Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1927
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: 302399
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:581 original size:28 final size:28
Alignment explanation
Indices: 541--612 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
531 GAAATAAAGC
** *
541 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
569 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
597 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
613 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:696 original size:52 final size:51
Alignment explanation
Indices: 640--929 Score: 203
Period size: 52 Copynumber: 5.6 Consensus size: 51
630 GTATTTTTGG
* *
640 AAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGA
1 AAATAAAATCGGAGTTGGAGTATCCCCGATT-AAGGAAAATTAGTGTTTCGA
* * * ** *
692 AAATAAAACCGGGGTTGGAGTATCCCCAATTGTGGAAAAATTAGTGTTT-TA
1 AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGG-AAAATTAGTGTTTCGA
* * * * * * * * * * * *
743 GTAATAAAACCGGGGTTGGAATATCCCTGATTATGAAAAATCAATATTTTGG
1 -AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATTAGTGTTTCGA
* * * * * *
795 AAATAAAGTTGGGGTTGGAGTATCCCCGATTGTGAA-GAAATTGGTATTTTTTCG-
1 AAATAAAATCGGAGTTGGAGTATCCCCGA-T-T-AAGGAAAAT--TAGTGTTTCGA
*
849 AAATAAAATCGGAGTTGGAGTATCCCCGATTATA-G-AAATTAGTGTTTTGA
1 AAATAAAATCGGAGTTGGAGTATCCCCGATTA-AGGAAAATTAGTGTTTCGA
* *
899 AAATAAAATCGGAGTTCGAATATCCCCGATT
1 AAATAAAATCGGAGTTGGAGTATCCCCGATT
930 GTGGAGAATT
Statistics
Matches: 187, Mismatches: 41, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
49 7 0.04
50 29 0.16
51 40 0.21
52 72 0.39
53 6 0.03
54 27 0.14
55 6 0.03
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATTAGTGTTTCGA
Found at i:761 original size:104 final size:103
Alignment explanation
Indices: 600--932 Score: 348
Period size: 104 Copynumber: 3.2 Consensus size: 103
590 GAAATAACGA
* * * *
600 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTAGAAATAAAATCGGAGTTGGAGTATCC
* * *
665 CCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCGG
65 CCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAATCGG
* * * * * * *
704 GGTTGGAGTATCCCCAATTGTGGAAAAATTAGTGTTTTAGTAATAAAACCGGGGTTGGAATATCC
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTGGTTTTTTAGAAATAAAATCGGAGTTGGAGTATCC
* * * * * * * * *
769 CTGATT-ATGAAAAATCAATATTTTGGAAATAAAGTTGG
65 CCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAATCGG
*
807 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTCGAAATAAAATCGGAGTTGGAGTAT
1 GGTTGGAGTATCCCCGATTGTGAA-AAATTGG--TTTTTTAGAAATAAAATCGGAGTTGGAGTAT
*
872 CCCCGATTATA-G-AAATTAGTGTTTTGAAAATAAAATCGG
63 CCCCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAATCGG
* * *
911 AGTTCGAATATCCCCGATTGTG
1 GGTTGGAGTATCCCCGATTGTG
933 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 44, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
102 3 0.02
103 47 0.26
104 88 0.49
105 42 0.23
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTAGAAATAAAATCGGAGTTGGAGTATCCC
CGATTAAAGGAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:820 original size:155 final size:153
Alignment explanation
Indices: 634--929 Score: 366
Period size: 155 Copynumber: 1.9 Consensus size: 153
624 AAATTGGTAT
634 TTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGA-T-TAAAGGAAAATTGG-TGTTTCGAAAAT
1 TTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTGTAAA-G-AAATTGGTTGTTTCG-AAAT
* * * *
696 AAAACCGGGGTTGGAGTATCCCCAATTGTGGAAAAATTAGTGTTTT-AGTAATAAAACCGGGGTT
63 AAAACCGGAGTTGGAGTATCCCCAATTAT--AAAAATTAGTGTTTTGA-AAATAAAACCGGAGTT
* *
760 GGAATATCCCTGATTATGAAAAATCAATA
125 CGAATATCCCCGATTATGAAAAATCAATA
* * * *
789 TTTTGGAAATAAAGTTGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTCGAAATA
1 TTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTGTAAAGAAATTGG--TTGTTTCGAAATA
* * * *
854 AAATCGGAGTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAAATAAAATCGGAGTTCGAA
64 AAACCGGAGTTGGAGTATCCCCAATTATAAAAATTAGTGTTTTGAAAATAAAACCGGAGTTCGAA
919 TATCCCCGATT
129 TATCCCCGATT
930 GTGGAGAATT
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
155 80 0.66
156 3 0.02
157 32 0.26
158 6 0.05
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (153 bp):
TTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTGTAAAGAAATTGGTTGTTTCGAAATAAA
ACCGGAGTTGGAGTATCCCCAATTATAAAAATTAGTGTTTTGAAAATAAAACCGGAGTTCGAATA
TCCCCGATTATGAAAAATCAATA
Found at i:2755 original size:17 final size:17
Alignment explanation
Indices: 2733--2766 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2723 ATGGAATAGT
2733 GTTTTTCTTTGTTTTTG
1 GTTTTTCTTTGTTTTTG
* *
2750 GTTTTTTTTTTTTTTTG
1 GTTTTTCTTTGTTTTTG
2767 CTAAAGGATT
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:0.03, G:0.15, T:0.82
Consensus pattern (17 bp):
GTTTTTCTTTGTTTTTG
Found at i:3316 original size:13 final size:13
Alignment explanation
Indices: 3298--3323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3288 ACAAAGATCC
3298 ATGTATCGATACA
1 ATGTATCGATACA
3311 ATGTATCGATACA
1 ATGTATCGATACA
3324 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3319 original size:33 final size:33
Alignment explanation
Indices: 3277--3343 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3267 AAAATTTCCA
***
3277 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3310 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3343 A
1 A
3344 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3403 original size:13 final size:13
Alignment explanation
Indices: 3385--3409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3375 ACAATACTTA
3385 TGTATCGATACAT
1 TGTATCGATACAT
3398 TGTATCGATACA
1 TGTATCGATACA
3410 AAATTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3407 original size:32 final size:32
Alignment explanation
Indices: 3366--3428 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
3356 TAGCTAATTA
*
3366 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
* *
3398 TGTATCGATACAAAATTTATGTATTGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3429 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3492 original size:21 final size:21
Alignment explanation
Indices: 3466--3542 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
3456 GTTGGGACTC
* *
3466 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
3487 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
3508 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
3529 TGTATCGATACATT
1 TGTATCGATACATT
3543 TGAATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:5274 original size:52 final size:52
Alignment explanation
Indices: 5196--5305 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 52
5186 TTCTGTTTTG
*
5196 GATACATTTAATAGTGTATCGATACATCTGGGCAAATTTACCTGCATGTATC
1 GATACATTTAATAATGTATCGATACATCTGGGCAAATTTACCTGCATGTATC
* *
5248 GATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATC
1 GATACATTTAATAATGTATCGATACATCTGGGCAAATTTACCTGCATGTATC
5300 GATACA
1 GATACA
5306 AAGATCAGTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
GATACATTTAATAATGTATCGATACATCTGGGCAAATTTACCTGCATGTATC
Found at i:5318 original size:52 final size:52
Alignment explanation
Indices: 5206--5325 Score: 179
Period size: 52 Copynumber: 2.3 Consensus size: 52
5196 GATACATTTA
***
5206 ATAGTGTATCGATACATCTGGGCAAATTTACCTGCATGTATCGATACATTTT
1 ATAGTGTATCGATACATCTGGGCAAATTTACCTGCATGTATCGATACATAAG
* *
5258 ATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAG
1 ATAGTGTATCGATACATCTGGGCAAATTTACCTGCATGTATCGATACATAAG
5309 ATCAGTGTATCGATACA
1 AT-AGTGTATCGATACA
5326 ATGTATCGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGCAAATTTACCTGCATGTATCGATACATAAG
Found at i:5332 original size:13 final size:13
Alignment explanation
Indices: 5314--5338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5304 CAAAGATCAG
5314 TGTATCGATACAA
1 TGTATCGATACAA
5327 TGTATCGATACA
1 TGTATCGATACA
5339 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5406 original size:20 final size:19
Alignment explanation
Indices: 5377--5445 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
5367 GCAGTAGCTT
5377 AAATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
5396 AAATATGTATCGATAC----
1 AAAT-TGTATCGATACAAAA
5412 --ATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
5429 AAATATGTATCGATACA
1 AAAT-TGTATCGATACA
5446 TTGTATCGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.26
14 2 0.05
19 6 0.14
20 23 0.55
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (19 bp):
AAATTGTATCGATACAAAA
Found at i:5416 original size:33 final size:33
Alignment explanation
Indices: 5379--5478 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
5369 AGTAGCTTAA
5379 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
5412 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
5445 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
5478 A
1 A
5479 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:5419 original size:13 final size:13
Alignment explanation
Indices: 5401--5458 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
5391 CAAAAAAATA
5401 TGTATCGATACAT
1 TGTATCGATACAT
5414 TGTATCGATACAAAAAAAT
1 TGTATCGATAC------AT
5433 ATGTATCGATACAT
1 -TGTATCGATACAT
5447 TGTATCGATACA
1 TGTATCGATACA
5459 ACATTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
14 2 0.05
19 2 0.05
20 11 0.29
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6448 original size:55 final size:52
Alignment explanation
Indices: 6348--6780 Score: 287
Period size: 49 Copynumber: 8.8 Consensus size: 52
6338 GAAAAGTGAT
* * * * * * *
6348 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAATATGAGAA
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATG-G-A
* * * *
6402 AAAGGATGTCAACGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
* *
6455 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
** * *
6498 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
* * * *
6547 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGAC-T-----T---
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
** * * *
6590 AAAGGTGCCAATGTGCTGATTCAAAGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
** * * *
6640 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
* * * *
6688 AAAGGTGCCAATATGCTGATTCAAGACTAGCTATATTGGACTTAAAGAT---
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
* * *
6737 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTA
6781 GAAGGGTTGC
Statistics
Matches: 326, Mismatches: 38, Indels: 35
0.82 0.10 0.09
Matches are distributed among these distances:
43 76 0.23
44 2 0.01
46 1 0.00
48 1 0.00
49 169 0.52
51 1 0.00
52 30 0.09
53 6 0.02
54 5 0.02
55 35 0.11
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAACATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGA
Found at i:6569 original size:49 final size:49
Alignment explanation
Indices: 6416--6780 Score: 466
Period size: 49 Copynumber: 7.6 Consensus size: 49
6406 GATGTCAACG
* *
6416 TGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATA
* *
6468 TGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
6511 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
* * * *
6560 TGCTGATTCAAGGCCAGCGATATCGGAC-T-----TAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
* * *
6603 TGCTGATTCAAAGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
*
6652 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
* * *
6701 TGCTGATTCAAGACTAGCTATATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
* *
6750 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
6781 GAAGGGTTGC
Statistics
Matches: 275, Mismatches: 26, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
43 76 0.28
44 2 0.01
46 1 0.00
48 1 0.00
49 169 0.61
51 1 0.00
52 25 0.09
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
Found at i:6588 original size:92 final size:92
Alignment explanation
Indices: 6415--6785 Score: 526
Period size: 92 Copynumber: 3.9 Consensus size: 92
6405 GGATGTCAAC
* *
6415 GTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAG
6480 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCTATATTGGACTTAAAGGTGCCAAT
6510 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* *
6575 AGCGATATCGGACTTAAAGGTGCCAAT
66 AGCTATATTGGACTTAAAGGTGCCAAT
* * * *
6602 GTGCTGATTCAAAGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
*
6667 AGCTACATTGGACTTAAAGATAAAGGTGCCAAT
66 AGCTATATTGGAC-T-----TAAAGGTGCCAAT
* * * *
6700 ATGCTGATTCAAGACTAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
*
6765 AGCTATATTGGGCTTAGAAGG
66 AGCTATATTGGACTTA-AAGG
6786 GTTGCCACCG
Statistics
Matches: 248, Mismatches: 21, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
92 126 0.51
93 5 0.02
95 35 0.14
97 1 0.00
98 81 0.33
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAAAGGTGCCAAT
Found at i:6824 original size:33 final size:33
Alignment explanation
Indices: 6773--6880 Score: 186
Period size: 33 Copynumber: 3.4 Consensus size: 33
6763 CCAGCTATAT
6773 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
6803 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
6836 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
6869 TGGGCTTTAGAA
1 TGGGCTTTAGAA
6881 AGAGTGCCAC
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
30 5 0.07
31 6 0.08
33 62 0.85
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:6914 original size:66 final size:65
Alignment explanation
Indices: 6844--7068 Score: 196
Period size: 63 Copynumber: 3.5 Consensus size: 65
6834 TGTGGGCTTT
*
6844 AGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAAAG-A-GTGCCACGGAGTTGTGGGCTTT
1 AGAAGAAGG-TGCCACCGA-GT-TGTGGGCTTTAAGAAAGAAGGTGCCACGGAGTTGTGGGCTTT
6906 GAAA
63 -AAA
* * *
6910 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGGTTTA
1 AGAAGAAGGTGCCACCGAGTTGTGGGCTTT-AAGA-AAGAAGGTGCCACGGAGTTGTGGGCTTTA
6975 AA
64 AA
* * * * * * *
6977 GGAA-AAGGTGCCACGGAGTTGTGGGCTTTGAAGAAA-AA-ATGCCACTGAGTCGTGGACTTT-G
1 AGAAGAAGGTGCCACCGAGTTGTGGGCTTT-AAGAAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
7038 A
65 A
* * *
7039 AGAA-AAGGATGCCACTGAGTCGTGGACTTT
1 AGAAGAAGG-TGCCACCGAGTTGTGGGCTTT
7069 GAGCAGAGAT
Statistics
Matches: 137, Mismatches: 16, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
62 8 0.06
63 45 0.33
64 3 0.02
65 12 0.09
66 41 0.30
67 7 0.05
68 21 0.15
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (65 bp):
AGAAGAAGGTGCCACCGAGTTGTGGGCTTTAAGAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
Found at i:6922 original size:34 final size:33
Alignment explanation
Indices: 6879--7070 Score: 225
Period size: 34 Copynumber: 5.8 Consensus size: 33
6869 TGGGCTTTAG
6879 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGA
6913 AGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 A-AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
* *
6947 AGAAGGTGCCACGGAGTTGTGGGGTTT-AAAGGA
1 A-AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
6980 AAAGGTGCCACGGAGTTGTGGGCTTTGAAGAA-A
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAA-AAGA
* * *
7013 AAA--TGCCACTGAGTCGTGGACTTTG--AAGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
* * *
7042 AAAGGATGCCACTGAGTCGTGGACTTTGA
1 AAAGG-TGCCACGGAGTTGTGGGCTTTGA
7071 GCAGAGATTG
Statistics
Matches: 143, Mismatches: 7, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
28 2 0.01
29 4 0.03
31 19 0.13
32 46 0.32
33 12 0.08
34 57 0.40
35 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
Found at i:6946 original size:63 final size:65
Alignment explanation
Indices: 6867--7106 Score: 226
Period size: 63 Copynumber: 3.7 Consensus size: 65
6857 CACCGACTTG
* *
6867 TGTGGGCTTT--AGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG-TGCCACGGAG
1 TGTGGGCTTTGAAGAAAGAGTGCCACGGAGTCGTGGACTTTGAAAAGAA-AAGGATGCCACGGAG
6929 T
65 T
* * ** *
6930 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGGTTT-AAAGGAAAAGG-TGCCACGG
1 TGTGGGCTTTGAAGA-AAG-A-GTGCCACGGAGTCGTGGACTTTGAAAAGAAAAGGATGCCACGG
6993 AGT
63 AGT
* * * *
6996 TGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTG--AAGAAAAGGATGCCACTGAGT
1 TGTGGGCTTTGAAGAAAGAGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAGGATGCCACGGAGT
* * * * * *
7059 CGTGGACTTTG-AGCAGAGATTGCCACTGAGTCGTGGACTTTGAGAAGA
1 TGTGGGCTTTGAAG-AAAGAGTGCCACGGAGTCGTGGACTTTGAAAAGA
7107 GATTGCCACT
Statistics
Matches: 150, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
62 10 0.07
63 71 0.47
64 1 0.01
65 8 0.05
66 32 0.21
67 7 0.05
68 21 0.14
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.23
Consensus pattern (65 bp):
TGTGGGCTTTGAAGAAAGAGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAGGATGCCACGGAGT
Found at i:7086 original size:31 final size:31
Alignment explanation
Indices: 6985--7130 Score: 188
Period size: 31 Copynumber: 4.7 Consensus size: 31
6975 AAGGAAAAGG
* * * * *
6985 TGCCACGGAGTTGTGGGCTTTGAAGAA-AAAA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
*
7016 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GAT
*
7048 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
7079 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
7110 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
7131 AAAAAGGTAT
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
30 2 0.02
31 79 0.75
32 23 0.22
33 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:8090 original size:12 final size:11
Alignment explanation
Indices: 8073--8120 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
8063 TGAAAAGGGG
8073 TTTTTTCTCTTT
1 TTTTTTCT-TTT
8085 TTTTTTCTTTT
1 TTTTTTCTTTT
8096 TTCTTTT-TTGTT
1 TT-TTTTCTT-TT
*
8108 TTGTTTCTTTT
1 TTTTTTCTTTT
8119 TT
1 TT
8121 GGAAAAGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 14 0.44
12 18 0.56
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:8097 original size:19 final size:19
Alignment explanation
Indices: 8073--8109 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8063 TGAAAAGGGG
8073 TTTTTTCTCTTTTT-TTTTC
1 TTTTTTCT-TTTTTGTTTTC
8092 TTTTTTCTTTTTTGTTTT
1 TTTTTTCTTTTTTGTTTT
8110 GTTTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (19 bp):
TTTTTTCTTTTTTGTTTTC
Found at i:8121 original size:16 final size:17
Alignment explanation
Indices: 8080--8121 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
8070 GGGTTTTTTC
* *
8080 TCTTTTTTTTTCTTTTT
1 TCTTTTTTGTTCTTGTT
8097 TCTTTTTTGTT-TTGTT
1 TCTTTTTTGTTCTTGTT
8113 TCTTTTTTG
1 TCTTTTTTG
8122 GAAAAGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (17 bp):
TCTTTTTTGTTCTTGTT
Found at i:15361 original size:52 final size:52
Alignment explanation
Indices: 15270--15400 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
15260 CTCGAAATAT
* *
15270 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCTTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
* *
15322 GCAAATTTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCTTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
*
15374 GAAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCTTGCATGTATCGATACA
15401 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (52 bp):
GAAAATTTGCTTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
Found at i:15413 original size:52 final size:51
Alignment explanation
Indices: 15270--15420 Score: 205
Period size: 52 Copynumber: 2.9 Consensus size: 51
15260 CTCGAAATAT
*
15270 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCTTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
* * *
15322 GCAAATTTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCTTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
* *
15374 GAAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GAAAATTTGCTTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
15421 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (51 bp):
GAAAATTTGCTTGCATGTATCGATACATTAATAGTGTATCGATACATCTGG
Found at i:15427 original size:13 final size:13
Alignment explanation
Indices: 15409--15433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15399 CAAAGATCAG
15409 TGTATCGATACAA
1 TGTATCGATACAA
15422 TGTATCGATACA
1 TGTATCGATACA
15434 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:15511 original size:33 final size:33
Alignment explanation
Indices: 15474--15540 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
15464 AGTAGCTTAA
15474 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
15507 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
15540 A
1 A
15541 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:15514 original size:13 final size:13
Alignment explanation
Indices: 15496--15520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15486 CAAAAAAATA
15496 TGTATCGATACAT
1 TGTATCGATACAT
15509 TGTATCGATACA
1 TGTATCGATACA
15521 ACATTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16653 original size:49 final size:49
Alignment explanation
Indices: 16478--16983 Score: 589
Period size: 49 Copynumber: 10.6 Consensus size: 49
16468 GATGTCAACG
*
16478 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* * *
16530 TGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTACCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
16573 TGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGATTCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * * * *
16622 TGCTGATTCAAGGCCAGCGATATCGGGCTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
16665 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
16714 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
16757 TGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
16806 TCCTGAGTCAAGGCCACCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
16855 TGCTGAGTCAAGGCCAGCTACATTGGGCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
16904 TGCTGATTCAAGACCAGCTATATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
16953 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
16984 GAAGGGTTGC
Statistics
Matches: 393, Mismatches: 43, Indels: 39
0.83 0.09 0.08
Matches are distributed among these distances:
43 111 0.28
45 2 0.01
47 3 0.01
48 1 0.00
49 248 0.63
52 28 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:16663 original size:92 final size:92
Alignment explanation
Indices: 16477--16983 Score: 672
Period size: 92 Copynumber: 5.3 Consensus size: 92
16467 GGATGTCAAC
*
16477 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAG
*
16542 GCCAGCTATATTGGACTTAAAGGTACCAAT
63 GCCAGCTATATTGGACTTAAAGGTGCCAAT
* * *
16572 GTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGATTCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
* * *
16637 AGCGATATCGGGCTTAAAGGTGCCAAT
66 AGCTATATTGGACTTAAAGGTGCCAAT
*
16664 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
16729 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCTATATTGGACTTAAAGGTGCCAAT
* * * *
16756 GTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTCCTGAGTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
* *
16821 ACCTACATTGGACTTAAAGATGAAGGTGCCAAT
66 AGCTATATTGGACTT----A--AAGGTGCCAAT
* * * *
16854 GTGCTGAGTCAAGGCCAGCTACATTGGGCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGACC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
16919 AGCTATATTGGACTTAAAGATAAAGGTGCCAAT
66 AGCTATATTGGAC-T-----TAAAGGTGCCAAT
* * *
16952 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
16984 GAAGGGTTGC
Statistics
Matches: 365, Mismatches: 35, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
92 206 0.56
94 1 0.00
95 35 0.10
96 1 0.00
98 119 0.33
99 1 0.00
100 1 0.00
104 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAAAGGTGCCAAT
Found at i:17027 original size:33 final size:33
Alignment explanation
Indices: 16976--17083 Score: 186
Period size: 33 Copynumber: 3.4 Consensus size: 33
16966 CCAGCTATAT
16976 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
17006 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
17039 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
17072 TGGGCTTTAGAA
1 TGGGCTTTAGAA
17084 AGAGTGCCAC
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
30 5 0.07
31 6 0.08
33 62 0.85
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:17117 original size:66 final size:66
Alignment explanation
Indices: 16983--17177 Score: 183
Period size: 66 Copynumber: 3.0 Consensus size: 66
16973 TATTGGGCTT
* * *
16983 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAAG-AGG-TGCCACGGA-GT-TGTGGGCTTT
17047 ---AGA
61 GAAAGA
17050 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGA-GTGCCACGGAGTTGTGGGCTTTGAAAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGAGGTGCCACGGAGTTGTGGGCTTTG-AAA
17114 GA
65 GA
* * * *
17116 AGAAGG-TGCCACGGA-GT-TGTGGGCTTTAAAGGAAA-AGGTTCTACGGAGTTGTGGGCTTTGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT--A-GAAAGAGGTGCCACGGAGTTGTGGGCTTTGA
17177 A
63 A
17178 GAAAAAATGC
Statistics
Matches: 112, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
62 10 0.09
63 11 0.10
64 9 0.08
65 13 0.12
66 61 0.54
67 8 0.07
ACGTcount: A:0.24, C:0.15, G:0.36, T:0.26
Consensus pattern (66 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGAGGTGCCACGGAGTTGTGGGCTTTGAAAG
A
Found at i:17125 original size:34 final size:33
Alignment explanation
Indices: 17082--17239 Score: 146
Period size: 32 Copynumber: 4.8 Consensus size: 33
17072 TGGGCTTTAG
17082 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGA
*
17116 AGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGA
1 A-AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
* *
17149 AAAGGTTCTACGGAGTTGTGGGCTTTGAAGAA-A
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAA-AAGA
* * * *
17182 AAA--TGCCACTGAGTCGTGGACTTTGAAGA-A
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
* * * * *
17212 AAAGATGCCGCTGAGTCGTGGACTTTGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGA
17240 GCAGAGATTG
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
30 5 0.05
31 19 0.18
32 45 0.42
33 12 0.11
34 24 0.22
35 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
Found at i:17226 original size:32 final size:32
Alignment explanation
Indices: 17082--17299 Score: 158
Period size: 31 Copynumber: 6.8 Consensus size: 32
17072 TGGGCTTTAG
* * *
17082 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGA-TGCCACTGAGTCGTGGACTTTG--AAGAA
* * * * * * *
17117 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAA
* * * * * *
17149 AAAGGTTCTACGGAGTTGTGGGCTTTGAAGAA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAA
17181 AAA-ATGCCACTGAGTCGTGGACTTTGAAGAA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAA
* *
17212 AAAGATGCCGCTGAGTCGTGGACTTTG-AG-C
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAA
*
17242 AGAGATTGCCACTGAGTCGTGGACTTTG-AG-A
1 AAAGA-TGCCACTGAGTCGTGGACTTTGAAGAA
* * *
17273 AGAGATTACCACTGAGTCATGGACTTT
1 AAAGA-TGCCACTGAGTCGTGGACTTT
17300 AAAAAGGTAT
Statistics
Matches: 159, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
30 4 0.03
31 75 0.47
32 56 0.35
34 21 0.13
35 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (32 bp):
AAAGATGCCACTGAGTCGTGGACTTTGAAGAA
Found at i:18270 original size:16 final size:16
Alignment explanation
Indices: 18249--18289 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
18239 GGGTTTTTCC
*
18249 TCTTTTTT-TTCTTTTT
1 TCTTTTTTGTT-TTGTT
18265 TCTTTTTTGTTTTGTT
1 TCTTTTTTGTTTTGTT
18281 TCTTTTTTG
1 TCTTTTTTG
18290 GAAAAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (16 bp):
TCTTTTTTGTTTTGTT
Found at i:18719 original size:133 final size:135
Alignment explanation
Indices: 18476--18735 Score: 314
Period size: 133 Copynumber: 1.9 Consensus size: 135
18466 AATTAAAAAC
* * * * * *
18476 TAAATTAAATTTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTCTCTGTAGGGTTA
1 TAAATAAAAATTATTATCTTAATTCTTCAAGATTTCTAATATCCCTAAGGTTCTCTGTAGGGGTA
* ** *
18541 TAGAATTCTTCAAAACTTTTTGCATCTTTTCGATTCTCCATTAAGGTACA-AAATGA-ATTTTTT
66 TAGAAATCTTCAAAAAATTTTGCATCTTTTCGATTCTCCAGTAAGGTA-AGAAATGAGATTTTTT
18604 GGAAAT
130 GGAAAT
* *
18610 TAAATAAAAATTATTGTCTTAATTCTTCAAGATTTCT-ATATCCCTAAGGTT-TTTCGTAGGGGT
1 TAAATAAAAATTATTATCTTAATTCTTCAAGATTTCTAATATCCCTAAGGTTCTCT-GTAGGGGT
* * **
18673 ATAGAAATCTTCAAAAAATTTTGTATCTTTTTTG-TTCTTTAGTAAGGTAAGAAATGAGATTTT
65 ATAGAAATCTTCAAAAAATTTTGCATC-TTTTCGATTCTCCAGTAAGGTAAGAAATGAGATTTT
18736 CGAAATTTAC
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
132 3 0.03
133 60 0.57
134 43 0.41
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (135 bp):
TAAATAAAAATTATTATCTTAATTCTTCAAGATTTCTAATATCCCTAAGGTTCTCTGTAGGGGTA
TAGAAATCTTCAAAAAATTTTGCATCTTTTCGATTCTCCAGTAAGGTAAGAAATGAGATTTTTTG
GAAAT
Found at i:19162 original size:157 final size:157
Alignment explanation
Indices: 18862--19206 Score: 437
Period size: 157 Copynumber: 2.2 Consensus size: 157
18852 AGGTACTTCT
* * * * *
18862 ATGTCGAAAGTAT-CCTCTAAGGGCATTTTCATAATTTTTCTAGAACGGAGTCCTAGGTTGTTAT
1 ATGTTGAAAGTATACCTCTAAGGGCATTTTCATAATTTTTCTAGAACGAAATCCTAGGTTGTCAC
* * *
18926 CGGGTCTACTTTTATGCTGAAGATGGGTATGTAACATAGGTTCATCCCATCTATAATCTTTTTAA
66 CGAGTCCACTTTTATGCCGAAGATGGGTATGTAACATAGGTTCATCCCATCTATAATCTTTTTAA
* * *
18991 GTCTTTTAGGGTTACCGA-GATGCTTTC
131 GTCCTTTAAGGTTA-CGAGGATACTTTC
* * * *
19018 ATGTTGAAAGTATATCTCTAAGGGCATTTTTATAATTTTTTTAGAACTAAATCCTAGGTTGTCAC
1 ATGTTGAAAGTATACCTCTAAGGGCATTTTCATAATTTTTCTAGAACGAAATCCTAGGTTGTCAC
* * **
19083 CGAGTCCGCTTTTATGCCGAA-AGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTA
66 CGAGTCCACTTTTATGCCGAAGA-TGGGTATGTAACATAGGTTCATCCCATCTATAATCTTTTTA
*
19147 AGTCCTTTAAGGTTACTAGGATACTTTC
130 AGTCCTTTAAGGTTACGAGGATACTTTC
* *
19175 ATGTTGAAGGTATACC-CATAGGGGCATTTTCA
1 ATGTTGAAAGTATACCTC-TAAGGGCATTTTCA
19207 ATTTTTTTCA
Statistics
Matches: 161, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
156 16 0.10
157 145 0.90
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (157 bp):
ATGTTGAAAGTATACCTCTAAGGGCATTTTCATAATTTTTCTAGAACGAAATCCTAGGTTGTCAC
CGAGTCCACTTTTATGCCGAAGATGGGTATGTAACATAGGTTCATCCCATCTATAATCTTTTTAA
GTCCTTTAAGGTTACGAGGATACTTTC
Found at i:20517 original size:44 final size:44
Alignment explanation
Indices: 20468--20982 Score: 363
Period size: 44 Copynumber: 11.7 Consensus size: 44
20458 CCTTATATTT
* * *
20468 GTTTGACATGATGGTTCTACCCTAGTCAAA-TGCGTTTCACTTTC
1 GTTTGACATGATGGTTATACCCTGGTCAAACT-CCTTTCACTTTC
* ** * *
20512 GTTTGACGTGAAAGTTATGCCCTGATCAAACTCCATTT-ACTTTC
1 GTTTGACATGATGGTTATACCCTGGTCAAACTCC-TTTCACTTTC
* *
20556 GTTTGACATGATGGTT-TAGCACTGGTCAAACTCTTTTCA-TTCTC
1 GTTTGACATGATGGTTATA-CCCTGGTCAAACTCCTTTCACTT-TC
* *
20600 GTTTGACATGATGGTTATACCTTGGTCAAACTCCGTTCACTTTC
1 GTTTGACATGATGGTTATACCCTGGTCAAACTCCTTTCACTTTC
** * * *
20644 GTTTTTCATGATGGTT-TAGCCCTGGTCCAACT-TTTTCA-TCCTC
1 GTTTGACATGATGGTTATA-CCCTGGTCAAACTCCTTTCACT-TTC
* * * *
20687 GTTTGACATGATGGTTCTACCTTGGTCAAACT-CTTTCCATTTTT
1 GTTTGACATGATGGTTATACCCTGGTCAAACTCCTTT-CACTTTC
** * * *
20731 GTTTGATGTGATGGTTATGCCCTAGTCAAAC-CCTTTTTAC-TTC
1 GTTTGACATGATGGTTATACCCTGGTCAAACTCC-TTTCACTTTC
** * * *
20774 TGTTTGATGTGCTGGTTCTACCATGGTCAAACTCCTTTCACTTTC
1 -GTTTGACATGATGGTTATACCCTGGTCAAACTCCTTTCACTTTC
* * * * * * *
20819 GTTTGACTTAATGGTTTTGCCCTAGTCAAACCCCTTTCACTATC
1 GTTTGACATGATGGTTATACCCTGGTCAAACTCCTTTCACTTTC
* * * *
20863 GTTTGACATGATGGTTTTACTCGGGTCAAACTCCATTCACTTTC
1 GTTTGACATGATGGTTATACCCTGGTCAAACTCCTTTCACTTTC
* * * * **
20907 ATTTGACGTGATGGTT-TAGCCATGGTTAAACTTTTTTCA-TCTTC
1 GTTTGACATGATGGTTATA-CCCTGGTCAAACTCCTTTCACT-TTC
* ** *
20951 GTTCGATGTGATGGTTCA-GCCCTGGTCAAACT
1 GTTTGACATGATGGTT-ATACCCTGGTCAAACT
20983 TGGTACGTTT
Statistics
Matches: 368, Mismatches: 82, Indels: 42
0.75 0.17 0.09
Matches are distributed among these distances:
42 1 0.00
43 47 0.13
44 303 0.82
45 17 0.05
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (44 bp):
GTTTGACATGATGGTTATACCCTGGTCAAACTCCTTTCACTTTC
Found at i:20617 original size:88 final size:87
Alignment explanation
Indices: 20468--20982 Score: 409
Period size: 88 Copynumber: 5.9 Consensus size: 87
20458 CCTTATATTT
* * **
20468 GTTTGACATGATGGTTCTA-CCCTAGTCAAA-TGCGTTTCACTT-TCGTTTGACGTGAAAGTTAT
1 GTTTGACATGATGGTT-TAGCCCTAGTCAAACT-CTTTTCA-TTCTCGTTTGACATGATGGTTAT
* *
20530 GCCCTGATCAAACTCCATTTACTTTC
63 ACCCTGGTCAAACTCC-TTTACTTTC
* *
20556 GTTTGACATGATGGTTTAGCACTGGTCAAACTCTTTTCATTCTCGTTTGACATGATGGTTATACC
1 GTTTGACATGATGGTTTAGCCCTAGTCAAACTCTTTTCATTCTCGTTTGACATGATGGTTATACC
* *
20621 TTGGTCAAACTCCGTTCACTTTC
66 CTGGTCAAACTCC-TTTACTTTC
** * * * *
20644 GTTTTTCATGATGGTTTAGCCCTGGTCCAACT-TTTTCATCCTCGTTTGACATGATGGTTCTACC
1 GTTTGACATGATGGTTTAGCCCTAGTCAAACTCTTTTCATTCTCGTTTGACATGATGGTTATACC
* * *
20708 TTGGTCAAACT-CTTTCCATTTTT
66 CTGGTCAAACTCCTTT--ACTTTC
** * * ** * *
20731 GTTTGATGTGATGG-TTATGCCCTAGTCAAACCCTTTTTACTTCT-GTTTGATGTGCTGGTTCTA
1 GTTTGACATGATGGTTTA-GCCCTAGTCAAACTCTTTTCA-TTCTCGTTTGACATGATGGTTATA
*
20794 CCATGGTCAAACTCCTTTCACTTTC
64 CCCTGGTCAAACTCCTTT-ACTTTC
* * * * * * * * *
20819 GTTTGACTTAATGGTTTTGCCCTAGTCAAACCCCTTTCACTATCGTTTGACATGATGGTTTTACT
1 GTTTGACATGATGGTTTAGCCCTAGTCAAACTCTTTTCATTCTCGTTTGACATGATGGTTATACC
* *
20884 CGGGTCAAACTCCATTCACTTTC
66 CTGGTCAAACTCC-TTTACTTTC
* * * * * * * ** *
20907 ATTTGACGTGATGGTTTAGCCATGGTTAAACTTTTTTCA-TCTTCGTTCGATGTGATGGTTCA-G
1 GTTTGACATGATGGTTTAGCCCTAGTCAAACTCTTTTCATTC-TCGTTTGACATGATGGTT-ATA
20970 CCCTGGTCAAACT
64 CCCTGGTCAAACT
20983 TGGTACGTTT
Statistics
Matches: 344, Mismatches: 69, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
85 2 0.01
86 4 0.01
87 73 0.21
88 253 0.74
89 12 0.03
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (87 bp):
GTTTGACATGATGGTTTAGCCCTAGTCAAACTCTTTTCATTCTCGTTTGACATGATGGTTATACC
CTGGTCAAACTCCTTTACTTTC
Found at i:20849 original size:219 final size:219
Alignment explanation
Indices: 20468--20879 Score: 496
Period size: 219 Copynumber: 1.9 Consensus size: 219
20458 CCTTATATTT
20468 GTTTGACATGATGGTTCTACCCTAGTCAAATGCGTTTCACTTTCGTTTGACGTGAAAGTTATGCC
1 GTTTGACATGATGGTTCTACCCTAGTCAAATGCGTTTCACTTTCGTTTGACGTGAAAGTTATGCC
* *
20533 CTGATCAAACTCCATTTACTTTCGTTTGACATGATGGTTTAGCACTGGTCAAACTCTTTTCATTC
66 CTGATCAAACTCCATTTACTTTCGTTTGACATGATGGTTTACCACTGGTCAAACTCCTTTCATTC
* * * * * **
20598 TCGTTTGACATGATGGTTATACCTTGGTCAAACTCCGTTCACTTTCGTTTTTCATGATGGTTTAG
131 TCGTTTGACATAATGGTTATACCCTAGTCAAACCCCGTTCACTATCGTTTGACATGATGGTTTAG
20663 CCCTGGTCCAACTTTTTCATCCTC
196 CCCTGGTCCAACTTTTTCATCCTC
* * * * * **
20687 GTTTGACATGATGGTTCTACCTTGGTCAAACT-C-TTTCCATTTTTGTTTGATGTGATGGTTATG
1 GTTTGACATGATGGTTCTACCCTAGTCAAA-TGCGTTT-CACTTTCGTTTGACGTGAAAGTTATG
* ** *
20750 CCCT-AGTCAAAC-CCTTTTTAC-TTCTGTTTGATGTGCTGGTTCTACCA-TGGTCAAACTCCTT
64 CCCTGA-TCAAACTCC-ATTTACTTTC-GTTTGACATGATGGTT-TACCACTGGTCAAACTCCTT
* * * *
20811 TCACTT-TCGTTTGACTTAATGGTTTTGCCCTAGTCAAACCCCTTTCACTATCGTTTGACATGAT
125 TCA-TTCTCGTTTGACATAATGGTTATACCCTAGTCAAACCCCGTTCACTATCGTTTGACATGAT
20875 GGTTT
189 GGTTT
20880 TACTCGGGTC
Statistics
Matches: 162, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
218 9 0.06
219 146 0.90
220 7 0.04
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (219 bp):
GTTTGACATGATGGTTCTACCCTAGTCAAATGCGTTTCACTTTCGTTTGACGTGAAAGTTATGCC
CTGATCAAACTCCATTTACTTTCGTTTGACATGATGGTTTACCACTGGTCAAACTCCTTTCATTC
TCGTTTGACATAATGGTTATACCCTAGTCAAACCCCGTTCACTATCGTTTGACATGATGGTTTAG
CCCTGGTCCAACTTTTTCATCCTC
Found at i:27690 original size:3 final size:3
Alignment explanation
Indices: 27682--27707 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27672 TTCAAAAATA
27682 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
27708 ATACAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27883 original size:16 final size:17
Alignment explanation
Indices: 27861--27902 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
27851 GATATTTAAT
27861 AAAATAAAATAAAAAT-
1 AAAATAAAATAAAAATC
* *
27877 TAAAT-AAATAATAATC
1 AAAATAAAATAAAAATC
27893 AAAATAAAAT
1 AAAATAAAAT
27903 GAATAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAAAATAAAAATC
Found at i:27900 original size:20 final size:20
Alignment explanation
Indices: 27862--27914 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
27852 ATATTTAATA
27862 AAATAAAATAAAAATTAAAT
1 AAATAAAATAAAAATTAAAT
* *
27882 AAATAATAATCAAAATAAAAT
1 AAATAA-AATAAAAATTAAAT
*
27903 GAATAAATATAA
1 AAATAAA-ATAA
27915 CCTTTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATAAAATAAAAATTAAAT
Found at i:28610 original size:16 final size:16
Alignment explanation
Indices: 28590--28657 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
28580 GCAAGTTCGG
*
28590 GCTTTTTCGAGTTTAA
1 GCTTTTTCGAGTTTGA
* *
28606 ACTTTTTTGAGTTTGA
1 GCTTTTTCGAGTTTGA
*
28622 GTTTTTTCGAGTTTGA
1 GCTTTTTCGAGTTTGA
*
28638 GTTTTTTCGAGTTTGA
1 GCTTTTTCGAGTTTGA
28654 GCTT
1 GCTT
28658 AATTGGGTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.15, C:0.09, G:0.22, T:0.54
Consensus pattern (16 bp):
GCTTTTTCGAGTTTGA
Found at i:28691 original size:16 final size:16
Alignment explanation
Indices: 28672--28702 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28662 GGGTTTGGAC
28672 TTTTTCGGGTTCAGGT
1 TTTTTCGGGTTCAGGT
*
28688 TTTTTTGGGTTCAGG
1 TTTTTCGGGTTCAGG
28703 CTTATTCGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.10, G:0.32, T:0.52
Consensus pattern (16 bp):
TTTTTCGGGTTCAGGT
Found at i:29610 original size:16 final size:15
Alignment explanation
Indices: 29583--29612 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29573 ATGTTAACTT
29583 TATATTCTATTCTAC
1 TATATTCTATTCTAC
29598 TATATTACTATTCTA
1 TATATT-CTATTCTA
29613 AATGTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTCTATTCTAC
Found at i:30731 original size:13 final size:13
Alignment explanation
Indices: 30713--30738 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30703 CAATTTTTGG
30713 TGTATCGATACAT
1 TGTATCGATACAT
30726 TGTATCGATACAT
1 TGTATCGATACAT
30739 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:30750 original size:32 final size:33
Alignment explanation
Indices: 30693--30756 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
30683 TACAAGCCAA
**
30693 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
30726 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
30757 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:30763 original size:19 final size:18
Alignment explanation
Indices: 30693--30763 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
30683 TACAAGCCAA
30693 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
30713 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
30726 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
30745 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
30764 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:33307 original size:13 final size:13
Alignment explanation
Indices: 33289--33314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33279 ATAATCACCC
33289 TGTATCGATACAA
1 TGTATCGATACAA
33302 TGTATCGATACAA
1 TGTATCGATACAA
33315 AGTAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:37255 original size:21 final size:21
Alignment explanation
Indices: 37226--37270 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37216 AAGTTTTTAT
*
37226 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
37246 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
37268 TTT
1 TTT
37271 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:37474 original size:74 final size:74
Alignment explanation
Indices: 37353--37502 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
37343 CTAATTTTTT
37353 TTCATTAGCAAGTTTAGAATGATTTTCTTTCTCAAGTGTGACAATCTTTTGTTCAAGATTTTCAA
1 TTCATTAGCAAGTTTAGAATGATTTTCTTTCTCAAGTGTGACAATCTTTTGTTCAAGATTTTCAA
37418 TTTCAATAC
66 TTTCAATAC
37427 TTCATTAGCAAGTTTAGAATGATTTTCTTTCTCAAGTGTGACAATCTTTTGTTCAAGATTTTCAA
1 TTCATTAGCAAGTTTAGAATGATTTTCTTTCTCAAGTGTGACAATCTTTTGTTCAAGATTTTCAA
37492 TTTCAATAC
66 TTTCAATAC
37501 TT
1 TT
37503 TTCAATTTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (74 bp):
TTCATTAGCAAGTTTAGAATGATTTTCTTTCTCAAGTGTGACAATCTTTTGTTCAAGATTTTCAA
TTTCAATAC
Found at i:39582 original size:13 final size:13
Alignment explanation
Indices: 39564--39589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39554 CAATTTTTGG
39564 TGTATCGATACAT
1 TGTATCGATACAT
39577 TGTATCGATACAT
1 TGTATCGATACAT
39590 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:39601 original size:32 final size:33
Alignment explanation
Indices: 39544--39607 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
39534 TACAAGCCAA
**
39544 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
39577 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
39608 AGTTTGGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:39614 original size:19 final size:18
Alignment explanation
Indices: 39544--39614 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
39534 TACAAGCCAA
39544 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
39564 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
39577 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
39596 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
39615 ATACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:41630 original size:651 final size:650
Alignment explanation
Indices: 40389--41688 Score: 2519
Period size: 651 Copynumber: 2.0 Consensus size: 650
40379 TAAGGTCGAG
40389 ACTAGTACTTTTGTGTCTAAGGCGAATCTTAGGTTCTTTATTTTCAATTTGAATACTTTTGTAAA
1 ACTAGTACTTTTGTGTCTAAGGCGAATCTTAGGTTCTTTATTTTCAATTTGAATACTTTTGTAAA
*
40454 ACAAAGGCAATGTCTCAAAATTAGAATAGTACATGAAATTTCTCCCATCCATATATATTAGAGGG
66 ACAAAGGCAATGTCTCAAAACTAGAATAGTACATGAAATTTCTCCCATCCATATATATTAGAGGG
40519 GTTTTACGGATTATTTTAATAACGGGATATCCTTTTCAAAATGAAATAAAGAATTTTATGGCTTT
131 GTTTTACGGATTATTTTAATAACGGGATATCCTTTTCAAAATGAAATAAAGAATTTTATGGCTTT
40584 CGAAAAAATAAAAACCTTTCACATTCTTCCGATATTCCAGTAAGGTAAGAAAGACATTTTGATTT
196 CGAAAAAATAAAAACCTTTCACATTCTTCCGATATTCCAGTAAGGTAAGAAAGACATTTTGATTT
40649 CTAATATATTTTATGTTCCTCTGGTTCTTCGATGGGATATGGAAGGGAATAATAAAAGCTTTCAT
261 CTAATATATTTTATGTTCCTCTGGTTCTTCGATGGGATATGGAAGGGAATAATAAAAGCTTTCAT
40714 GCTCTATTGGTCTTTCAAGGGAATGTGCAGGAGATTTTGGTTTTTCAAAATGTCAAACCTCGATT
326 GCTCTATTGGTCTTTCAAGGGAATGTGCAGGAGATTTTGGTTTTTCAAAATGTCAAACCTCGATT
40779 TTCTTACACAGAATAATAAAATTTCATTTTAATAAACAAAAATTGTAATTAAATATCATATGTTG
391 TTCTTACACAGAATAATAAAATTTCATTTTAATAAACAAAAATTGTAATTAAATATCATATGTTG
40844 AAACCAGATAAAAATTAAAAGTTAAATTAGCACGTGATCAATAATCTTGGCACCACAAGAAGGTC
456 AAACCAGATAAAAATTAAAAGTTAAATTAGCACGTGATCAATAATCTTGGCACCACAAGAAGGTC
40909 GATCCTTACTTGTAGCTTCAACCAACTCCTGAACCCTTTAAGATGATCTCTAGTACTTCGTAGAT
521 GATCCTTACTTGTAGCTTCAACCAACTCCTGAACCCTTTAAGATGATCTCTAGTACTTCGTAGAT
40974 CTTGGGATTTATTTTTAGGGTTACGTAACCTTTCAAATATAAATTCCAACAAGTGACTAATCTCA
586 CTTGGGATTTATTTTTAGGGTTACGTAACCTTTCAAATATAAATTCCAACAAGTGACTAATCTCA
*
41039 ACTAGTACTTTTGTGTCTAAGGCGAGTCTTAGGTTCTTTATTTTCAATTTGAATACTTTTGTAAA
1 ACTAGTACTTTTGTGTCTAAGGCGAATCTTAGGTTCTTTATTTTCAATTTGAATACTTTTGTAAA
* * *
41104 ACAAAGGCAATGTCTCGAAACTAGAATAGTACATTAAATTTCTCCTATCCATATATATTAGAGGG
66 ACAAAGGCAATGTCTCAAAACTAGAATAGTACATGAAATTTCTCCCATCCATATATATTAGAGGG
41169 GTTTTACGGATTATTTTAATAACGGGATATCCTTTTCAAAATGAAAATAAAGAATTTTATGGCTT
131 GTTTTACGGATTATTTTAATAACGGGATATCCTTTTCAAAATG-AAATAAAGAATTTTATGGCTT
41234 TCGAAAAAATAAAAACCTTTCACATTCTTCCGATATTCCAGTAAGGTAAGAAAGACATTTTGATT
195 TCGAAAAAATAAAAACCTTTCACATTCTTCCGATATTCCAGTAAGGTAAGAAAGACATTTTGATT
*
41299 TCTAATATATTTTATGTTCCTCTGGTTCTTCGGTGGGATATGGAAGGGAATAATAAAAGCTTTCA
260 TCTAATATATTTTATGTTCCTCTGGTTCTTCGATGGGATATGGAAGGGAATAATAAAAGCTTTCA
*
41364 TGCTCTATTGGTCTTTCGAGGGAATGTGCAGGAGATTTTGGTTTTTCAAAATGTCAAACCTCGAT
325 TGCTCTATTGGTCTTTCAAGGGAATGTGCAGGAGATTTTGGTTTTTCAAAATGTCAAACCTCGAT
*
41429 TTTCTTACACGGAATAATAAAATTTCATTTTAATAAACAAAAATTGTAATTAAATATCATATGTT
390 TTTCTTACACAGAATAATAAAATTTCATTTTAATAAACAAAAATTGTAATTAAATATCATATGTT
41494 GAAACCAGATAAAAATTAAAAGTTAAATTAGCACGTGATCAATAATCTTGGCACCACAAGAAGGT
455 GAAACCAGATAAAAATTAAAAGTTAAATTAGCACGTGATCAATAATCTTGGCACCACAAGAAGGT
41559 CGATCCTTACTTGTAGCTTCAACCAACTCCTGAACCCTTTAAGATGATCTCTAGTACTTCGTAGA
520 CGATCCTTACTTGTAGCTTCAACCAACTCCTGAACCCTTTAAGATGATCTCTAGTACTTCGTAGA
41624 TCTTGGGATTTATTTTTAGGGTTACGTAACCTTTCAAATATAAATTCCAACAAGTGACTAATCTC
585 TCTTGGGATTTATTTTTAGGGTTACGTAACCTTTCAAATATAAATTCCAACAAGTGACTAATCTC
41689 GCCTAGCCGA
Statistics
Matches: 641, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
650 168 0.26
651 473 0.74
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (650 bp):
ACTAGTACTTTTGTGTCTAAGGCGAATCTTAGGTTCTTTATTTTCAATTTGAATACTTTTGTAAA
ACAAAGGCAATGTCTCAAAACTAGAATAGTACATGAAATTTCTCCCATCCATATATATTAGAGGG
GTTTTACGGATTATTTTAATAACGGGATATCCTTTTCAAAATGAAATAAAGAATTTTATGGCTTT
CGAAAAAATAAAAACCTTTCACATTCTTCCGATATTCCAGTAAGGTAAGAAAGACATTTTGATTT
CTAATATATTTTATGTTCCTCTGGTTCTTCGATGGGATATGGAAGGGAATAATAAAAGCTTTCAT
GCTCTATTGGTCTTTCAAGGGAATGTGCAGGAGATTTTGGTTTTTCAAAATGTCAAACCTCGATT
TTCTTACACAGAATAATAAAATTTCATTTTAATAAACAAAAATTGTAATTAAATATCATATGTTG
AAACCAGATAAAAATTAAAAGTTAAATTAGCACGTGATCAATAATCTTGGCACCACAAGAAGGTC
GATCCTTACTTGTAGCTTCAACCAACTCCTGAACCCTTTAAGATGATCTCTAGTACTTCGTAGAT
CTTGGGATTTATTTTTAGGGTTACGTAACCTTTCAAATATAAATTCCAACAAGTGACTAATCTCA
Found at i:43081 original size:164 final size:164
Alignment explanation
Indices: 42841--43285 Score: 461
Period size: 166 Copynumber: 2.7 Consensus size: 164
42831 AAATTTTTTT
* * * * *
42841 AAATATCATTATTCAATTACCATAAAATCAGTTTTTAAACATTCA-TTTATTTTCCTGAGTTTTT
1 AAATATCATCATTTAATTAACATTAAATCAGTTTTTAAA-ATTCATTTTA-TTTCATGAGTTTTT
*
42905 TATTTTTTCCTTGAAATCT-C-ATGTTCTTAAAATACGGAG-TTCCTACTCCATAAAT-ATTTTC
64 TATTTTTTCCTTGAAATCTCCTAT-TTC-CAAAATACGGAGTTTCCTACTCCATAAATGATTTTC
*
42966 GAGGGTATTTTTCTCAATTGAAAATTTTTAAAATTCATA
127 G-GGGGATTTTTCTCAATTGAAAATTTTTAAAATTCATA
* * *
43005 AAATATCATCATTTAATTAAAATTAAATCAGTTTTTCAAAATTCATTTTATTTCAAGAGTTTTAT
1 AAATATCATCATTTAATTAACATTAAATCAGTTTTT-AAAATTCATTTTATTTCATGAGTTTTTT
* * * ** * * *
43070 ATTTTTTCCTTGAAATTCTCCTATTTCCAAAATATGGAGTTTTCTATTTTATAATTGTTTTTTGG
65 ATTTTTTCCTTGAAA-TCTCCTATTTCCAAAATACGGAGTTTCCTACTCCATAAATGATTTTCGG
*** * * *
43135 GGGATTTTTCTTTGTTTATAATTTTTAAAATTCATC
129 GGGATTTTTCTCAATTGAAAATTTTTAAAATTCATA
* * * * *
43171 AAATATCATCATTTAATTCACATTAAATCAATTTTGAAAATTTCTTTTTATTTCATGATTTTTTT
1 AAATATCATCATTTAATTAACATTAAATCAGTTTTTAAAA-TTCATTTTATTTCATGAGTTTTTT
* * * *
43236 ATTTTTTTCTTGAAAT-TCTCTAATTTTCGAAATACGGAGTTTTCTACTCC
65 ATTTTTTCCTTGAAATCTC-CT-ATTTCCAAAATACGGAGTTTCCTACTCC
43286 GTAATCATTT
Statistics
Matches: 232, Mismatches: 39, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
164 65 0.28
165 27 0.12
166 133 0.57
167 7 0.03
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (164 bp):
AAATATCATCATTTAATTAACATTAAATCAGTTTTTAAAATTCATTTTATTTCATGAGTTTTTTA
TTTTTTCCTTGAAATCTCCTATTTCCAAAATACGGAGTTTCCTACTCCATAAATGATTTTCGGGG
GATTTTTCTCAATTGAAAATTTTTAAAATTCATA
Found at i:43294 original size:111 final size:110
Alignment explanation
Indices: 43178--43399 Score: 426
Period size: 111 Copynumber: 2.0 Consensus size: 110
43168 ATCAAATATC
43178 ATCATTTAATTCACATTAAATCAATTTTGAAAATTTCTTTTTATTTCATGATTTTTTTATTTTTT
1 ATCATTTAATTCACATTAAATCAATTTTGAAAATTTCTTTTTATTTCATGATTTTTTTA-TTTTT
*
43243 TCTTGAAATTCTCTAATTTTCGAAATACGGAGTTTTCTACTCCGTA
65 TCTTGAAATTCTCTAATTTTCAAAATACGGAGTTTTCTACTCCGTA
43289 ATCATTTAATTCACATTAAATCAATTTTGAAAATTTCTTTTTATTTCATGATTTTTTTATTTTTT
1 ATCATTTAATTCACATTAAATCAATTTTGAAAATTTCTTTTTATTTCATGATTTTTTTATTTTTT
43354 CTTGAAATTCTCTAATTTTCAAAATACGGAGTTTTCTACTCCGTA
66 CTTGAAATTCTCTAATTTTCAAAATACGGAGTTTTCTACTCCGTA
43399 A
1 A
43400 ATGTTTACGG
Statistics
Matches: 110, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 51 0.46
111 59 0.54
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.51
Consensus pattern (110 bp):
ATCATTTAATTCACATTAAATCAATTTTGAAAATTTCTTTTTATTTCATGATTTTTTTATTTTTT
CTTGAAATTCTCTAATTTTCAAAATACGGAGTTTTCTACTCCGTA
Found at i:45123 original size:5 final size:5
Alignment explanation
Indices: 45113--45159 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
45103 TTAAAGATGA
*
45113 TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TTATG TT
1 TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TT
45160 CACTCCCAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.02, C:0.00, G:0.36, T:0.62
Consensus pattern (5 bp):
TTGTG
Found at i:47875 original size:29 final size:29
Alignment explanation
Indices: 47793--47885 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
47783 TTCTGTTATC
* * * *
47793 TAAATAAAATTTTAATTATTAAGT-TATC
1 TAAATAAATTTTTAATTTTTAATTATATT
*
47821 TAAATAAATTTTTATATTTTT-GTTATATT
1 TAAATAAATTTTTA-ATTTTTAATTATATT
*
47850 TGAATAAATTTTTAATTTTTAATTATACTT
1 TAAATAAATTTTTAATTTTTAATTATA-TT
*
47880 TTAATA
1 TAAATA
47886 TTTAACTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 20 0.38
29 26 0.49
30 7 0.13
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TAAATAAATTTTTAATTTTTAATTATATT
Found at i:47883 original size:19 final size:20
Alignment explanation
Indices: 47859--47896 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
47849 TTGAATAAAT
*
47859 TTTTAATTTTTAA-TTATAC
1 TTTTAATATTTAACTTATAC
47878 TTTTAATATTTAACTTATA
1 TTTTAATATTTAACTTATA
47897 TCTAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAATATTTAACTTATAC
Found at i:48965 original size:14 final size:16
Alignment explanation
Indices: 48935--48967 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
48925 TTTATTATCT
48935 TTTTAAATATTTATTA
1 TTTTAAATATTTATTA
48951 TTTTAAAT-TTT-TTA
1 TTTTAAATATTTATTA
48965 TTT
1 TTT
48968 ATATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 3 0.18
16 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTAAATATTTATTA
Found at i:48974 original size:20 final size:20
Alignment explanation
Indices: 48942--48981 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
48932 TCTTTTTAAA
48942 TATTTATTATTTTAAATTTTT
1 TATTTATTATTTT-AATTTTT
48963 TATTTA-TATTTTAATTTTT
1 TATTTATTATTTTAATTTTT
48982 ATCCTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 6 0.32
21 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTATTATTTTAATTTTT
Found at i:52862 original size:32 final size:32
Alignment explanation
Indices: 52826--53625 Score: 521
Period size: 32 Copynumber: 25.0 Consensus size: 32
52816 CTCAAAATCT
* * * *
52826 ACACAAGTTAGTGGCAACCTCTTTTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * *
52858 ACACAAATTGGTGGCGACCTCTTCTGAAACCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* ** *
52890 ATACGAGTTGGTGATGACCTCTTCCTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * * *
52922 ACATGAGTTAGTGGTGACCTCTTTTTAAGCCT
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * **
52954 ACATGAGTTGGTGGTGACCTTTTCTTAAGCTA
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * *
52986 ACACAAGTTGGTGGTGACCTCTTTTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * *
53018 ACATGAGTTGGTGGTGACCTCTTCTTAAACCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * *
53050 ACATGAGTTGATGG-GACCTCTTTTTAAACCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
*
53081 ACACGAGTTAGTGG-GACCTCTTCTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* *
53112 ACACGACTTGGTGGCGACCTATTCTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * *
53144 TCA--A------GGCGACCTCTTCTCAAGCTC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
** *
53168 ACACGAGTTGGTGGTAACCTTTTCTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * * *
53200 ACACGAGTTGGTGACAACCCCTTTTTAAGCCG
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* *
53232 ACATGAGTTGGTGGCGA-CTCCTTCTTAAACCC
1 ACACGAGTTGGTGGCGACCT-CTTCTTAAGCCC
* * *
53264 ACATGAGTTGGTGGCAACCTCTTTTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * *
53296 ATACGAGTTGGTGACGATCTCTTCTTAAGCCT
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * *
53328 ACACGAGTTAGTGGTGACCTCTTCTAAAGCCT
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * * *
53360 GCATGAGTTGGTGGTGACCTCTTTTTAAGCCT
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * *
53392 GCACGAGTTGGTGGCGATCTC-TCTTTAAGCTC
1 ACACGAGTTGGTGGCGACCTCTTC-TTAAGCCC
**** * ** * *
53424 GTGTGAATTGGTGTTGACCCCTTCTTAAGCTC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* ** ** *
53456 GCATAAGTTGGTAACAACC-CTTCTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* * * * *
53487 GCATGAGTTAGTGAAAATTGGTCGCGACCTCTTTTTAGGTCC
1 ACACGAGTT-G-G-----T-G--GCGACCTCTTCTTAAGCCC
* * **
53529 ACACGAGTTGGTGCCGACCTCTTTTTAAGTAC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
* *
53561 ACACG-GATTGGTGGCGATCTTTTCTTAAGCCC
1 ACACGAG-TTGGTGGCGACCTCTTCTTAAGCCC
* * *
53593 ACACGAGTTGGTAGCGACCTTTTTTTAAGCCC
1 ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
53625 A
1 A
53626 TATGAGTCGA
Statistics
Matches: 608, Mismatches: 134, Indels: 52
0.77 0.17 0.07
Matches are distributed among these distances:
24 19 0.03
26 1 0.00
30 1 0.00
31 76 0.12
32 480 0.79
33 6 0.01
34 1 0.00
35 1 0.00
38 1 0.00
40 1 0.00
41 5 0.01
42 16 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (32 bp):
ACACGAGTTGGTGGCGACCTCTTCTTAAGCCC
Found at i:53182 original size:214 final size:216
Alignment explanation
Indices: 52958--53358 Score: 565
Period size: 214 Copynumber: 1.9 Consensus size: 216
52948 AAGCCTACAT
* * *** *
52958 GAGTTGGTGGTGACCTTTTCTTAAGCTAACACAAGTTGGTGGTGACCTCTTTTTAAGCCCACATG
1 GAGTTGGTGGTAACCTTTTCTTAAGCCAACACAAGTTGGTGACAACCCCTTTTTAAGCCCACATG
* *
53023 AGTTGGTGGTGAC-CTCTTCTTAAACCCACATGAGTTGATGG-GACCTCTTTTTAAACCCACACG
66 AGTTGGTGGCGACTC-CTTCTTAAACCCACATGAGTTGATGGCAACCTCTTTTTAAACCCACACG
* * *
53086 AGTTAGTG-GGACCTCTTCTTAAGCCCACACGACTTGGTGGCGACCTATTCTTAAGCCCTCAAGG
130 AGTTAGTGACGACCTCTTCTTAAGCCCACACGACTTAGTGGCGACCTATTCTAAAGCCCTCAAGG
53150 CGACCTCTTCTCAAGCTCACAC
195 CGACCTCTTCTCAAGCTCACAC
* * *
53172 GAGTTGGTGGTAACCTTTTCTTAAGCCCACACGAGTTGGTGACAACCCCTTTTTAAGCCGACATG
1 GAGTTGGTGGTAACCTTTTCTTAAGCCAACACAAGTTGGTGACAACCCCTTTTTAAGCCCACATG
* * *
53237 AGTTGGTGGCGACTCCTTCTTAAACCCACATGAGTTGGTGGCAACCTCTTTTTAAGCCCATACGA
66 AGTTGGTGGCGACTCCTTCTTAAACCCACATGAGTTGATGGCAACCTCTTTTTAAACCCACACGA
* * * * * *
53302 GTTGGTGACGATCTCTTCTTAAGCCTACACGAGTTAGTGGTGACCTCTTCTAAAGCC
131 GTTAGTGACGACCTCTTCTTAAGCCCACACGACTTAGTGGCGACCTATTCTAAAGCC
53359 TGCATGAGTT
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
214 93 0.58
215 27 0.17
216 41 0.25
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (216 bp):
GAGTTGGTGGTAACCTTTTCTTAAGCCAACACAAGTTGGTGACAACCCCTTTTTAAGCCCACATG
AGTTGGTGGCGACTCCTTCTTAAACCCACATGAGTTGATGGCAACCTCTTTTTAAACCCACACGA
GTTAGTGACGACCTCTTCTTAAGCCCACACGACTTAGTGGCGACCTATTCTAAAGCCCTCAAGGC
GACCTCTTCTCAAGCTCACAC
Found at i:53259 original size:120 final size:118
Alignment explanation
Indices: 53033--53249 Score: 265
Period size: 118 Copynumber: 1.8 Consensus size: 118
53023 AGTTGGTGGT
* * * **
53033 GACCTCTTCTTAAACCCACATGAGTTGATGGGACCTCTTTTTAAACCCACACGAGTTAGTGGGAC
1 GACCTCTTCTCAAACCCACACGAGTTGATGGAACCTCTTTTTAAACCCACACGAGTTAGTGCAAC
*
53098 CTCTTCTTAAGCCCACACGACTTGGTGGCGACCTATTCTTAAGCCCTCAAGGC
66 CCCTTCTTAAGCCCACACGACTTGGTGGCGACCTATTCTTAAGCCCTCAAGGC
* * * * *
53151 GACCTCTTCTCAAGCTCACACGAGTTGGTGGTAACCT-TTTCTTAAGCCCACACGAGTTGGTGAC
1 GACCTCTTCTCAAACCCACACGAGTTGATGG-AACCTCTTT-TTAAACCCACACGAGTTAGTG-C
* * * *
53215 AACCCCTTTTTAAGCCGACATGAGTTGGTGGCGAC
63 AACCCCTTCTTAAGCCCACACGACTTGGTGGCGAC
53250 TCCTTCTTAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
118 29 0.36
119 23 0.28
120 29 0.36
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (118 bp):
GACCTCTTCTCAAACCCACACGAGTTGATGGAACCTCTTTTTAAACCCACACGAGTTAGTGCAAC
CCCTTCTTAAGCCCACACGACTTGGTGGCGACCTATTCTTAAGCCCTCAAGGC
Found at i:53722 original size:35 final size:35
Alignment explanation
Indices: 53680--53770 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
53670 TGGTAGTAAC
*
53680 CAAACCTTTTCTAAGGTCCACATAAGTCAATGGCA
1 CAAACCTTTTCTAAAGTCCACATAAGTCAATGGCA
* * **
53715 CAAACCTTTTCCAAAGTCCATATAAGTCGGTGGCA
1 CAAACCTTTTCTAAAGTCCACATAAGTCAATGGCA
* *
53750 TAATCCTTTT-TAAAGTCCACA
1 CAAACCTTTTCTAAAGTCCACA
53771 CTATCTGATG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 9 0.19
35 38 0.81
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (35 bp):
CAAACCTTTTCTAAAGTCCACATAAGTCAATGGCA
Found at i:57228 original size:20 final size:19
Alignment explanation
Indices: 57182--57240 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
57172 ATGTATCAAT
57182 ACATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
*
57201 TCATTGTATCGATACAT-A
1 ACATTGTATCGATACATGA
*
57219 CACAATTGTATCGGTACATGA
1 -AC-ATTGTATCGATACATGA
57240 A
1 A
57241 ACTGGTAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.50
20 15 0.44
21 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:57950 original size:78 final size:76
Alignment explanation
Indices: 57794--57956 Score: 220
Period size: 78 Copynumber: 2.1 Consensus size: 76
57784 GACCTCAAGA
* *
57794 ATACTCCAACCCCACTCTTCAAAATTTATCTAGATTTGAACTCTTCATTTGTCAAAAGTGTTTGT
1 ATACTCCAACCCCACTCTTCAAAATTTATCAAGATTTGAACTCTTCATTTGTCAAAAGTATTTGT
* *
57859 TATCTATGGGG
66 TATCCATAGGG
** * *
57870 ATACTCCAACCCCGTTCTTCAAAATTTATCAAGATTTTTGAACTCATT-TTTTGTCAAAATTATT
1 ATACTCCAACCCCACTCTTCAAAATTTATCAAGA--TTTGAACTC-TTCATTTGTCAAAAGTATT
57934 TGTTATCCATAGGG
63 TGTTATCCATAGGG
57948 ATACTCCAA
1 ATACTCCAA
57957 TCATATCTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 31 0.41
78 43 0.57
79 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (76 bp):
ATACTCCAACCCCACTCTTCAAAATTTATCAAGATTTGAACTCTTCATTTGTCAAAAGTATTTGT
TATCCATAGGG
Found at i:77847 original size:18 final size:18
Alignment explanation
Indices: 77826--77866 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
77816 CGCAAAATGA
77826 AAAAAAAAACAAAAAAAC
1 AAAAAAAAACAAAAAAAC
** *
77844 AAAAAAAATGAAAAAAAT
1 AAAAAAAAACAAAAAAAC
77862 AAAAA
1 AAAAA
77867 GGAGGGAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAC
Found at i:79502 original size:32 final size:32
Alignment explanation
Indices: 79466--79563 Score: 119
Period size: 32 Copynumber: 3.0 Consensus size: 32
79456 CCAGTGGAGA
*
79466 AACCCTTCTTAAAGCCCACACAAG-TCAGTGTC
1 AACCCTTCTTAAAGCCCACACAAGCT-AGTGGC
* *
79498 AACCCTTTCTTAAAGCCCATACAAGCTGGTGGC
1 AACCC-TTCTTAAAGCCCACACAAGCTAGTGGC
*
79531 AACCCTT-TCAAAAGCCCACACAAGCTAGTGGC
1 AACCCTTCT-TAAAGCCCACACAAGCTAGTGGC
79563 A
1 A
79564 TCTTCTTCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
31 1 0.02
32 28 0.49
33 27 0.47
34 1 0.02
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.20
Consensus pattern (32 bp):
AACCCTTCTTAAAGCCCACACAAGCTAGTGGC
Found at i:79510 original size:33 final size:33
Alignment explanation
Indices: 79466--79563 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 33
79456 CCAGTGGAGA
*
79466 AACCC-TTCTTAAAGCCCACACAAG-TCAGTGTC
1 AACCCTTTCTTAAAGCCCACACAAGCT-AGTGGC
* *
79498 AACCCTTTCTTAAAGCCCATACAAGCTGGTGGC
1 AACCCTTTCTTAAAGCCCACACAAGCTAGTGGC
*
79531 AACCCTTTC-AAAAGCCCACACAAGCTAGTGGC
1 AACCCTTTCTTAAAGCCCACACAAGCTAGTGGC
79563 A
1 A
79564 TCTTCTTCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 26 0.45
33 31 0.53
34 1 0.02
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.20
Consensus pattern (33 bp):
AACCCTTTCTTAAAGCCCACACAAGCTAGTGGC
Found at i:79754 original size:52 final size:52
Alignment explanation
Indices: 79631--80069 Score: 399
Period size: 52 Copynumber: 8.8 Consensus size: 52
79621 CATCTCTTTC
* * *
79631 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT---TTC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
* * **
79679 TAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
* * *
79731 TAAGTCCAATGTCGTTGGCCTTGAATCAG--TA----CA---TTAGCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
* * *
79774 TAAGTCCAATATTGCTGGCCTTAAATCAGCATATTGGCACCTTTACCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
* * * *
79826 TAAGTCCAATATCGTTAGCCTCGAATCAGCATATTGGCACCTTTACCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
* * *
79878 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
* * *
79930 TAAGTCCAATATCACTAGCCTTGAATCAGCACATTGGCACCTTT---ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
** * ** * * * * *
79979 TGGGTCCGATATCATTGGCCTTGAATTAGCATATTGACATCTTTAACAT-TAC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCT-T
* * * * * *
80031 TAAGCCCAATCTCGTTAGCCTTTAATCAGCACATTGGCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
80070 TTCTTCTTAT
Statistics
Matches: 322, Mismatches: 52, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
43 33 0.10
45 2 0.01
46 2 0.01
48 40 0.12
49 42 0.13
50 2 0.01
51 3 0.01
52 198 0.61
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (52 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTT
Found at i:79818 original size:43 final size:43
Alignment explanation
Indices: 79728--79818 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
79718 CCTTTGTCAT
* * * * *
79728 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGTACATTAGCAT
1 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCAC
* * *
79771 CTTTAAGTCCAATATTGCTGGCCTTAAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCAC
79814 CTTTA
1 CTTTA
79819 CCACCTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTAGCAC
Found at i:80051 original size:101 final size:102
Alignment explanation
Indices: 79629--80179 Score: 370
Period size: 104 Copynumber: 5.5 Consensus size: 102
79619 ACCATCTCTT
* * * **
79629 TCTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-TTC-TTAAGTCCAATATC
1 TCTAAGTCCAATATCGTTAGCCTTGAATCAGCACATTGGCACCTTTCACCTTTAAGTCCAATATC
** * * * * **
79692 GCTAGCCTTGAATCAACATATTGGCACCTTTGTCATC
66 ATTGGCCTTGAATCAGCACATTGACACCTTTAACATC
* * * * * *
79729 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGTACATTAGCA----T---CTTTAAGTCCAATATT
1 TCTAAGTCCAATATCGTTAGCCTTGAATCAGCACATTGGCACCTTTCACCTTTAAGTCCAATATC
** * * * * *
79787 GCTGGCCTTAAATCAGCATATTGGCACCTTTACCACC
66 ATTGGCCTTGAATCAGCACATTGACACCTTTAACATC
* * * *
79824 TTTAAGTCCAATATCGTTAGCCTCGAATCAGCATATTGGCACCTTTACCACCTTTAAGTCCAATG
1 TCTAAGTCCAATATCGTTAGCCTTGAATCAGCACATTGGCACCTTT--CACCTTTAAGTCCAATA
* * *
79889 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTACCATC
64 TCATTGGCCTTGAATCAGCACATTGACACCTTTAACATC
* ** * ** *
79928 TTTAAGTCCAATATCACTAGCCTTGAATCAGCACATTGGCACCTTT-ATCTTTGGGTCCGATATC
1 TCTAAGTCCAATATCGTTAGCCTTGAATCAGCACATTGGCACCTTTCACCTTTAAGTCCAATATC
* * *
79992 ATTGGCCTTGAATTAGCATATTGACATCTTTAACAT-
66 ATTGGCCTTGAATCAGCACATTGACACCTTTAACATC
* * * * * * * *
80028 TACTAAGCCCAATCTCGTTAGCCTTTAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTAAT
1 T-CTAAGTCCAATATCGTTAGCCTTGAATCAGCACATTGGCA-CCTT-TCACCTTTAAGTCCAAT
* * * * * * **
80093 GTCATTGACCGTGAATTAGTACATTGACA-TTCTTCGCATC
63 ATCATTGGCCTTGAATCAGCACATTGACACCT-TTAACATC
* * * * * * *
80133 TTTAAGCCCAATATCGATGGTCTTGAATCAGTATATTGGCACCTTTC
1 TCTAAGTCCAATATCGTTAGCCTTGAATCAGCACATTGGCACCTTTC
80180 TCATCCTTAT
Statistics
Matches: 367, Mismatches: 68, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
94 1 0.00
95 79 0.22
96 1 0.00
99 1 0.00
100 38 0.10
101 77 0.21
102 4 0.01
103 5 0.01
104 160 0.44
105 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (102 bp):
TCTAAGTCCAATATCGTTAGCCTTGAATCAGCACATTGGCACCTTTCACCTTTAAGTCCAATATC
ATTGGCCTTGAATCAGCACATTGACACCTTTAACATC
Found at i:80950 original size:51 final size:50
Alignment explanation
Indices: 80834--80967 Score: 178
Period size: 50 Copynumber: 2.7 Consensus size: 50
80824 TTTTACTGTT
* * **
80834 TGTATTGATACATTATTTATTGTATCAATATGTTCTAGGTTTTCACCAGA
1 TGTATCGATACATTATTTATTGTATCGATACATTCTAGGTTTTCACCAGA
* * *
80884 TGTATCGATACATTATTCATTGTATCGATACATTTTAGGTTTTTACCTAGA
1 TGTATCGATACATTATTTATTGTATCGATACATTCTAGGTTTTCACC-AGA
* *
80935 TGTATCGATAAATTATTTAATGTATCGATACAT
1 TGTATCGATACATTATTTATTGTATCGATACAT
80968 GTAGACAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 40 0.55
51 33 0.45
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (50 bp):
TGTATCGATACATTATTTATTGTATCGATACATTCTAGGTTTTCACCAGA
Found at i:82350 original size:44 final size:44
Alignment explanation
Indices: 82287--82376 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
82277 GCTCAGACCA
82287 CTCTCTCATTCTTGTCATGGATGTTCGGATGTCCATGACTCAAG
1 CTCTCTCATTCTTGTCATGGATGTTCGGATGTCCATGACTCAAG
* *
82331 CTCTCTCATTTTTGTCATGGATGTTCGGATGTCCATGACTCGAG
1 CTCTCTCATTCTTGTCATGGATGTTCGGATGTCCATGACTCAAG
82375 CT
1 CT
82377 TTAGACCCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (44 bp):
CTCTCTCATTCTTGTCATGGATGTTCGGATGTCCATGACTCAAG
Found at i:82705 original size:21 final size:21
Alignment explanation
Indices: 82666--82705 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
82656 CACTAGATGG
*
82666 TTTTTCCAAATTTTATCATCA
1 TTTTTCCAAATATTATCATCA
82687 TTTTTCCTAAATATT-TCAT
1 TTTTTCC-AAATATTATCAT
82706 GAAATTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTCCAAATATTATCATCA
Found at i:86706 original size:24 final size:24
Alignment explanation
Indices: 86679--86732 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
86669 GGTTTGATTG
* *
86679 TCATCGACAATTCTTGCCTTTGGA
1 TCATCCACAATTCTTGCCTTTAGA
***
86703 TCATCCTTTATTCTTGCCTTTAGA
1 TCATCCACAATTCTTGCCTTTAGA
86727 TCATCC
1 TCATCC
86733 TTTCAAAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.43
Consensus pattern (24 bp):
TCATCCACAATTCTTGCCTTTAGA
Found at i:86733 original size:24 final size:24
Alignment explanation
Indices: 86688--86735 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
86678 GTCATCGACA
*
86688 ATTCTTGCCTTTGGATCATCCTTT
1 ATTCTTGCCTTTAGATCATCCTTT
86712 ATTCTTGCCTTTAGATCATCCTTT
1 ATTCTTGCCTTTAGATCATCCTTT
86736 CAAAAGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.25, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTCTTGCCTTTAGATCATCCTTT
Found at i:89723 original size:33 final size:32
Alignment explanation
Indices: 89661--89725 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
89651 ACAATTGTGC
* * *
89661 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTAGCGATACA
*
89693 ATGTATTGATACAAAGCATAATGTAGCGATACA
1 ATGTATCGATACAAAG-ATAATGTAGCGATACA
89726 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTAGCGATACA
Found at i:90538 original size:21 final size:21
Alignment explanation
Indices: 90496--90539 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
90486 GCTATATTTT
90496 CAAATATGCATCGATACATCA
1 CAAATATGCATCGATACATCA
*
90517 CAAAT-TGTATCGATACATTCA
1 CAAATATGCATCGATACA-TCA
90538 CA
1 CA
90540 CGGGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (21 bp):
CAAATATGCATCGATACATCA
Found at i:93463 original size:53 final size:52
Alignment explanation
Indices: 93392--93779 Score: 242
Period size: 52 Copynumber: 7.4 Consensus size: 52
93382 GAAATAACGA
* *
93392 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTAGAAATAAAATCGG
* * ** *
93445 AGCTGGAGTATCCCCGATT-AAAAGAAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA-AAAATTGGTGTTTTAGAAATAAAATCGG
* * *
93497 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGG
* * *** * *
93549 GGTTGGAGTATCCCCGATTATG-AGAAATCAATATTTTA-AGAAT-AAAGCAGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGA-AATAAAATC-GG
* * * * ** * *
93600 GGTTGGAGTATCCCC--TCG-GAAATAA-CGGGGTTGGAGTATCCCCGATGATTAA-CGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAG-A-----AAT-A-AAATCGG
* *
93655 GGTTGGAGTATCCCCGATTGTGAAAAATTTGTGTTTTTTTTA-AAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTG-G--TGTTTTAGAAATAAAATCGG
* * * *
93709 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTT-GAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAG-AAATAAAATCGG
* * *
93760 AGATGGAATATCCCCGATTG
1 GGTTGGAGTATCCCCGATTG
93780 CGGAGAATTG
Statistics
Matches: 257, Mismatches: 54, Indels: 50
0.71 0.15 0.14
Matches are distributed among these distances:
48 5 0.02
49 4 0.02
50 10 0.04
51 61 0.24
52 82 0.32
53 35 0.14
54 25 0.10
55 19 0.07
56 1 0.00
57 4 0.02
58 5 0.02
59 1 0.00
60 2 0.01
62 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGG
Found at i:93660 original size:27 final size:28
Alignment explanation
Indices: 93598--93672 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
93588 GAATAAAGCA
***
93598 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
93626 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
93653 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
93673 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:93743 original size:54 final size:51
Alignment explanation
Indices: 93656--93778 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
93646 GATTAACGGG
* * *
93656 GTTGGAGTATCCCCGATTGTGAAAAATTTGTGTTTTTTTTAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG---TTTTGAAAATAAAATCGGA
93710 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
* *
93761 GATGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
93779 GCGGAGAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.54
53 1 0.02
54 28 0.44
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:96160 original size:13 final size:13
Alignment explanation
Indices: 96142--96167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96132 ACAAAGATCC
96142 ATGTATCGATACA
1 ATGTATCGATACA
96155 ATGTATCGATACA
1 ATGTATCGATACA
96168 CAGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:96182 original size:33 final size:33
Alignment explanation
Indices: 96121--96187 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
96111 AAAATTTCCA
*** *
96121 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATATATCGATAC
*
96154 AATGTATCGATACACAGAAAAATATATCGATAC
1 AATGTATCGATACAAAGAAAAATATATCGATAC
96187 A
1 A
96188 TTTTCTTGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATATATCGATAC
Found at i:96231 original size:19 final size:18
Alignment explanation
Indices: 96207--96274 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
96197 TAGTAGCTAA
96207 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
96226 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
96241 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
96258 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
96275 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:96247 original size:13 final size:13
Alignment explanation
Indices: 96229--96253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96219 ACAATACTTA
96229 TGTATCGATACAT
1 TGTATCGATACAT
96242 TGTATCGATACA
1 TGTATCGATACA
96254 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:96251 original size:32 final size:32
Alignment explanation
Indices: 96210--96272 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
96200 TAGCTAATTA
*
96210 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
96242 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
96273 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:97173 original size:55 final size:55
Alignment explanation
Indices: 97101--98058 Score: 1049
Period size: 55 Copynumber: 17.0 Consensus size: 55
97091 TTTGAAAAAA
* *
97101 GTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
*
97156 GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTACTCTTTGAGGACTGGAAA-
1 GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAAG
* * *
97211 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTAAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* * * *
97266 GTGCCACTAACTTTTGTAGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* *
97321 GTGCCACTAACTTTTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGA-G---G--A-
1 GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGAAAG
* *
97369 -TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGATTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* * *
97423 GTGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCT-TTTTAGGGACGGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGA-GGACTGAAAG
* * *
97478 GTGCCACCAACTTATGTGGGCTTTGAAAGAAAAGGCGTCCCGCTCTTTGAGGACTAGAAA-
1 GTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACT-GAAAG
*
97538 GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG-AAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* *
97592 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-
1 GTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACT-GAAAG
*
97653 GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG-AAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* *
97707 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-
1 GTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACT-GAAAG
*
97768 GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG-AAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* *
97822 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-
1 GTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACT-GAAAG
*
97883 GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG-AAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* * * *
97937 GTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCGTCCTACTCTTTGAGGACTGGGAA-
1 GTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACT-GAAAG
* *
97998 GTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAG
1 GTGCCACCAACTTGTGTGGGCTTT-----GAAAGGTGTCCTGCTCTTTGAGGACT-GAAAG
98059 TGGAAGGAGA
Statistics
Matches: 792, Mismatches: 52, Indels: 112
0.83 0.05 0.12
Matches are distributed among these distances:
47 38 0.05
48 3 0.00
49 1 0.00
51 2 0.00
53 9 0.01
54 110 0.14
55 338 0.43
56 9 0.01
59 5 0.01
60 157 0.20
61 112 0.14
62 8 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (55 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
Found at i:97256 original size:26 final size:26
Alignment explanation
Indices: 97227--97364 Score: 82
Period size: 26 Copynumber: 5.1 Consensus size: 26
97217 CCAACTTGTG
97227 TGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGGGCTTTGAAAGGTGTCCTGCTCTT
*** * * *
97253 TGGGGACTAAAAGGTGCCACTAACT-TT
1 TGGGCTTTGAAAGGTGTC-CT-GCTCTT
97280 TGTAGGCTTTGAAAGGTGTCCTGCTCTT
1 TG--GGCTTTGAAAGGTGTCCTGCTCTT
*** * * *
97308 TGGGGACTGAAAGGTGCCACTAACTTTT
1 TGGGCTTTGAAAGGTGTC-CT-GCTCTT
97336 GTGGGCTTT-AAGAGGTGTCCTGCTCTT
1 -TGGGCTTTGAA-AGGTGTCCTGCTCTT
97363 TG
1 TG
97365 AGGATGCCAC
Statistics
Matches: 79, Mismatches: 24, Indels: 18
0.65 0.20 0.15
Matches are distributed among these distances:
26 27 0.34
27 14 0.18
28 16 0.20
29 22 0.28
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (26 bp):
TGGGCTTTGAAAGGTGTCCTGCTCTT
Found at i:97294 original size:29 final size:29
Alignment explanation
Indices: 97150--97352 Score: 96
Period size: 28 Copynumber: 7.3 Consensus size: 29
97140 CTTTGAGGAC
* *
97150 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACTAACTTTTGTGGGCTT
* * *
97179 T-AAGAGGTGTC-CT-ACTCTTTGAGGAC-T
1 TGAA-AGGTGCCACTAACT-TTTGTGGGCTT
* * * *
97206 GGAAA-ATGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACTAACTTTTGTGGGCTT
* *
97234 TGAAAGGTGTC-CT-GCTCTTTG-GGGAC--
1 TGAAAGGTGCCACTAACT-TTTGTGGG-CTT
* *
97260 TAAAAGGTGCCACTAACTTTTGTAGGCTT
1 TGAAAGGTGCCACTAACTTTTGTGGGCTT
* *
97289 TGAAAGGTGTC-CT-GCTCTTTG-GGGAC--
1 TGAAAGGTGCCACTAACT-TTTGTGGG-CTT
97315 TGAAAGGTGCCACTAACTTTTGTGGGCTT
1 TGAAAGGTGCCACTAACTTTTGTGGGCTT
97344 T-AAGAGGTG
1 TGAA-AGGTG
97353 TCCTGCTCTT
Statistics
Matches: 124, Mismatches: 28, Indels: 44
0.63 0.14 0.22
Matches are distributed among these distances:
26 22 0.18
27 35 0.28
28 42 0.34
29 25 0.20
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (29 bp):
TGAAAGGTGCCACTAACTTTTGTGGGCTT
Found at i:97450 original size:29 final size:29
Alignment explanation
Indices: 97369--97452 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 29
97359 TCTTTGAGGA
97369 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
** * *
97398 TGTCCTGC-TCTT-TG-GGG-ATTGAAAGG
1 TG-CCACCAACTTGTGTGGGCTTTGAAAGG
97424 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
97453 GGTCCTGCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
25 3 0.07
26 13 0.31
27 5 0.12
28 5 0.12
29 13 0.31
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:97567 original size:115 final size:115
Alignment explanation
Indices: 97099--98053 Score: 1284
Period size: 115 Copynumber: 8.5 Consensus size: 115
97089 TCTTTGAAAA
* * *
97099 AAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACC
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG-AAGGTGCCACC
* * *
97164 AACTTGTGTGGGCTTT---A--AG-AGGTGTCCTACTCTTTGAGGACTGGA
65 AACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
* * * * *
97209 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTAAAAGGTGCCACT
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACC
* * * * *
97274 AACTTTTGTAGGCTTT-----GA-AAGGTGTCCTGCTCTTTGGGGACT-GA
65 AACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
* * *
97318 AAGGTGCCACTAACTTTTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGA-G---G-A--TGCCACC
1 AA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACC
* * * *
97376 AACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGGGGA-TTGA
65 AACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
* * * *
97420 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCT-TTTTAGGGACGGAAAGGTGCCA
1 AA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA-GGACTG-AAGGTGCCA
* * * * * *
97484 CCAACTTATGTGGGCTTTGAAA-GAAAAGGCGTCCCGCTCTTTGAGGACTAGA
63 CCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
97536 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
97601 ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
66 ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
97651 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
97716 ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
66 ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
97766 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
97831 ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
66 ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
97881 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
* *
97946 ACTTGTGTAGGCTTTAAAAGGAGAAGGCGTCCTACTCTTTGAGGACTGGG
66 ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
*
97996 AAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCTGCTCTTTGAGGACTG
98054 GAAAGTGGAA
Statistics
Matches: 774, Mismatches: 44, Indels: 44
0.90 0.05 0.05
Matches are distributed among these distances:
101 5 0.01
102 83 0.11
103 1 0.00
104 1 0.00
106 1 0.00
108 1 0.00
109 5 0.01
110 155 0.20
114 31 0.04
115 456 0.59
116 9 0.01
120 26 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (115 bp):
AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCA
ACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
Found at i:99029 original size:1 final size:1
Alignment explanation
Indices: 99019--99083 Score: 67
Period size: 1 Copynumber: 65.0 Consensus size: 1
99009 CTTAAGCAGA
* * * * * * *
99019 TTTTTCTTTTTTTTTTTTTCTTTGTTTTGTTTTTTTTTTTTTTGTTTTTTTTCTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
99084 GAAGAGAAGG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.06, G:0.05, T:0.89
Consensus pattern (1 bp):
T
Found at i:99046 original size:24 final size:23
Alignment explanation
Indices: 99019--99083 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
99009 CTTAAGCAGA
99019 TTTTTCTTTTTTTTTTTTTCTTT
1 TTTTTCTTTTTTTTTTTTTCTTT
*
99042 GTTTTGT-TTTTTTTTTTTTTGTTT
1 -TTTT-TCTTTTTTTTTTTTTCTTT
*
99066 TTTTTCTTTTTCTTTTTT
1 TTTTTCTTTTTTTTTTTT
99084 GAAGAGAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 15 0.41
24 20 0.54
25 1 0.03
ACGTcount: A:0.00, C:0.06, G:0.05, T:0.89
Consensus pattern (23 bp):
TTTTTCTTTTTTTTTTTTTCTTT
Found at i:99053 original size:20 final size:19
Alignment explanation
Indices: 99025--99080 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
99015 CAGATTTTTC
99025 TTTTTTTTTTTTTCTTTGT
1 TTTTTTTTTTTTTCTTTGT
*
99044 TTTGTTTTTTTTTTTTTTGT
1 TTT-TTTTTTTTTTCTTTGT
*
99064 TTTTTTTCTTTTTCTTT
1 TTTTTTTTTTTTTCTTT
99081 TTTGAAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (19 bp):
TTTTTTTTTTTTTCTTTGT
Found at i:107070 original size:27 final size:27
Alignment explanation
Indices: 107037--107090 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
107027 AAAAAATCAC
107037 ATTTTGGTCCAAATGTATCGATACATT
1 ATTTTGGTCCAAATGTATCGATACATT
107064 ATTTTGGTCCAAATGTATCGATACATT
1 ATTTTGGTCCAAATGTATCGATACATT
107091 GTTATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (27 bp):
ATTTTGGTCCAAATGTATCGATACATT
Found at i:107184 original size:33 final size:33
Alignment explanation
Indices: 107147--107213 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
107137 TTCAACGATT
107147 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
107180 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
107213 T
1 T
107214 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:107185 original size:13 final size:13
Alignment explanation
Indices: 107167--107191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107157 CATAAAATGT
107167 TGTATCGATACAA
1 TGTATCGATACAA
107180 TGTATCGATACA
1 TGTATCGATACA
107192 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:107272 original size:13 final size:13
Alignment explanation
Indices: 107254--107278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107244 ATTACTCAAA
107254 TGTATCGATACAT
1 TGTATCGATACAT
107267 TGTATCGATACA
1 TGTATCGATACA
107279 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:107329 original size:51 final size:53
Alignment explanation
Indices: 107267--107414 Score: 178
Period size: 52 Copynumber: 2.9 Consensus size: 53
107257 ATCGATACAT
***
107267 TGTATCGATACACTGAT-CTTTGTATCAATACATGCAGGC-AATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAAATTTGCCCAGA
** * *
107318 TGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCTAGA
1 TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAAATTTGCCCAGA
* * *
107370 TGTATCGATACACT-ATTAAATGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAAATTT
107415 TCATATTTCG
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.02
51 30 0.36
52 51 0.61
53 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCAATACATGCAGGCAAATTTGCCCAGA
Found at i:107380 original size:52 final size:52
Alignment explanation
Indices: 107287--107414 Score: 197
Period size: 52 Copynumber: 2.5 Consensus size: 52
107277 CACTGATCTT
* *
107287 TGTATCAATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
*
107338 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
107390 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
107415 TCATATTTCG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 18 0.25
52 50 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:115361 original size:28 final size:28
Alignment explanation
Indices: 115305--115381 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
115295 GGAATAAAGC
**
115305 CGGGGTTGGAGTATCCCTTC-A-GAGGTAA
1 CGGGGTTGGAGTATCCC--CGATGAAATAA
115333 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
115361 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
115382 TGTGAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 41 0.95
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:115435 original size:53 final size:52
Alignment explanation
Indices: 115364--115539 Score: 221
Period size: 52 Copynumber: 3.4 Consensus size: 52
115354 GAAATAACGA
* * *
115364 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTAGAAATAAAATCGG
* * * *
115417 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTAGAAATAAAATCGG
* * *
115469 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGG
115521 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCCCGATT
115540 ATGAGAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
51 3 0.03
52 75 0.71
53 25 0.24
54 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGG
Found at i:115579 original size:51 final size:52
Alignment explanation
Indices: 115458--115586 Score: 156
Period size: 52 Copynumber: 2.5 Consensus size: 52
115448 GTGTTTTAAA
* * * * *
115458 AATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
1 AATAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
* *
115510 AATAAAATCGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG-
1 AATAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTT-AGC
115561 AAT-AAAGCAGGGGTTGGAGTATCCCC
1 AATAAAAGC-GGGGTTGGAGTATCCCC
115587 TCGGAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
50 4 0.06
51 32 0.46
52 33 0.48
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (52 bp):
AATAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
Found at i:115632 original size:27 final size:28
Alignment explanation
Indices: 115570--115644 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
115560 GAATAAAGCA
***
115570 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
115598 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
115625 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
115645 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:118141 original size:13 final size:13
Alignment explanation
Indices: 118123--118148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118113 ACAAAGATCC
118123 ATGTATCGATACA
1 ATGTATCGATACA
118136 ATGTATCGATACA
1 ATGTATCGATACA
118149 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:118144 original size:33 final size:33
Alignment explanation
Indices: 118102--118168 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
118092 AAAATTTCCA
***
118102 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
118135 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
118168 A
1 A
118169 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:118212 original size:19 final size:18
Alignment explanation
Indices: 118188--118255 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
118178 CAGTAGCTAA
118188 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
118207 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
118222 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
118239 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
118256 TTGCTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:118228 original size:13 final size:13
Alignment explanation
Indices: 118210--118234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118200 ACAATACTTA
118210 TGTATCGATACAT
1 TGTATCGATACAT
118223 TGTATCGATACA
1 TGTATCGATACA
118235 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:118232 original size:32 final size:32
Alignment explanation
Indices: 118191--118253 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
118181 TAGCTAATTA
*
118191 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
118223 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
118254 AATTGCTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:124058 original size:32 final size:33
Alignment explanation
Indices: 124017--124085 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
124007 GGCAGTAGCT
124017 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
124049 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
124082 TACA
1 TACA
124086 ATTCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:124059 original size:13 final size:13
Alignment explanation
Indices: 124041--124065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124031 ACAAAACTTA
124041 TGTATCGATACAT
1 TGTATCGATACAT
124054 TGTATCGATACA
1 TGTATCGATACA
124066 ACACTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:124851 original size:23 final size:23
Alignment explanation
Indices: 124825--124871 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
124815 ATTTTCTCTC
124825 TAAAATTATTATTATATTTTAAT
1 TAAAATTATTATTATATTTTAAT
124848 TAAAATTATTATTATATTTTAAT
1 TAAAATTATTATTATATTTTAAT
124871 T
1 T
124872 TTATTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAAAATTATTATTATATTTTAAT
Done.