59982109 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59982069 ACATTATTAC
59982079 TATTATTATTATCAT
1 TATTATTATTATCAT
*
59982094 TATTATTTTTATCAT
1 TATTATTATTATCAT
59982109 T
1 T
59982110 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTATTATCAT
Found at i:59986738 original size:17 final size:17
Alignment explanation
Indices: 59986716--59986750 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59986706 TTGCAACTTC
59986716 ATGTGCATCCAACCATA
1 ATGTGCATCCAACCATA
59986733 ATGTGCATCCAACCATA
1 ATGTGCATCCAACCATA
59986750 A
1 A
59986751 CGAGCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (17 bp):
ATGTGCATCCAACCATA
Found at i:59987846 original size:22 final size:25
Alignment explanation
Indices: 59987821--59987874 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
59987811 TTATAGATTC
59987821 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
59987843 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
59987868 AATTTAA
1 AATTTAA
59987875 TCTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:59990038 original size:30 final size:30
Alignment explanation
Indices: 59990002--59990066 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
59989992 GGCTAAATAG
59990002 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
1 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
59990032 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
1 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
59990062 TTTGT
1 TTTGT
59990067 GGGAGTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.09, C:0.15, G:0.20, T:0.55
Consensus pattern (30 bp):
TTTGTTTCGGTTCTTGCCTGTATTGCATTA
Found at i:59995084 original size:24 final size:25
Alignment explanation
Indices: 59995057--59995104 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
59995047 TTATGAAATT
59995057 TAAT-ATTAATTA-TTAAATTATATG
1 TAATAATT-ATTATTTAAATTATATG
59995081 TAATAATTATTATTTTAAATTATA
1 TAATAATTATTA-TTTAAATTATA
59995105 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATAATTATTATTTAAATTATATG
Found at i:59995100 original size:93 final size:91
Alignment explanation
Indices: 59994920--59995129 Score: 280
Period size: 93 Copynumber: 2.3 Consensus size: 91
59994910 TTGATTTTAG
* *
59994920 TAAATTCATATAAGAACATTTTATTATTAACAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAACAATTTTATGAAATTATATATAACTATTAAATTAT
*
59994985 ATTTAATATTAATTATTTTAAATTATA
65 ATGTAATATTAATTATTTTAAATTATA
* *
59995012 TAAATTCATATAAGAAAATTTATTATCTAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAAAATTTATTAT-TAACAATTTTATGAAATTAT-ATA-TAACTATTAAATT
59995076 ATATGTAATAATT-ATTATTTTAAATTATA
63 ATATGTAAT-ATTAATTATTTTAAATTATA
* * * *
59995105 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
59995130 GTTATAATTA
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
91 10 0.10
92 36 0.34
93 56 0.53
94 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAACAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:59995283 original size:120 final size:120
Alignment explanation
Indices: 59995145--59995437 Score: 457
Period size: 120 Copynumber: 2.4 Consensus size: 120
59995135 AATTATTTTA
* * *
59995145 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* * *
59995207 TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAT
63 TTTACAGTATCATATATTATGATTTGAATAAATTAATATAAGAATATTAATTATTAAG
*
59995265 AATTTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
59995330 ACAGTATCATATATTATGATTTGAATATATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAATAAATTAATATAAGAATATTAATTATTAAG
59995385 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
59995438 TAAATATGAT
Statistics
Matches: 160, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
119 6 0.04
120 152 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAATAAATTAATATAAGAATATTAATTATTAAG
Found at i:59995420 original size:16 final size:16
Alignment explanation
Indices: 59995399--59995440 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
59995389 TTATTAAATT
*
59995399 ATATATTTTAATTATA
1 ATATATTTTAATAATA
59995415 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
59995430 AT-TATGTTTAA
1 ATATAT-TTTAA
59995441 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:59995535 original size:157 final size:157
Alignment explanation
Indices: 59995374--59995683 Score: 557
Period size: 157 Copynumber: 2.0 Consensus size: 157
59995364 ATAAGAATAT
* * *
59995374 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
* *
59995439 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
59995504 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
59995531 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
59995596 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
59995661 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
59995684 ATGCTAAGGG
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 146 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:59995571 original size:18 final size:18
Alignment explanation
Indices: 59995543--59995593 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
59995533 ATTATTAAAA
59995543 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
59995560 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
59995576 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
59995594 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:60005714 original size:20 final size:19
Alignment explanation
Indices: 60005679--60005729 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
60005669 TTTCTTTCAA
*
60005679 CAAAAATTATAAAAAAAATT
1 CAAAAATT-TATAAAAAATT
60005699 CAAAATATTTAT-AAAAATT
1 CAAAA-ATTTATAAAAAATT
*
60005718 CCAAAATTTATA
1 CAAAAATTTATA
60005730 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.22
19 11 0.41
20 7 0.26
21 3 0.11
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
CAAAAATTTATAAAAAATT
Found at i:60005726 original size:18 final size:19
Alignment explanation
Indices: 60005692--60005729 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
60005682 AAATTATAAA
60005692 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
60005711 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
60005729 A
1 A
60005730 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:60005769 original size:20 final size:20
Alignment explanation
Indices: 60005731--60005769 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60005721 AAATTTATAT
*
60005731 TTTTTAAAAAAATTATAAAA
1 TTTTTAAAAAAAATATAAAA
*
60005751 TTTTTAAAAAAAATCTAAA
1 TTTTTAAAAAAAATATAAA
60005770 GAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTTAAAAAAAATATAAAA
Found at i:60011697 original size:3 final size:3
Alignment explanation
Indices: 60011689--60011720 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
60011679 CACCAGCTCC
60011689 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
60011721 CAACGGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:60022501 original size:2 final size:2
Alignment explanation
Indices: 60022494--60022547 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
60022484 CTATAAATGA
60022494 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
60022536 TC TC TC TC TC TC
1 TC TC TC TC TC TC
60022548 GTATATATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:60023715 original size:3 final size:3
Alignment explanation
Indices: 60023707--60023731 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60023697 TTAGCTCTCA
60023707 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
60023732 TGATTGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:60028847 original size:62 final size:63
Alignment explanation
Indices: 60028734--60028858 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 63
60028724 AGTTGTGTGG
* *
60028734 TAGGTCGTGTAACTCACTATTTTAGAATGATAGGCACACGGGCTGGAGACACGA-CGCGTGTC
1 TAGGTCGTGTAACTCACTATTTTAGAATGAGAGACACACGGGCTGGAGACACGAGCGCGTGTC
* * * * *
60028796 TAGGTCGTGTAACTCACTATTTTGGAATTAGAGACACATGGGC-GAGGGACACGAGCGGGTGTC
1 TAGGTCGTGTAACTCACTATTTTAGAATGAGAGACACACGGGCTG-GAGACACGAGCGCGTGTC
60028859 AAGCCGTGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 1 0.02
62 46 0.85
63 7 0.13
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (63 bp):
TAGGTCGTGTAACTCACTATTTTAGAATGAGAGACACACGGGCTGGAGACACGAGCGCGTGTC
Found at i:60030941 original size:48 final size:46
Alignment explanation
Indices: 60030875--60031002 Score: 123
Period size: 48 Copynumber: 2.7 Consensus size: 46
60030865 CAGGTGAAAG
* * * *
60030875 TAATAGTGCCTAAG-TACCCGTTTGGGTTAAACCTACACGAGTAATGAA
1 TAATAGTGCCT-GGTTACCCATTAGGGTTAAACCTACACGAATAA-G-A
* * * *
60030923 TCATAGTGCCTGGTTACCCATTAGGGTTGAACCTGCACGAATCAGA
1 TAATAGTGCCTGGTTACCCATTAGGGTTAAACCTACACGAATAAGA
* * *
60030969 TAATAGTGCCTGGTCACCCATTAAGGTTGAACCT
1 TAATAGTGCCTGGTTACCCATTAGGGTTAAACCT
60031003 GCACAACAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 32 0.47
47 2 0.03
48 34 0.50
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
TAATAGTGCCTGGTTACCCATTAGGGTTAAACCTACACGAATAAGA
Found at i:60032988 original size:20 final size:21
Alignment explanation
Indices: 60032949--60032988 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
60032939 AGGCGGGTTA
60032949 TACGCATTATATGAGTTAGTTG
1 TACGCATTATAT-AGTTAGTTG
60032971 TACGCATTATAT-GTTAGT
1 TACGCATTATATAGTTAGT
60032989 CCAAACTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (21 bp):
TACGCATTATATAGTTAGTTG
Found at i:60033657 original size:22 final size:22
Alignment explanation
Indices: 60033627--60033680 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
60033617 TATCCAAACA
60033627 ATAACAACAAAAT-AGTAACAAT
1 ATAACAACAAAATGAG-AACAAT
* *
60033649 ATAATAACAAAATGAGAACAAA
1 ATAACAACAAAATGAGAACAAT
*
60033671 ACAACAACAA
1 ATAACAACAA
60033681 CCAGCAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.67, C:0.15, G:0.06, T:0.13
Consensus pattern (22 bp):
ATAACAACAAAATGAGAACAAT
Found at i:60035678 original size:3 final size:3
Alignment explanation
Indices: 60035670--60035700 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
60035660 ATAGCCCTAT
*
60035670 AGC AGC AGC AGC AGC AGC AGC AGC AGA AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC A
60035701 AGGGGTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.29, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:60038325 original size:24 final size:22
Alignment explanation
Indices: 60038298--60038366 Score: 59
Period size: 24 Copynumber: 3.0 Consensus size: 22
60038288 ACTTAGAATT
60038298 AATTGAAATCTAAATCTAAATTTG
1 AATT-AAATC-AAATCTAAATTTG
* *
60038322 AATTATA-CAAATAATAAATTTG
1 AATTAAATCAAAT-CTAAATTTG
*
60038344 AATTAATTCAAAATCTTAAATTT
1 AATTAAATC-AAATC-TAAATTT
60038367 CAAATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 4 0.11
22 14 0.39
23 3 0.08
24 15 0.42
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (22 bp):
AATTAAATCAAATCTAAATTTG
Found at i:60050948 original size:4 final size:4
Alignment explanation
Indices: 60050939--60050965 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
60050929 GTAGAGAATA
60050939 TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TAT
60050966 AATGACTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:60065267 original size:18 final size:18
Alignment explanation
Indices: 60065244--60065278 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60065234 TTAACTGTTA
*
60065244 TAGTTAGTTGTTAGCAGT
1 TAGTTAGTTGATAGCAGT
60065262 TAGTTAGTTGATAGCAG
1 TAGTTAGTTGATAGCAG
60065279 GTACTGGTGT
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:0.26, C:0.06, G:0.29, T:0.40
Consensus pattern (18 bp):
TAGTTAGTTGATAGCAGT
Found at i:60066870 original size:15 final size:15
Alignment explanation
Indices: 60066850--60066879 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60066840 GTCACATCCC
60066850 AAAAATTGAGTTAGT
1 AAAAATTGAGTTAGT
*
60066865 AAAAATTGGGTTAGT
1 AAAAATTGAGTTAGT
60066880 GAACCGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AAAAATTGAGTTAGT
Found at i:60069811 original size:50 final size:49
Alignment explanation
Indices: 60069755--60069929 Score: 188
Period size: 51 Copynumber: 3.5 Consensus size: 49
60069745 GATGGTTACG
*
60069755 TGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACATGTACCGG-ATGATAGGTCACA
*** * * * *
60069805 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAT-G-ATAGGTCACA
* ** * *
60069856 TGTGTAGTACTATATGCAGGCTACTACATGTATTGGATGGTAATGGTTACA
1 TGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGAT-A-GGTCACA
60069907 TGTGTAGTACTATGTGCAGGCTA
1 TGTGTAGTACTATGTGCAGGCTA
60069930 TTATGTGAAC
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.03
50 35 0.35
51 63 0.62
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGATAGGTCACA
Found at i:60069874 original size:101 final size:102
Alignment explanation
Indices: 60069752--60069934 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 102
60069742 AGTGATGGTT
* *
60069752 ACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGAT-A-GGTCGCATGTGTAGTAC
1 ACGTGTGTAGTACTATATGCAGGCTACTACATGTACCGG-ATGATAATGGTCACATGTGTAGTAC
60069815 TATGTGCAGGCTACTATGCGTACCGGATAGTTTCGATC
65 TATGTGCAGGCTACTATGCGTACCGGATAGTTTCGATC
** * *
60069853 ACGTGTGTAGTACTATATGCAGGCTACTACATGTATTGGATGGTAATGGTTACATGTGTAGTACT
1 ACGTGTGTAGTACTATATGCAGGCTACTACATGTACCGGATGATAATGGTCACATGTGTAGTACT
*
60069918 ATGTGCAGGCTATTATG
66 ATGTGCAGGCTACTATG
60069935 TGAACCGAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.51
102 32 0.44
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (102 bp):
ACGTGTGTAGTACTATATGCAGGCTACTACATGTACCGGATGATAATGGTCACATGTGTAGTACT
ATGTGCAGGCTACTATGCGTACCGGATAGTTTCGATC
Found at i:60083689 original size:15 final size:15
Alignment explanation
Indices: 60083671--60083701 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60083661 AATATTTTTT
60083671 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
60083686 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
60083701 T
1 T
60083702 TGTATTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:60086763 original size:39 final size:40
Alignment explanation
Indices: 60086720--60086814 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 40
60086710 AGTTTATAAC
* * *
60086720 TTTTTTTAAAAATTTTATTTAATTTTTAA-TATTTATT-GA
1 TTTTTTTAAAAATTTTATATAACTTCTAACTATTT-TTAGA
*
60086759 TTTTTTT-ATAATTTT-TATAACTTCTAATCTATTTTTAGA
1 TTTTTTTAAAAATTTTATATAACTTCTAA-CTATTTTTAGA
*
60086798 TTTTTTTAAACATTTTA
1 TTTTTTTAAAAATTTTA
60086815 AAATATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
37 9 0.20
38 9 0.20
39 21 0.47
40 6 0.13
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (40 bp):
TTTTTTTAAAAATTTTATATAACTTCTAACTATTTTTAGA
Found at i:60086968 original size:29 final size:30
Alignment explanation
Indices: 60086920--60086979 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
60086910 AGTATAGTGG
* *
60086920 ACAAAATGAAAATTTGAGTACCAACTTAAA
1 ACAAAATGAAAACTTAAGTACCAACTTAAA
*
60086950 ACAAAA-GAAAACTTAAGTACCAAGTTAAA
1 ACAAAATGAAAACTTAAGTACCAACTTAAA
60086979 A
1 A
60086980 AAATTGGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAATGAAAACTTAAGTACCAACTTAAA
Found at i:60088120 original size:18 final size:20
Alignment explanation
Indices: 60088083--60088125 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
60088073 CTATTAATGT
60088083 TTCTTTCTTTTGCTTCTCCG
1 TTCTTTCTTTTGCTTCTCCG
*
60088103 TTCTTT-TTTTTCTT-TCCG
1 TTCTTTCTTTTGCTTCTCCG
60088121 TTCTT
1 TTCTT
60088126 CCGTTAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.00, C:0.26, G:0.07, T:0.67
Consensus pattern (20 bp):
TTCTTTCTTTTGCTTCTCCG
Found at i:60090565 original size:39 final size:40
Alignment explanation
Indices: 60090482--60090578 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 40
60090472 GCGTTTTGAT
* * *
60090482 AAAAAACGCCACTAAAAATCAAGTATTAGCTGCGCTTTAG
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCTGCGCTTTAC
* * *
60090522 AAAAAACGCCGCTAAAAAT-GAGCATTAGC-GACGTTTTCC
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCTG-CGCTTTAC
* *
60090561 AAAAAGCGCCGCAAAAAA
1 AAAAAACGCCGCTAAAAA
60090579 CCTAAGCACA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.02
39 29 0.60
40 18 0.38
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCTGCGCTTTAC
Found at i:60090667 original size:41 final size:41
Alignment explanation
Indices: 60090613--60090726 Score: 169
Period size: 41 Copynumber: 2.8 Consensus size: 41
60090603 TGAGTTTTCG
*
60090613 GGGCGTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
60090653 GGGTCTTTAGCGGCGCTTTTT-AGGAAGCGCCGCTAATGCTCA
1 GGG-CTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCA
*
60090695 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
60090727 AAAAACTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
40 8 0.12
41 50 0.76
42 8 0.12
ACGTcount: A:0.18, C:0.23, G:0.33, T:0.26
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:60092023 original size:22 final size:22
Alignment explanation
Indices: 60091989--60092038 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
60091979 GGGGTTTAAA
60091989 GTTTAGTGGTTTAGGATTTAGGG
1 GTTTAGTGGTTTAGGATTTA-GG
* *
60092012 GTTTA-TGTTTTATGATTTAGG
1 GTTTAGTGGTTTAGGATTTAGG
60092033 GTTTAG
1 GTTTAG
60092039 GGGATAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (22 bp):
GTTTAGTGGTTTAGGATTTAGG
Found at i:60092040 original size:7 final size:7
Alignment explanation
Indices: 60091925--60092040 Score: 54
Period size: 7 Copynumber: 16.1 Consensus size: 7
60091915 TATCATTATA
60091925 GTTTAGG
1 GTTTAGG
*
60091932 GATTATGG
1 GTTTA-GG
60091940 GTTTAGG
1 GTTTAGG
* **
60091947 GATTATT
1 GTTTAGG
*
60091954 GTTTATG
1 GTTTAGG
* *
60091961 ATTTACG
1 GTTTAGG
60091968 GTTTAAGG
1 GTTT-AGG
*
60091976 G-TTGGG
1 GTTTAGG
**
60091982 GTTTAAA
1 GTTTAGG
60091989 GTTTAGTG
1 GTTTAG-G
60091997 GTTTAGG
1 GTTTAGG
*
60092004 ATTTAGGG
1 GTTTA-GG
*
60092012 GTTTATG
1 GTTTAGG
* *
60092019 TTTTATG
1 GTTTAGG
*
60092026 ATTTAGG
1 GTTTAGG
60092033 GTTTAGG
1 GTTTAGG
60092040 G
1 G
60092041 GATAAAGGTT
Statistics
Matches: 80, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
6 3 0.04
7 56 0.70
8 21 0.26
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:60092454 original size:21 final size:22
Alignment explanation
Indices: 60092430--60092471 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60092420 GCCTTTTTTT
60092430 CCCTAA-ATTCCCCCCTAAAAC
1 CCCTAATATTCCCCCCTAAAAC
* *
60092451 CCCTAATTTTTCCCCCTAAAA
1 CCCTAATATTCCCCCCTAAAA
60092472 TTTGTATCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.31, C:0.43, G:0.00, T:0.26
Consensus pattern (22 bp):
CCCTAATATTCCCCCCTAAAAC
Found at i:60096392 original size:39 final size:43
Alignment explanation
Indices: 60096288--60096396 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 43
60096278 GATTAGAAGC
60096288 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--AT
* * ***
60096333 GTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
60096373 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
60096397 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAT
Found at i:60096593 original size:22 final size:21
Alignment explanation
Indices: 60096503--60096668 Score: 91
Period size: 22 Copynumber: 8.0 Consensus size: 21
60096493 ATTATCAATA
* *
60096503 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
60096523 -TAAGCATAATTATAATTAAA-T
1 ATAA-TATAATT-TAATAAAATT
*
60096544 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
60096565 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
60096587 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
60096604 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
60096628 ATTAAATATAATTTAATAAAA--
1 A-T-AATATAATTTAATAAAATT
60096649 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
60096669 CTTAATATTA
Statistics
Matches: 111, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
17 7 0.06
18 23 0.21
19 3 0.03
20 9 0.08
21 19 0.17
22 30 0.27
23 3 0.03
24 7 0.06
26 10 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:60096627 original size:13 final size:12
Alignment explanation
Indices: 60096603--60096643 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
60096593 TATAATAGTA
60096603 TAAAATATAATT
1 TAAAATATAATT
60096615 TAAAATAATAATT
1 TAAAAT-ATAATT
*
60096628 ATTAAATATAATT
1 -TAAAATATAATT
60096641 TAA
1 TAA
60096644 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:60096652 original size:18 final size:18
Alignment explanation
Indices: 60096631--60096666 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
60096621 AATAATTATT
60096631 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
60096649 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
60096667 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:60096741 original size:21 final size:21
Alignment explanation
Indices: 60096698--60096741 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60096688 TATATGAATT
*
60096698 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
60096719 TACTATAAAT-ATAATCTAAAA
1 TACTA-AAATCATAATATAAAA
60096740 TA
1 TA
60096742 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:60096775 original size:120 final size:120
Alignment explanation
Indices: 60096558--60096864 Score: 519
Period size: 120 Copynumber: 2.6 Consensus size: 120
60096548 TATAATTTAA
* * *
60096558 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
60096622 ATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
60096677 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTAT-AAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* * *
60096741 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
*
60096797 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
60096862 ATT
66 ATT
60096865 GATTTTGTGG
Statistics
Matches: 177, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 46 0.26
120 91 0.51
121 40 0.23
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (120 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
Found at i:60096776 original size:18 final size:17
Alignment explanation
Indices: 60096753--60096787 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
60096743 TTATTATTAA
60096753 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
60096771 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60096788 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60098364 original size:13 final size:13
Alignment explanation
Indices: 60098348--60098377 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60098338 TAGACTAAGC
60098348 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
60098361 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
60098374 TTTT
1 TTTT
60098378 TTGCAGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:60100225 original size:43 final size:43
Alignment explanation
Indices: 60100170--60100392 Score: 261
Period size: 43 Copynumber: 5.2 Consensus size: 43
60100160 GACCTATAGT
* * * *
60100170 GGCGTTTGTGGGAGAAGCGCCGCTAAAGCTTATGGTCTTTGGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGTTATGGTCTTTAGC
* * *
60100213 GGCATTTATGGGAAAAGCGTCGCTAAAGATTATGGTCTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGTTATGGTCTTTAGC
** *
60100256 GGCGTTTATGGGAAAAGCGCCATTAAAGGTAATGGTCTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGTTATGGTCTTTAGC
* * *
60100299 GGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGTTATGGTCTTTAGC
* * ***
60100341 GGCGTATT-TGGGAGAAGCGCCGCTAAAGGTCATTACCTTTAGC
1 GGCGT-TTATGGGAAAAGCGCCGCTAAAGGTTATGGTCTTTAGC
60100384 GGCGTTTAT
1 GGCGTTTAT
60100393 TTCTAAAAAC
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
42 37 0.24
43 118 0.76
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (43 bp):
GGCGTTTATGGGAAAAGCGCCGCTAAAGGTTATGGTCTTTAGC
Found at i:60100238 original size:86 final size:84
Alignment explanation
Indices: 60100138--60100368 Score: 273
Period size: 86 Copynumber: 2.7 Consensus size: 84
60100128 GCGTTTTTCA
* ** * * *
60100138 AAAAAGCGCCGCTAAAAATCATGACCTATAGTGGCGTTTGTGGGAGAAGCGCCGCTAAAGCTTAT
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTT-TGGGAGAAGCGCCGCTAAAGCTAAT
*
60100203 GGTCTTTGGCGGCATTTATGG
65 GGTCTTTAGCGGCATTTAT-G
* * * * ** *
60100224 GAAAAGCGTCGCTAAAGATTATGGTCTTTAGCGGCGTTTATGGGAAAAGCGCCATTAAAGGTAAT
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTT-TGGGAGAAGCGCCGCTAAAGCTAAT
* *
60100289 GGTCTTTAGCGGCGTTTGTG
65 GGTCTTTAGCGGCATTTATG
*
60100309 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTATTTGGGAGAAGCGCCGCTAAAG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGT-TTTGGGAGAAGCGCCGCTAAAG
60100369 GTCATTACCT
Statistics
Matches: 120, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
85 51 0.43
86 69 0.57
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (84 bp):
AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTTGGGAGAAGCGCCGCTAAAGCTAATG
GTCTTTAGCGGCATTTATG
Found at i:60100353 original size:85 final size:86
Alignment explanation
Indices: 60100138--60100392 Score: 289
Period size: 85 Copynumber: 3.0 Consensus size: 86
60100128 GCGTTTTTCA
* ** * * * * *
60100138 AAAAAGCGCCGCTAAAAATCATGACCTATAGTGGCGTTTGTGGGAGAAGCGCCGCTAAAGCTTAT
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTATGGGAGAAGCGCCGCTAAAGGTAAT
* *
60100203 GGTCTTTGGCGGCATTTATGG
66 GGTCTTTAGCGGCGTTTATGG
* * * * **
60100224 GAAAAGCGTCGCTAAAGATTATGGTCTTTAGCGGCGTTTATGGGAAAAGCGCCATTAAAGGTAAT
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTATGGGAGAAGCGCCGCTAAAGGTAAT
*
60100289 GGTCTTTAGCGGCGTTTGT-G
66 GGTCTTTAGCGGCGTTTATGG
* *
60100309 AAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTATT-TGGGAGAAGCGCCGCTAAAGGTCA
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGT-TTATGGGAGAAGCGCCGCTAAAGGTAA
***
60100373 TTACCTTTAGCGGCGTTTAT
65 TGGTCTTTAGCGGCGTTTAT
60100393 TTCTAAAAAC
Statistics
Matches: 139, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
85 70 0.50
86 69 0.50
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (86 bp):
AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTATGGGAGAAGCGCCGCTAAAGGTAAT
GGTCTTTAGCGGCGTTTATGG
Found at i:60102034 original size:32 final size:31
Alignment explanation
Indices: 60101968--60102036 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
60101958 ACAATAAAGT
* *
60101968 ATAAAATGGTACTTTGTTACACGTCTTAAGA
1 ATAAAATGGTACTATGTTACACGTCTTAACA
* *
60101999 ATAATAATTGTACTATGTTACATG-CTATAACA
1 ATAA-AATGGTACTATGTTACACGTCT-TAACA
60102031 ATAAAA
1 ATAAAA
60102037 AAAAATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (31 bp):
ATAAAATGGTACTATGTTACACGTCTTAACA
Found at i:60105070 original size:16 final size:16
Alignment explanation
Indices: 60105049--60105085 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
60105039 TTGAAAAAAT
60105049 TAAAATATATA-ATTTC
1 TAAAATATATAGA-TTC
60105065 TAAAATATATAGATTC
1 TAAAATATATAGATTC
60105081 TAAAA
1 TAAAA
60105086 ATGTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAAATATATAGATTC
Found at i:60109937 original size:18 final size:18
Alignment explanation
Indices: 60109911--60109953 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
60109901 TCATTGCAAT
*
60109911 ATATGTAAAAATA-ATTTA
1 ATATATAAAAATATA-TTA
*
60109929 ATATATAAAAATTTATTA
1 ATATATAAAAATATATTA
60109947 ATATATA
1 ATATATA
60109954 TTAATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATATAAAAATATATTA
Found at i:60113069 original size:257 final size:255
Alignment explanation
Indices: 60112615--60113123 Score: 811
Period size: 257 Copynumber: 2.0 Consensus size: 255
60112605 ATGGCAGTCC
* * *
60112615 TACGTGGCAGTCCAAATGGGTTTTAAATGCCAACTTGGATGTCCAATTGATGGGATGAAAAAGGT
1 TACGTGGCAATCCAAATGGGTTTTAAATGACAACTTGAATGTCCAATTGATGGGATGAAAAAGGT
* * *
60112680 TTTTAATTAAATAAATTTAATTAAAATTGCCACATAAGACATCCAAGTTGGCATTTAAAACCATT
66 TTTTAATTAAATAAATTTAATTAAAACTACCACATAAGACATCCAAGTTGACATTTAAAACCATT
* * *
60112745 TGGGCTGTCACGTAAGACCGCTATTAGGGAGGTAACGGAGCTTAATGGTAGAGTGACTACTTCGT
131 TGGGCTGCCACGTAAGACCGCTATTAGGGAGGTAACGGAACTTAACGGTAGAGTGACTACTTCGT
60112810 AACAAAACGATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTAACTAAAACGA
196 AACAAAACGATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTAACTAAAACGA
* * *
60112870 TACGTGGCAATCCAAATGGGTTTTAAATGACAACTTGAATGTCTAGTTGTTGGGATGAAAATAGG
1 TACGTGGCAATCCAAATGGGTTTTAAATGACAACTTGAATGTCCAATTGATGGGATGAAAA-AGG
* *
60112935 TTTTTTAATTAAATAAATTTAATTAAAACTACCACGTAGGACATCCAAGTTGACATTTAAAACCA
65 -TTTTTAATTAAATAAATTTAATTAAAACTACCACATAAGACATCCAAGTTGACATTTAAAACCA
*
60113000 TTTGGGCTGCCACGTAAGACCGCTGTTAGGGAGGTAACGGAACTTAACGGTAGAGTGACTACTTC
129 TTTGGGCTGCCACGTAAGACCGCTATTAGGGAGGTAACGGAACTTAACGGTAGAGTGACTACTTC
* * * * * *
60113065 GTAACGAAACGATAATGTAAGTGATTAAAAGGTAACATTTCAAATATAAGTGACTAAAA
194 GTAACAAAACGATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTAACTAAAA
60113124 TATAATCTAA
Statistics
Matches: 231, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
255 55 0.24
256 3 0.01
257 173 0.75
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (255 bp):
TACGTGGCAATCCAAATGGGTTTTAAATGACAACTTGAATGTCCAATTGATGGGATGAAAAAGGT
TTTTAATTAAATAAATTTAATTAAAACTACCACATAAGACATCCAAGTTGACATTTAAAACCATT
TGGGCTGCCACGTAAGACCGCTATTAGGGAGGTAACGGAACTTAACGGTAGAGTGACTACTTCGT
AACAAAACGATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTAACTAAAACGA
Found at i:60116271 original size:24 final size:24
Alignment explanation
Indices: 60116244--60116294 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
60116234 TCCGGTGCTT
*
60116244 CCCGTTAAATGCTTTTCGGAGCTA
1 CCCGTTAAATGCTCTTCGGAGCTA
* *
60116268 CCCGTTAATTGCTCTTCGGCGCTA
1 CCCGTTAAATGCTCTTCGGAGCTA
60116292 CCC
1 CCC
60116295 ATTATAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.33, G:0.20, T:0.31
Consensus pattern (24 bp):
CCCGTTAAATGCTCTTCGGAGCTA
Found at i:60120255 original size:20 final size:19
Alignment explanation
Indices: 60120232--60120302 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
60120222 AAATTACAAA
*
60120232 AAAAATTTAAAATTATTTTC
1 AAAAATTCAAAA-TATTTTC
*
60120252 AAAAATTCAAAATATTTTTT
1 AAAAATTCAAAATA-TTTTC
* *
60120272 TAAAATACAAAATATTTAT-
1 AAAAATTCAAAATATTT-TC
60120291 AAAAATTCAAAA
1 AAAAATTCAAAA
60120303 GAATATATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.35
20 28 0.65
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTC
Found at i:60121691 original size:59 final size:59
Alignment explanation
Indices: 60121609--60121721 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
60121599 AATTAATCAC
* * *
60121609 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTTAATTTAATTTAATCTCAT
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATAGTAAATTAAATTTAATCTCAT
60121668 ATTAATATTAAATTAATAAAATATTATCTAGATAAATAGTAAATTAAATTTAAT
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATAGTAAATTAAATTTAAT
60121722 ATTAAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (59 bp):
ATTAATATTAAATTAATAAAATATTATCTAGATAAATAGTAAATTAAATTTAATCTCAT
Found at i:60122395 original size:23 final size:23
Alignment explanation
Indices: 60122369--60122415 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
60122359 ATGCAATCTT
60122369 AGATATGA-TATGTAAATCTTAGA
1 AGATATGATTATGT-AATCTTAGA
*
60122392 AGATATGATTCTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
60122415 A
1 A
60122416 ATTTAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:60132054 original size:20 final size:20
Alignment explanation
Indices: 60132017--60132056 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60132007 CCGTAAAATA
**
60132017 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
60132037 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
60132057 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Done.