Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 12 of 74
Found at i:3413557 original size:21 final size:22
Alignment explanation
Indices: 3413518--3413558 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3413508 AAATTTCAAA
3413518 GATTCACATTCATAAATTTTGG
1 GATTCACATTCATAAATTTTGG
*
3413540 GATTCACTTTCA-AAATTTT
1 GATTCACATTCATAAATTTT
3413559 CAAAGATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (22 bp):
GATTCACATTCATAAATTTTGG
Found at i:3413569 original size:23 final size:23
Alignment explanation
Indices: 3413511--3413577 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
3413501 ACATATGAAA
3413511 TTTCAAAGATTCACATTCATAAAT
1 TTTCAAAGATTCACATTCA-AAAT
** *
3413535 TTT--GGGATTCACTTTCAAAAT
1 TTTCAAAGATTCACATTCAAAAT
3413556 TTTCAAAGATTCACATTCAAAA
1 TTTCAAAGATTCACATTCAAAA
3413578 AATTTTGAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 7 0.20
22 11 0.31
23 14 0.40
24 3 0.09
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (23 bp):
TTTCAAAGATTCACATTCAAAAT
Found at i:3413588 original size:23 final size:22
Alignment explanation
Indices: 3413517--3413589 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
3413507 GAAATTTCAA
*
3413517 AGATTCACATTCATAAATTTTG
1 AGATTCACATTCAAAAATTTTG
* * *
3413539 GGATTCACTTTC-AAAATTTTCAA
1 AGATTCACATTCAAAAATTTT--G
3413562 AGATTCACATTCAAAAAATTTTG
1 AGATTCACATTC-AAAAATTTTG
3413585 AGATT
1 AGATT
3413590 TACCTTTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
21 7 0.17
22 10 0.25
23 15 0.38
25 8 0.20
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (22 bp):
AGATTCACATTCAAAAATTTTG
Found at i:3413884 original size:22 final size:23
Alignment explanation
Indices: 3413859--3413905 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
3413849 TCAAAAGTCA
* *
3413859 AAATTTTTC-TCCAATCAATGCC
1 AAATTTTGCATCCAATAAATGCC
*
3413881 AAATTTTGCATGCAATAAATGCC
1 AAATTTTGCATCCAATAAATGCC
3413904 AA
1 AA
3413906 TGCAAATGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (23 bp):
AAATTTTGCATCCAATAAATGCC
Found at i:3414035 original size:13 final size:13
Alignment explanation
Indices: 3414017--3414057 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
3414007 AAAAGTTCTC
3414017 TGCATGATGCAAA
1 TGCATGATGCAAA
* *
3414030 TGCATG-TCCTAA
1 TGCATGATGCAAA
3414042 T-CATGATGCAAA
1 TGCATGATGCAAA
3414054 TGCA
1 TGCA
3414058 ATTATCAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 4 0.18
12 10 0.45
13 8 0.36
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (13 bp):
TGCATGATGCAAA
Found at i:3414504 original size:13 final size:13
Alignment explanation
Indices: 3414486--3414517 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3414476 TGTACACTTG
3414486 GTAATGAATAAAA
1 GTAATGAATAAAA
3414499 GTAATGAATAAAA
1 GTAATGAATAAAA
*
3414512 GAAATG
1 GTAATG
3414518 GGTCTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (13 bp):
GTAATGAATAAAA
Found at i:3417929 original size:14 final size:14
Alignment explanation
Indices: 3417910--3417941 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3417900 ACATTCAACA
*
3417910 TTTGGATGTGTCTT
1 TTTGGATGTGCCTT
3417924 TTTGGATGTGCCTT
1 TTTGGATGTGCCTT
3417938 TTTG
1 TTTG
3417942 CTTCAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.09, G:0.28, T:0.56
Consensus pattern (14 bp):
TTTGGATGTGCCTT
Found at i:3419641 original size:11 final size:11
Alignment explanation
Indices: 3419625--3419673 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
3419615 TGTTCAATTG
3419625 AAAATAATAAA
1 AAAATAATAAA
3419636 AAAATAATAGTAA
1 AAAATAATA--AA
3419649 AAAATATATAAA
1 AAAATA-ATAAA
*
3419661 ATAA-AATAAA
1 AAAATAATAAA
3419671 AAA
1 AAA
3419674 TTAAAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 7 0.21
11 10 0.30
12 5 0.15
13 8 0.24
14 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:3419671 original size:19 final size:19
Alignment explanation
Indices: 3419649--3419691 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3419639 ATAATAGTAA
3419649 AAAATATATAAAA-TAAAAT
1 AAAATAT-TAAAATTAAAAT
*
3419668 AAAAAATTAAAATTAAAAT
1 AAAATATTAAAATTAAAAT
*
3419687 TAAAT
1 AAAAT
3419692 TAAATCAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATTAAAATTAAAAT
Found at i:3420447 original size:3 final size:3
Alignment explanation
Indices: 3420439--3420468 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3420429 CTAAAACAGA
3420439 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3420469 CAAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3424840 original size:16 final size:15
Alignment explanation
Indices: 3424819--3424849 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
3424809 GAGCATTAAA
3424819 CTTTTTTTTTTCTTTT
1 CTTTTTTTTTT-TTTT
3424835 CTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTTT
3424850 ATGTAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
CTTTTTTTTTTTTTT
Found at i:3425819 original size:45 final size:45
Alignment explanation
Indices: 3425730--3425819 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
3425720 TATTGAGGTT
* * **
3425730 GTTGTGGTACAAAGAAGGTAGACTCTCGATATTGGGGTTGTTGTG
1 GTTGTGATACAAAGAAGGTAGACTCTCGACATTGGGGTAATTGTG
*
3425775 GTTGTGATACAAAGAAGGTAGACTCTCCG-CATTGTGGTAATTGTG
1 GTTGTGATACAAAGAAGGTAGACTCT-CGACATTGGGGTAATTGTG
3425820 CTTCATTGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.32
Consensus pattern (45 bp):
GTTGTGATACAAAGAAGGTAGACTCTCGACATTGGGGTAATTGTG
Found at i:3426771 original size:2 final size:2
Alignment explanation
Indices: 3426764--3426808 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
3426754 ATTAGTTCAG
*
3426764 TA TA TA TA TA TA AA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3426807 TA
1 TA
3426809 GGCATGCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 39 0.98
3 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3427774 original size:13 final size:13
Alignment explanation
Indices: 3427743--3427767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3427733 TATTATAACT
3427743 AATTAAAATTTTA
1 AATTAAAATTTTA
3427756 AATTAAAATTTT
1 AATTAAAATTTT
3427768 TATTTAATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAAAATTTTA
Found at i:3429428 original size:22 final size:22
Alignment explanation
Indices: 3429400--3429445 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
3429390 ATTGTAATAC
3429400 ATAGTTCTATGCTTCATCTGGG
1 ATAGTTCTATGCTTCATCTGGG
*
3429422 ATAGTTCTATGCTTTATCTGGG
1 ATAGTTCTATGCTTCATCTGGG
3429444 AT
1 AT
3429446 TGTATCTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (22 bp):
ATAGTTCTATGCTTCATCTGGG
Found at i:3432113 original size:16 final size:16
Alignment explanation
Indices: 3432092--3432125 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3432082 TAATGGATTA
*
3432092 TGGATGGTATAAGGAT
1 TGGATGGCATAAGGAT
3432108 TGGATGGCATAAGGAT
1 TGGATGGCATAAGGAT
3432124 TG
1 TG
3432126 TCTAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.38, T:0.29
Consensus pattern (16 bp):
TGGATGGCATAAGGAT
Found at i:3435190 original size:23 final size:22
Alignment explanation
Indices: 3435164--3435229 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
3435154 TTATTTTCTA
3435164 AAATAAATTTTTATTATAAATTT
1 AAATAAATTTTTATT-TAAATTT
* * *
3435187 AAATTATTTTTTATTTATATTT
1 AAATAAATTTTTATTTAAATTT
**
3435209 AAATAAAAATTTATTTCAAAT
1 AAATAAATTTTTATTT-AAAT
3435230 GAAAGGTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATAAATTTTTATTTAAATTT
Found at i:3435661 original size:19 final size:20
Alignment explanation
Indices: 3435621--3435662 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3435611 TATATTAAAT
* *
3435621 TATGTTATAATTCATATTTA
1 TATGTTATAATACATATATA
3435641 TATGTTA-AATACATATATA
1 TATGTTATAATACATATATA
3435660 TAT
1 TAT
3435663 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
TATGTTATAATACATATATA
Found at i:3438571 original size:15 final size:17
Alignment explanation
Indices: 3438541--3438579 Score: 64
Period size: 15 Copynumber: 2.4 Consensus size: 17
3438531 AGATAAAATG
3438541 ATATTATAATTAATATT
1 ATATTATAATTAATATT
3438558 ATATTA-AA-TAATATT
1 ATATTATAATTAATATT
3438573 ATATTAT
1 ATATTAT
3438580 TTTGTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.62
16 2 0.10
17 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATAATTAATATT
Found at i:3441659 original size:159 final size:162
Alignment explanation
Indices: 3441355--3441667 Score: 407
Period size: 159 Copynumber: 1.9 Consensus size: 162
3441345 AGGACCCGCG
*
3441355 GTTTCCCCAACTAATCCTCCCGATGCTTCGCCACCAAGGAAGGCCCTAGCACCAGCTCCCAGTCC
1 GTTTCCCCAACTAATACTCCCGATGCTTCGCCACCAAGGAAGGCCCTAGCACCAG---CCAG-CC
* * * * * *
3441420 CAGTCATAAGGAGTCCCCAGCTGCATCCCCGTCTAACCAAAGCAATGCTGCTGCAGCCTCTGCTG
62 CAG--ATAACGAGTCCCCAGCTGCATCCCCGCCTAACCAAAGCAATGCTACAGCACCCTCAGCTG
* *
3441485 ATACTCCTGCAGGATCGCCATCTAGTGCAGTCGCAGGT
125 ATACTCCCGCAGGATCACCATCTAGTGCAGTCGCAGGT
* * * * *
3441523 GTTTTCCCAACTACTACTCCCGCTGCTTCTCCACCAAGGAAGGTCCTAGCACCAG-CA-CCCAG-
1 GTTTCCCCAACTAATACTCCCGATGCTTCGCCACCAAGGAAGGCCCTAGCACCAGCCAGCCCAGA
*
3441585 TAACGAGTCCCCAGCTGCATCCCCGCCTAACCCAAGCAATGCTACAGCACCCTCAGCTGATACTC
66 TAACGAGTCCCCAGCTGCATCCCCGCCTAACCAAAGCAATGCTACAGCACCCTCAGCTGATACTC
*
3441650 CCGCTGGATCACCATCTA
131 CCGCAGGATCACCATCTA
3441668 ATCCAGTAGC
Statistics
Matches: 129, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
159 73 0.57
162 5 0.04
164 2 0.02
168 49 0.38
ACGTcount: A:0.23, C:0.39, G:0.19, T:0.20
Consensus pattern (162 bp):
GTTTCCCCAACTAATACTCCCGATGCTTCGCCACCAAGGAAGGCCCTAGCACCAGCCAGCCCAGA
TAACGAGTCCCCAGCTGCATCCCCGCCTAACCAAAGCAATGCTACAGCACCCTCAGCTGATACTC
CCGCAGGATCACCATCTAGTGCAGTCGCAGGT
Found at i:3442559 original size:2 final size:2
Alignment explanation
Indices: 3442552--3442603 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
3442542 TTTTGTGGGG
* *
3442552 AT AT AT AT AT CT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3442594 AT AT AT -T AT A
1 AT AT AT AT AT A
3442604 CTTCCTCTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3443505 original size:18 final size:18
Alignment explanation
Indices: 3443481--3443527 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
3443471 TAATTAATTA
3443481 ATTAATTAATAATTATAAT
1 ATTAATTAATAATT-TAAT
* *
3443500 -TTAATTTATGATTTAAT
1 ATTAATTAATAATTTAAT
3443517 ATTAAATTAAT
1 ATT-AATTAAT
3443528 TATATCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTAATTAATAATTTAAT
Found at i:3443525 original size:30 final size:30
Alignment explanation
Indices: 3443444--3443525 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
3443434 ATTTATTGTG
* *
3443444 TATGAATTTAATTATTCAATTATATTTTAATT
1 TATG-ATTTAA-TATTAAATTATAATTTAATT
* * * *
3443476 AATTAATTAAT-TAATAATTATAATTTAATT
1 TATGATTTAATATTA-AATTATAATTTAATT
3443506 TATGATTTAATATTAAATTA
1 TATGATTTAATATTAAATTA
3443526 ATTATATCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
29 1 0.03
30 28 0.74
31 7 0.18
32 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (30 bp):
TATGATTTAATATTAAATTATAATTTAATT
Found at i:3449805 original size:2 final size:2
Alignment explanation
Indices: 3449792--3449831 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
3449782 TTTTCGAAGT
* *
3449792 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3449832 CGGAATCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.53
Consensus pattern (2 bp):
TC
Found at i:3452793 original size:2 final size:2
Alignment explanation
Indices: 3452788--3452826 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
3452778 TACGTATGTT
3452788 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3452827 AAGGAGGCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3460269 original size:485 final size:485
Alignment explanation
Indices: 3459360--3460290 Score: 1301
Period size: 485 Copynumber: 1.9 Consensus size: 485
3459350 CCCAATCTGT
* * * *
3459360 GAGGTATTGTTCGCTTTGACTCGAAGATATCACGATTTTGTCCCATAAAAAATACCTCACAAGTT
1 GAGGTATTGTCCACTTTGACTCGAAGATATCACGATTTTATCCCACAAAAAATACCTCACAAGTT
* *
3459425 GAGATTAAGTTTTTACATATATATAATTCCTTATCCACACATTCTTCTGATGTGAGATTGGGGGT
66 GAGATTAAGTTTTTACATATATATAATTCCTTATCCACACATCCTTCTGATGTGAGATTGGAGGT
* * ** *
3459490 GTTATAATCTCCCCACCTTTAATGCTTGACGTCCCTGTCAAGTCGAATCCATCCATGTGATCAAG
131 GTTATAATCTCCCCACCTTTAATGCTTGACGTCCCTATCAAGCCGAATCCATCCATAAGACCAAG
* * *
3459555 ATCACACCAGACCATCGTATAGCACTTAGTGACTCCTACGGCTCTACCGTGTAACACTTAGTGAC
196 ATCACACCAGACCATCATATAGCACTTAGTGACTCCTACAGCTCTACCGTATAACACTTAGTGAC
* * * *
3459620 TTTCACGACTGCAGACTGGTGACTGTTCTGATACCATTTATGAAGATCCGTACCCAACATGCAAA
261 TCTCACGACTGCAGACTGGTGACTGCTCTGATACCATTTATGAAGACCCGCACCCAACATGCAAA
* * * * *
3459685 GTATTATTCGCTTTGACTCGAAGGTCTCACGATTTTGTTTAAAAAATGATGCCTCACAAGTTAAG
326 GTATTATCCGCTTTGACTCGAAGGTCTCACGATTTTATCTAAAAAAAGATACCTCACAAGTTAAG
3459750 ATTAAGTCTCTACATATATATCATTCTTTATCCACACATCCTCCTAATGTAAGATTGTTGACGTT
391 ATTAAGTCTCTACATATATATCATTCTTTATCCACACATCCTCCTAATGTAAGATTGTTGACGTT
3459815 ACAATTTGTGGAGACCCGCACTCAACCTGC
456 ACAATTTGTGGAGACCCGCACTCAACCTGC
* * * * * ** *
3459845 GAGGTATTGTCCATTTTGACTTGAAGGTCTCACGGTTTTATCCCACAAAAGGTGCCTCACAAGTT
1 GAGGTATTGTCCACTTTGACTCGAAGATATCACGATTTTATCCCACAAAAAATACCTCACAAGTT
* * * *
3459910 GAGATTAAGTTTTTACATATATATTATTTCTTATCCATATATCCATT-TGATGTGAGATTGGAGG
66 GAGATTAAGTTTTTACATATATATAATTCCTTATCCACACATCC-TTCTGATGTGAGATTGGAGG
*** * * *
3459974 TGTTATAATCTTTTCACCTTTAATGCTTGATGTTCCTATCAAGCCGAATCCATTCATAAGACCAA
130 TGTTATAATCTCCCCACCTTTAATGCTTGACGTCCCTATCAAGCCGAATCCATCCATAAGACCAA
* * * *
3460039 GATCACACTAGACCATCATGTAGCACTTAGTGACTTCC-ACAGCTCTACCGTATAGCATTTAGTG
195 GATCACACCAGACCATCATATAGCACTTAGTGAC-TCCTACAGCTCTACCGTATAACACTTAGTG
* * * * **
3460103 ACTCTCACGACTGCAGACTGGTGACTGCTCTGATATCATTTGTGGAGACCCGCACCCAACCTGTG
259 ACTCTCACGACTGCAGACTGGTGACTGCTCTGATACCATTTATGAAGACCCGCACCCAACATGCA
* *
3460168 AAGTATTATCCGTTTTGACTCGAAGGTTTCACGATTTTATCTAATAAAAAG-TACCTCACAAGTT
324 AAGTATTATCCGCTTTGACTCGAAGGTCTCACGATTTTATCTAA-AAAAAGATACCTCACAAGTT
* * * *
3460232 GAGATTAAGTTTCTACATATATATCATTCTTTATCCACACATCCTCCTGATGTGAGATT
388 AAGATTAAGTCTCTACATATATATCATTCTTTATCCACACATCCTCCTAATGTAAGATT
3460291 AGGGGCGTTA
Statistics
Matches: 386, Mismatches: 57, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
485 376 0.97
486 10 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (485 bp):
GAGGTATTGTCCACTTTGACTCGAAGATATCACGATTTTATCCCACAAAAAATACCTCACAAGTT
GAGATTAAGTTTTTACATATATATAATTCCTTATCCACACATCCTTCTGATGTGAGATTGGAGGT
GTTATAATCTCCCCACCTTTAATGCTTGACGTCCCTATCAAGCCGAATCCATCCATAAGACCAAG
ATCACACCAGACCATCATATAGCACTTAGTGACTCCTACAGCTCTACCGTATAACACTTAGTGAC
TCTCACGACTGCAGACTGGTGACTGCTCTGATACCATTTATGAAGACCCGCACCCAACATGCAAA
GTATTATCCGCTTTGACTCGAAGGTCTCACGATTTTATCTAAAAAAAGATACCTCACAAGTTAAG
ATTAAGTCTCTACATATATATCATTCTTTATCCACACATCCTCCTAATGTAAGATTGTTGACGTT
ACAATTTGTGGAGACCCGCACTCAACCTGC
Found at i:3463059 original size:37 final size:37
Alignment explanation
Indices: 3463017--3463091 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 37
3463007 CAGTGTTAAG
3463017 AAGGCTAAGATAAA-AAAGATACCTAGATTAGAAACTT
1 AAGGCTAAGATAAATAAA-ATACCTAGATTAGAAACTT
3463054 AAGGCTAAGATAAATAAAATACCTAGATTAGAAACTT
1 AAGGCTAAGATAAATAAAATACCTAGATTAGAAACTT
3463091 A
1 A
3463092 CTACCAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 34 0.92
38 3 0.08
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.23
Consensus pattern (37 bp):
AAGGCTAAGATAAATAAAATACCTAGATTAGAAACTT
Found at i:3468413 original size:27 final size:26
Alignment explanation
Indices: 3468383--3468441 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
3468373 TAATTTATCT
*
3468383 AATATAAAAAATATTTAGAATTTTTAA
1 AATATAAAAAATATTTA-AATTTTAAA
***
3468410 AATATTTTTAAATATTTAAATTTTAAA
1 AATA-TAAAAAATATTTAAATTTTAAA
3468437 AATAT
1 AATAT
3468442 TTTAGTCCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 16 0.59
28 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
AATATAAAAAATATTTAAATTTTAAA
Found at i:3468442 original size:27 final size:28
Alignment explanation
Indices: 3468391--3468444 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
3468381 CTAATATAAA
*
3468391 AAATATTTAGAATTTTTAAAATATTTTT
1 AAATATTTAGAATTTTAAAAATATTTTT
3468419 AAATATTTA-AATTTTAAAAATATTTT
1 AAATATTTAGAATTTTAAAAATATTTT
3468445 AGTCCCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
AAATATTTAGAATTTTAAAAATATTTTT
Found at i:3468508 original size:14 final size:15
Alignment explanation
Indices: 3468491--3468533 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
3468481 ATTTTTATAT
3468491 ATAAT-TAATTATTA
1 ATAATATAATTATTA
*
3468505 ATAATATCA-TATTA
1 ATAATATAATTATTA
*
3468519 ATAATATTATTATTA
1 ATAATATAATTATTA
3468534 TCATCATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATATAATTATTA
Found at i:3469630 original size:10 final size:10
Alignment explanation
Indices: 3469615--3469644 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3469605 AAAGATTTAA
3469615 ATTTATATAT
1 ATTTATATAT
3469625 ATTTATATAT
1 ATTTATATAT
*
3469635 ATATATATAT
1 ATTTATATAT
3469645 CATAACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTATATAT
Found at i:3473852 original size:13 final size:13
Alignment explanation
Indices: 3473834--3473860 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3473824 AATGAATGAA
3473834 TAAAAATTAAAAT
1 TAAAAATTAAAAT
3473847 TAAAAATTAAAAT
1 TAAAAATTAAAAT
3473860 T
1 T
3473861 GATAGCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:3473979 original size:29 final size:28
Alignment explanation
Indices: 3473947--3474009 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
3473937 TTTTTAATAA
**
3473947 AAATATTGATAAAATTTTTATTATTAAAT
1 AAATATTGATAAAATTTAAATTA-TAAAT
* *
3473976 AAATATCGATTAAATTTAAATTATAAAT
1 AAATATTGATAAAATTTAAATTATAAAT
3474004 -AATATT
1 AAATATT
3474010 TTTAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 5 0.17
28 5 0.17
29 19 0.66
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (28 bp):
AAATATTGATAAAATTTAAATTATAAAT
Found at i:3476846 original size:36 final size:36
Alignment explanation
Indices: 3476804--3476880 Score: 138
Period size: 36 Copynumber: 2.1 Consensus size: 36
3476794 GACACTCAGA
3476804 TTTTTTGATTGCTTCACAGACAGCAT-TGTGCAGCTC
1 TTTTTTGATTGCTTCACAGACAGCATCT-TGCAGCTC
3476840 TTTTTTGATTGCTTCACAGACAGCATCTTGCAGCTC
1 TTTTTTGATTGCTTCACAGACAGCATCTTGCAGCTC
3476876 TTTTT
1 TTTTT
3476881 CAGTCCTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 39 0.98
37 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (36 bp):
TTTTTTGATTGCTTCACAGACAGCATCTTGCAGCTC
Found at i:3479134 original size:19 final size:19
Alignment explanation
Indices: 3479094--3479134 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3479084 GGCTCTCATG
**
3479094 ATTAACATGAATCCTTTGT
1 ATTAACATGAATCCTTAAT
*
3479113 ATTAAGATGAATCCTTAAT
1 ATTAACATGAATCCTTAAT
3479132 ATT
1 ATT
3479135 TTGCTCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (19 bp):
ATTAACATGAATCCTTAAT
Found at i:3479763 original size:16 final size:16
Alignment explanation
Indices: 3479726--3479774 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
3479716 ATTCGTTGAA
3479726 TATTAATAATATTTAAATT
1 TATTAA-AATATTT--ATT
3479745 TATTAAAATATTTATT
1 TATTAAAATATTTATT
*
3479761 TATTTAAA-ATTTAT
1 TATTAAAATATTTAT
3479775 CAAAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
16 10 0.34
18 7 0.24
19 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTAAAATATTTATT
Found at i:3479958 original size:35 final size:37
Alignment explanation
Indices: 3479906--3479975 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 37
3479896 AAATGGATAA
* * *
3479906 TAAATTTCAATATAAATTTAGATATTTATTATTTATT
1 TAAATTTCAATATAAATTTAAATATTAAATATTTATT
3479943 TAAATTT-AA-ATAAATTTAAATATTAAATATTTA
1 TAAATTTCAATATAAATTTAAATATTAAATATTTA
3479976 AAAAATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 21 0.70
36 2 0.07
37 7 0.23
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (37 bp):
TAAATTTCAATATAAATTTAAATATTAAATATTTATT
Found at i:3479968 original size:17 final size:16
Alignment explanation
Indices: 3479940--3479971 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
3479930 TTTATTATTT
3479940 ATTTAAATTTAAATAA
1 ATTTAAATTTAAATAA
3479956 ATTTAAATATTAAATA
1 ATTTAAAT-TTAAATA
3479972 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:3482868 original size:2 final size:2
Alignment explanation
Indices: 3482861--3482902 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3482851 GCACTTATCC
3482861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3482903 CACGTGTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3484194 original size:3 final size:3
Alignment explanation
Indices: 3484186--3484240 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
3484176 GTTTTAATTT
* *
3484186 TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA T-T TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3484232 -AA TAA TAA T
1 TAA TAA TAA T
3484241 TATTAATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 5 0.11
3 40 0.89
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3484235 original size:18 final size:20
Alignment explanation
Indices: 3484186--3484241 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
3484176 GTTTTAATTT
*
3484186 TAATAATAATAATAATAGTAA
1 TAATAATAATAATAAT-TTAA
3484207 TAATAATAATAATAATTTAA
1 TAATAATAATAATAATTTAA
3484227 -AATAA-AATAATAATT
1 TAATAATAATAATAATT
3484242 ATTAATTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 3 0.09
21 16 0.47
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAATAATAATAATAATTTAA
Found at i:3484620 original size:14 final size:14
Alignment explanation
Indices: 3484589--3484620 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3484579 ACCAACCACG
*
3484589 AAAACAGAAACACA
1 AAAACAGAAACAAA
3484603 AAAACAGAAACAAA
1 AAAACAGAAACAAA
3484617 AAAA
1 AAAA
3484621 AAGTCAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.16, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAACAGAAACAAA
Found at i:3485603 original size:18 final size:18
Alignment explanation
Indices: 3485578--3485618 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3485568 CTAAGTTTCT
3485578 AAAA-CCCCCTAAAACCC
1 AAAATCCCCCTAAAACCC
* *
3485595 AAAATCCCCTTAAAATCC
1 AAAATCCCCCTAAAACCC
3485613 AAAATC
1 AAAATC
3485619 TTAAAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATCCCCCTAAAACCC
Found at i:3485623 original size:15 final size:16
Alignment explanation
Indices: 3485587--3485641 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
3485577 TAAAACCCCC
*
3485587 TAAAACCCAAAATCCCCT
1 TAAAATCCAAAAT--CCT
3485605 TAAAATCCAAAAT-CT
1 TAAAATCCAAAATCCT
*
3485620 TAAAAT-CGAAATCCT
1 TAAAATCCAAAATCCT
3485635 TAAAATC
1 TAAAATC
3485642 AAACCCCCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 5 0.15
15 16 0.48
18 12 0.36
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.24
Consensus pattern (16 bp):
TAAAATCCAAAATCCT
Found at i:3485729 original size:43 final size:43
Alignment explanation
Indices: 3485651--3485743 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
3485641 CAAACCCCCC
* ** * *
3485651 CCCAAAATCCAAAATCCTAAACCTTTAAACTTTTAAATCCAAA
1 CCCAAAATCCAAAATCCTAAACATCCAAACCTTTAAATCAAAA
*
3485694 CCCAAAATCCAAAATCTCTAAA-ATCCAAGCCTTTAAATCAAAA
1 CCCAAAATCCAAAATC-CTAAACATCCAAACCTTTAAATCAAAA
3485737 CCTCAAA
1 CC-CAAA
3485744 CCTCAAAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 33 0.79
44 9 0.21
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (43 bp):
CCCAAAATCCAAAATCCTAAACATCCAAACCTTTAAATCAAAA
Found at i:3492544 original size:33 final size:33
Alignment explanation
Indices: 3492502--3492979 Score: 436
Period size: 33 Copynumber: 14.5 Consensus size: 33
3492492 AAAAACTTTG
*
3492502 AGCCCAGTTTATCTGGCCATCAATGAGGTTTTA
1 AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
* **
3492535 AGCCCAGTTTATCTGGCCATCAATAAAAATTTA
1 AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
**
3492568 AGCCCAGTTTATCTGGCCATCAATGAAAATTTA
1 AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
* * *
3492601 AGCCTAGTTTATCTGGCC-TAAAATAAAGTTTTA
1 AGCCCAGTTTATCTGGCCAT-CAATGAAGTTTTA
* * *
3492634 AGCTCAGTTTATCTAGCCATCAATGAAGCTTTA
1 AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
* * * *
3492667 AACCCAATTTATCTGACTA-CAAATGAAGTTTTA
1 AGCCCAGTTTATCTGGCCATC-AATGAAGTTTTA
* * ** **
3492700 AGCACAGTTTATCTGGCCATTGAGAAAAAACTTTA
1 AGCCCAGTTTATCTGGCCA-TCA-ATGAAGTTTTA
** * *
3492735 AGCCCAGTTTATCTGTTC-TCAAATAAAATTTTA
1 AGCCCAGTTTATCTGGCCATC-AATGAAGTTTTA
* * * *
3492768 AACCCAATTTATCTGGCCATTAATGAAGCTTTA
1 AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
* * *
3492801 AGCCCAATTTATCTGGCCATTAATGAAG-CTTA
1 AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
*
3492833 AGCCCAGTTTATCTAGCCATCAATGACA--TTTA
1 AGCCCAGTTTATCTGGCCATCAATGA-AGTTTTA
* * *
3492865 AGCCCAGTTTGTCTGGCCATCAATAAAATTTTA
1 AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
* *
3492898 AGTCTAGTTTATCTGGCCATCAAT-AAGGTTTTA
1 AGCCCAGTTTATCTGGCCATCAATGAA-GTTTTA
* *
3492931 AGCCCAATTTAGT-TGGCCTTCAATGAA--TTTA
1 AGCCCAGTTTA-TCTGGCCATCAATGAAGTTTTA
*
3492962 AGCCCAGTTTATTTGGCC
1 AGCCCAGTTTATCTGGCC
3492980 CCAAAAGAAG
Statistics
Matches: 365, Mismatches: 65, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
30 1 0.00
31 20 0.05
32 56 0.15
33 259 0.71
34 7 0.02
35 22 0.06
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (33 bp):
AGCCCAGTTTATCTGGCCATCAATGAAGTTTTA
Found at i:3494031 original size:120 final size:121
Alignment explanation
Indices: 3493502--3494064 Score: 905
Period size: 121 Copynumber: 4.7 Consensus size: 121
3493492 AAATTTTTTT
* * * *
3493502 TTTTAAAGTTTCATTGCCTCTGATTATGAGGAACATTTAAAAATTTTGAAATTTGTAAGACCTCC
1 TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
*
3493567 GGGCATAATCTCTAAAAGCCTCTGCGCATGACTTTCAAGATTAAAAGATTTTCAAA
66 GGGCATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTTCAAA
* * * *
3493623 TTTTTAAAGTTTCATTGCC-CTGATTATGAGGAGCATTTAAAGATTTTAAAATTTGTAAGACCTT
1 -TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTC
* *
3493687 CGGGCATAATCTCTAAAAGACTCTGCGCATGACTTTCAAGATTAAAAGATTTTCAAA
65 CGGGCATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTTCAAA
*
3493744 TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTTC
1 TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
3493809 GGGCATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTTCAAA
66 GGGCATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTTCAAA
* * *
3493865 ATTTAAAGTTTCATCGCCTCTGATTATAAGGAACATTTAAAGATTTTGAGATTTGTAAGACCTCC
1 TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
** * *
3493930 AAGCATAATCTTTAAAAGCCTCTACGCATGA-TTTCAAGATTAAAAAATTTTCAAA
66 GGGCATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTTCAAA
* *
3493985 TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCA
1 TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
*
3494050 AGGCATAATCTCTAA
66 GGGCATAATCTCTAA
3494065 GACCTCCAGG
Statistics
Matches: 415, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
120 113 0.27
121 284 0.68
122 18 0.04
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (121 bp):
TTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
GGGCATAATCTCTAAAAGCCTCTACGCATGACTTTCAAGATTAAAAGATTTTCAAA
Found at i:3494121 original size:22 final size:23
Alignment explanation
Indices: 3494040--3494122 Score: 82
Period size: 22 Copynumber: 3.7 Consensus size: 23
3494030 TTGAGATTTG
*
3494040 TAAGACC-TCAAGGCAT-AATCTC
1 TAAGACCTTC-AGGCATGATTCTC
* *
3494062 TAAGACCTCCAGGCATGATTCTG
1 TAAGACCTTCAGGCATGATTCTC
*
3494085 TAAGACTTTCAGGCATGATT-TC
1 TAAGACCTTCAGGCATGATTCTC
* *
3494107 TAAGGCCTTCGGGCAT
1 TAAGACCTTCAGGCAT
3494123 AAATTTGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
22 27 0.54
23 23 0.46
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (23 bp):
TAAGACCTTCAGGCATGATTCTC
Found at i:3494223 original size:22 final size:22
Alignment explanation
Indices: 3494195--3494326 Score: 133
Period size: 22 Copynumber: 6.0 Consensus size: 22
3494185 ATCAATTCTG
* *
3494195 TAAGACCTCCGGGCATGATTTT
1 TAAGACCTCCGGACATAATTTT
* *
3494217 TAAGACCTTCGG--ATAATTCTG
1 TAAGACCTCCGGACATAATT-TT
*
3494238 TAAGACCTCCGGACATAATTCTG
1 TAAGACCTCCGGACATAATT-TT
*
3494261 TAAGACCTCTGGACATAATTTT
1 TAAGACCTCCGGACATAATTTT
* * * *
3494283 TAAGATCTCTGGAAATGATTTT
1 TAAGACCTCCGGACATAATTTT
*
3494305 TAAGACCTCCGGGCATAATTTT
1 TAAGACCTCCGGACATAATTTT
3494327 GATTCACGGT
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
20 5 0.05
21 12 0.13
22 48 0.52
23 28 0.30
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTT
Found at i:3494501 original size:110 final size:110
Alignment explanation
Indices: 3494297--3494534 Score: 298
Period size: 110 Copynumber: 2.2 Consensus size: 110
3494287 ATCTCTGGAA
* * *
3494297 ATGATTTTTAAGACCTCCGGGCATAATTTTGATTCACGGTGTTATCCCGATCGATTTTTTATCTT
1 ATGATTTTTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTATCCCGATCAATTCTTTATCTT
** * * * * *
3494362 TTAACTTGTGATTTTATTTCAATCGATTCTGTAAGACCTCTAGGC
66 TTAACTTACGATGTTATCTCAATCAATTCTGTAAAACCTCCAGGC
* **
3494407 ATGATTTATAAGACCTCCGGGCATAAATTTGATTCGTGGTGTTATCCCGATCAATTCTTTATCTT
1 ATGATTTTTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTATCCCGATCAATTCTTTATCTT
* * * *
3494472 TTGACTTACGGTGTTATC-CTAATCAATTCTGTAAAACTTCCGGGC
66 TTAACTTACGATGTTATCTC-AATCAATTCTGTAAAACCTCCAGGC
*
3494517 ATAATTTTTAAGACCTCC
1 ATGATTTTTAAGACCTCC
3494535 AAGCAATTCT
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
109 1 0.01
110 107 0.99
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (110 bp):
ATGATTTTTAAGACCTCCGGGCATAAATTTGATTCACGGTGTTATCCCGATCAATTCTTTATCTT
TTAACTTACGATGTTATCTCAATCAATTCTGTAAAACCTCCAGGC
Found at i:3494595 original size:22 final size:23
Alignment explanation
Indices: 3494540--3494606 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
3494530 CCTCCAAGCA
*
3494540 ATTCTGTAAGACTTTCGGGTATG
1 ATTCTGTAAGACTTTCGGGCATG
3494563 ATTCTGTAAGACTTTCGGGCATG
1 ATTCTGTAAGACTTTCGGGCATG
*
3494586 ATT-TGTAAGACCTTCGGGCAT
1 ATTCTGTAAGACTTTCGGGCAT
3494607 AAATTCGGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 17 0.40
23 25 0.60
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (23 bp):
ATTCTGTAAGACTTTCGGGCATG
Found at i:3494829 original size:21 final size:20
Alignment explanation
Indices: 3494803--3494852 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3494793 TTTACTGTTT
3494803 TAATTTTAATAATAATAATAA
1 TAATTTTAATAATAA-AATAA
3494824 TAA-TTTAA-AATAAAATAA
1 TAATTTTAATAATAAAATAA
3494842 TAATTATTAAT
1 TAATT-TTAAT
3494853 TATATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
20 9 0.35
21 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTTTAATAATAAAATAA
Found at i:3494884 original size:21 final size:21
Alignment explanation
Indices: 3494858--3494900 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3494848 TTAATTATAT
3494858 AAAAAA-ACATAAAAAATAAAA
1 AAAAAAGACA-AAAAAATAAAA
*
3494879 AAAAAAGAGAAAAAAATAAAA
1 AAAAAAGACAAAAAAATAAAA
3494900 A
1 A
3494901 GTAGGGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (21 bp):
AAAAAAGACAAAAAAATAAAA
Found at i:3495240 original size:14 final size:14
Alignment explanation
Indices: 3495209--3495240 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3495199 ACCAACCATG
*
3495209 AAAACAGAAACACA
1 AAAACAGAAACAAA
3495223 AAAACAGAAACAAA
1 AAAACAGAAACAAA
3495237 AAAA
1 AAAA
3495241 AAGTCAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.16, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAACAGAAACAAA
Found at i:3496231 original size:17 final size:18
Alignment explanation
Indices: 3496202--3496241 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
3496192 TTAAGTTTTT
3496202 AAAA-CCCCCTAAAA-CC
1 AAAATCCCCCTAAAATCC
*
3496218 AAAATCCCCTTAAAATCC
1 AAAATCCCCCTAAAATCC
3496236 AAAATC
1 AAAATC
3496242 TTAAAATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATCCCCCTAAAATCC
Found at i:3496246 original size:15 final size:15
Alignment explanation
Indices: 3496226--3496299 Score: 87
Period size: 15 Copynumber: 4.9 Consensus size: 15
3496216 CCAAAATCCC
3496226 CTTAAAATCCAAAAT
1 CTTAAAATCCAAAAT
* * *
3496241 CTTAAAATACGAAAC
1 CTTAAAATCCAAAAT
*
3496256 CTTAAAATCCAAACT
1 CTTAAAATCCAAAAT
*
3496271 CTTAAAATCCGAAAT
1 CTTAAAATCCAAAAT
3496286 CCTTAAAAT-CAAAA
1 -CTTAAAATCCAAAA
3496300 CCCCCCCAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
15 40 0.83
16 8 0.17
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (15 bp):
CTTAAAATCCAAAAT
Found at i:3496259 original size:30 final size:31
Alignment explanation
Indices: 3496225--3496299 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 31
3496215 ACCAAAATCC
3496225 CCTTAAAATCCAAAATCTTAAAATACGAAA-
1 CCTTAAAATCCAAAATCTTAAAATACGAAAT
* *
3496255 CCTTAAAATCCAAACTCTTAAAATCCGAAAT
1 CCTTAAAATCCAAAATCTTAAAATACGAAAT
3496286 CCTTAAAAT-CAAAA
1 CCTTAAAATCCAAAA
3496300 CCCCCCCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 32 0.78
31 9 0.22
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.24
Consensus pattern (31 bp):
CCTTAAAATCCAAAATCTTAAAATACGAAAT
Found at i:3496441 original size:14 final size:14
Alignment explanation
Indices: 3496338--3496442 Score: 50
Period size: 14 Copynumber: 7.1 Consensus size: 14
3496328 TTAAACTCTT
* *
3496338 AAATCCAAACCCCA
1 AAATCAAAACCCTA
*
3496352 AAATCCAAAATCTCTA
1 AAAT-CAAAA-CCCTA
* * * *
3496368 AAATCCAAGCCTTT
1 AAATCAAAACCCTA
3496382 AAATCAAAA-CCTCA
1 AAATCAAAACCCT-A
* *
3496396 AAACCTAAAACCCCA
1 AAATC-AAAACCCTA
* *
3496411 AAATCTTCAAACACTA
1 AAATC--AAAACCCTA
3496427 AAATCAAAACCCTA
1 AAATCAAAACCCTA
3496441 AA
1 AA
3496443 CCTTCCATAT
Statistics
Matches: 65, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
13 2 0.03
14 26 0.40
15 16 0.25
16 21 0.32
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (14 bp):
AAATCAAAACCCTA
Found at i:3499785 original size:33 final size:32
Alignment explanation
Indices: 3499743--3500057 Score: 325
Period size: 33 Copynumber: 9.7 Consensus size: 32
3499733 GGAAAAAAAC
*
3499743 TTTAAGCCCAGTTTATCTAGCCATCAATAAGGT
1 TTTAAGCCCAGTTTATCTGGCCATCAATAA-GT
**
3499776 TTTAAGCCCAGTTTATCTGGCCATCAATAAAAA
1 TTTAAGCCCAGTTTATCTGGCCATCAAT-AAGT
**
3499809 TTTAAGCCCAGTTTATCTGGCCATCAATGAAAA
1 TTTAAGCCCAGTTTATCTGGCCATCAAT-AAGT
*
3499842 TTTAAGTCCAGTTTATCTGGCC-TCAAATGAAGT
1 TTTAAGCCCAGTTTATCTGGCCATC-AAT-AAGT
* *
3499875 TTTAAGCTCAGTTTATCTGGCCATTAATGAAG-
1 TTTAAGCCCAGTTTATCTGGCCATCAAT-AAGT
* * * **
3499907 CTTAAGCCCAGTTTATCTAGCCATCAATGACA
1 TTTAAGCCCAGTTTATCTGGCCATCAATAAGT
*
3499939 TTTAAGCCCAGTTTATCTGGCCATCAATAAAAT
1 TTTAAGCCCAGTTTATCTGGCCATCAAT-AAGT
* * *
3499972 TTTAAGCCTAGTTTATCTGACCATCAATGAGGT
1 TTTAAGCCCAGTTTATCTGGCCATCAAT-AAGT
* *
3500005 TTTAAGCCCAATTTAGT-TGGCCTTCAATGAA--
1 TTTAAGCCCAGTTTA-TCTGGCCATCAAT-AAGT
*
3500036 TTTAAGCCCAGTTTATTTGGCC
1 TTTAAGCCCAGTTTATCTGGCC
3500058 CCAAAAGAAG
Statistics
Matches: 243, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.00
31 20 0.08
32 52 0.21
33 166 0.68
34 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (32 bp):
TTTAAGCCCAGTTTATCTGGCCATCAATAAGT
Found at i:3500892 original size:121 final size:121
Alignment explanation
Indices: 3500577--3501140 Score: 855
Period size: 121 Copynumber: 4.7 Consensus size: 121
3500567 AAAATAAAAT
* *
3500577 TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAAATTTTGAGATTTATAAGACCTCC
1 TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
* *
3500642 GCG-CATAATCTCTAAAAGCCTCTGCGCATGACTTTCAAGATTAAAAGATTTTTAAA
66 G-GACATAATCTCTAAAAGCCTCTGCGCATAACTTTCAAGATTAAAAGATTTTCAAA
* * *
3500698 TTTTTAAAGTTTCATTGCCTCTGATTATGAAGAGCATTTAAAGATTTTAAAATTTGTAAGACCTC
1 -TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTC
* *
3500763 CGGGCATAATCTCTAAAAGACTCTGCGCATAACTTTCAAGATTAAAAGATTTTCAAA
65 CGGACATAATCTCTAAAAGCCTCTGCGCATAACTTTCAAGATTAAAAGATTTTCAAA
* * *
3500820 TTTTAAAGTTTCATCGCCTCTGATTATGAGGAACATTTAAAGATTTTGAGATTTGTAAGACCTTC
1 TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
*
3500885 GGACATAATCTCTAAAAGCCTCTGCGCATGACTTTCAAGATTAAAAGATTTTCAAA
66 GGACATAATCTCTAAAAGCCTCTGCGCATAACTTTCAAGATTAAAAGATTTTCAAA
* * * *
3500941 ATTTAAAGTTTCATCGCCTCTGATTATAAGGAGCATTTAAAGATTTTGAGATTAGTAAGACCTCC
1 TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
* * * * * *
3501006 -AAGCATAATCTCTAAAAGCTTTTACGCATAACTTTCAAGATTAAAAAATTTTAAAA
66 GGA-CATAATCTCTAAAAGCCTCTGCGCATAACTTTCAAGATTAAAAGATTTTCAAA
* *
3501062 TTTTAAAGTTTCATTGCCTC-GATTATGAGGAGCATTCAAAGATTTTGAGATTTATAAGACCTCC
1 TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
3501126 GGACATAATCTCTAA
66 GGACATAATCTCTAA
3501141 GATCTCTGGA
Statistics
Matches: 403, Mismatches: 36, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
120 53 0.13
121 239 0.59
122 111 0.28
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (121 bp):
TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTTAAAGATTTTGAGATTTGTAAGACCTCC
GGACATAATCTCTAAAAGCCTCTGCGCATAACTTTCAAGATTAAAAGATTTTCAAA
Found at i:3501151 original size:22 final size:22
Alignment explanation
Indices: 3501111--3501203 Score: 114
Period size: 22 Copynumber: 4.2 Consensus size: 22
3501101 AGATTTTGAG
*
3501111 ATTTATAAGACCTCCGGACATA
1 ATTTTTAAGACCTCCGGACATA
* * * *
3501133 ATCTCTAAGATCTCTGGACATA
1 ATTTTTAAGACCTCCGGACATA
** *
3501155 ATTTTTAAGACCTCTTGACATG
1 ATTTTTAAGACCTCCGGACATA
3501177 ATTTTTAAGACCTCCGGACATA
1 ATTTTTAAGACCTCCGGACATA
3501199 ATTTT
1 ATTTT
3501204 GATTCACAGT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (22 bp):
ATTTTTAAGACCTCCGGACATA
Found at i:3501315 original size:110 final size:110
Alignment explanation
Indices: 3501160--3501407 Score: 300
Period size: 110 Copynumber: 2.3 Consensus size: 110
3501150 ACATAATTTT
* * * * *
3501160 TAAGACCTCTTGACATGATTTTTAAGACCTCCGGACATAATTTTGATTCACAGTGTTATCTCGAT
1 TAAGACCTCTGGGCATGATTTTTAAGACCTCCGGACATAAATTTGATTCACAGTGTTATCCCAAT
* ** *
3501225 CGATTCTTTATCTTTTAACTTGTAATGTTAT-TCCAATCGATTCTG
66 CAATTCTTTATCTTTTAACTTACAATGTTATCT-CAATCAATTCTG
* * * * *
3501270 TAAGACCTCTGGGCATGATTTATAAGACCTCTGGGCATAAATTTGATTCGCGGTGTTATCCCAAT
1 TAAGACCTCTGGGCATGATTTTTAAGACCTCCGGACATAAATTTGATTCACAGTGTTATCCCAAT
* * **
3501335 CAATTTTTTATCTTTTGACTTACGGTGTTATCTCAATCAATTCTG
66 CAATTCTTTATCTTTTAACTTACAATGTTATCTCAATCAATTCTG
* *
3501380 TAAGACATCCGGGCATGATTTTTAAGAC
1 TAAGACCTCTGGGCATGATTTTTAAGAC
3501408 TTTCGAGCAA
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
110 115 0.99
111 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (110 bp):
TAAGACCTCTGGGCATGATTTTTAAGACCTCCGGACATAAATTTGATTCACAGTGTTATCCCAAT
CAATTCTTTATCTTTTAACTTACAATGTTATCTCAATCAATTCTG
Found at i:3501434 original size:43 final size:43
Alignment explanation
Indices: 3501372--3501455 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
3501362 TTATCTCAAT
*
3501372 CAATTCTGTAAGACATCCGGGCATGATTTTTAAGACTTTCGAG
1 CAATTCTGTAAGACATCCGGGCATGATTTGTAAGACTTTCGAG
* ** *
3501415 CAATTCTGTAAGACCTCCGGGTGTGATTTGTAAGATTTTCG
1 CAATTCTGTAAGACATCCGGGCATGATTTGTAAGACTTTCG
3501456 GGCATAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (43 bp):
CAATTCTGTAAGACATCCGGGCATGATTTGTAAGACTTTCGAG
Found at i:3501686 original size:21 final size:20
Alignment explanation
Indices: 3501661--3501710 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3501651 TTTACTGTTT
3501661 TAATTTTAATAATAATAATAA
1 TAATTTTAATAATAA-AATAA
3501682 TAA-TTTAA-AATAAAATAA
1 TAATTTTAATAATAAAATAA
3501700 TAATTATTAAT
1 TAATT-TTAAT
3501711 TATATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
20 9 0.35
21 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTTTAATAATAAAATAA
Found at i:3501742 original size:21 final size:21
Alignment explanation
Indices: 3501716--3501759 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3501706 TTAATTATAT
3501716 AAAAAA-ACATAAAAAAATAAA
1 AAAAAAGACA-AAAAAAATAAA
*
3501737 AAAAAAGAGAAAAAAAATAAA
1 AAAAAAGACAAAAAAAATAAA
3501758 AA
1 AA
3501760 GTAGGGTGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (21 bp):
AAAAAAGACAAAAAAAATAAA
Found at i:3502098 original size:14 final size:14
Alignment explanation
Indices: 3502067--3502098 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3502057 ACCAACCACG
*
3502067 AAAATAGAAACACA
1 AAAATAGAAACAAA
3502081 AAAATAGAAACAAA
1 AAAATAGAAACAAA
3502095 AAAA
1 AAAA
3502099 AAAGTCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.09, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAATAGAAACAAA
Found at i:3503044 original size:18 final size:18
Alignment explanation
Indices: 3503019--3503059 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3503009 CTAAGTTTCT
3503019 AAAA-CCCCCTAAAACCC
1 AAAATCCCCCTAAAACCC
* *
3503036 AAAATCCCCTTAAAATCC
1 AAAATCCCCCTAAAACCC
3503054 AAAATC
1 AAAATC
3503060 TTAAAATCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATCCCCCTAAAACCC
Found at i:3503064 original size:15 final size:15
Alignment explanation
Indices: 3503044--3503131 Score: 72
Period size: 15 Copynumber: 5.9 Consensus size: 15
3503034 CCAAAATCCC
3503044 CTTAAAATCCAAAAT
1 CTTAAAATCCAAAAT
** *
3503059 CTTAAAATCTGAAAC
1 CTTAAAATCCAAAAT
*
3503074 CTTAAAATCC-AAAC
1 CTTAAAATCCAAAAT
** *
3503088 CCCAAAATCCAAACT
1 CTTAAAATCCAAAAT
* *
3503103 TTTAAAATCCGAAAT
1 CTTAAAATCCAAAAT
3503118 CCTTAAAAT-CAAAA
1 -CTTAAAATCCAAAA
3503132 CCCCCCCAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
14 12 0.21
15 37 0.66
16 7 0.12
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (15 bp):
CTTAAAATCCAAAAT
Found at i:3503201 original size:14 final size:15
Alignment explanation
Indices: 3503173--3503207 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
3503163 AGCCTTTAAA
3503173 TCAAAACCTCAAACC
1 TCAAAACCTCAAACC
3503188 TCAAAACC-CAAACC
1 TCAAAACCTCAAACC
*
3503202 CCAAAA
1 TCAAAA
3503208 TCTTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (15 bp):
TCAAAACCTCAAACC
Found at i:3509011 original size:28 final size:29
Alignment explanation
Indices: 3508963--3509022 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
3508953 TACGTCTTTC
* *
3508963 AATAATTATAATTTGAGAC-ATTAATTAA
1 AATAATTATAATATGAAACAATTAATTAA
3508991 AATAATTATAATATGAAACATATTAATTAA
1 AATAATTATAATATGAAACA-ATTAATTAA
3509021 AA
1 AA
3509023 ATTTTGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 17 0.61
30 11 0.39
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (29 bp):
AATAATTATAATATGAAACAATTAATTAA
Found at i:3509757 original size:2 final size:2
Alignment explanation
Indices: 3509752--3509785 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3509742 TTTTTTCTTT
3509752 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3509786 ACATAAACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3510920 original size:11 final size:11
Alignment explanation
Indices: 3510904--3510928 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3510894 AATATTTAGA
3510904 ATTTTTAAAAT
1 ATTTTTAAAAT
3510915 ATTTTTAAAAT
1 ATTTTTAAAAT
3510926 ATT
1 ATT
3510929 AAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:3510933 original size:27 final size:29
Alignment explanation
Indices: 3510892--3510946 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
3510882 TCTAATATAA
*
3510892 AAAATATTTAGAATTTTTAAAATATTTTT
1 AAAATATTTAGAATTTTAAAAATATTTTT
3510921 AAAATA-TTA-AATTTTAAAAATATTTT
1 AAAATATTTAGAATTTTAAAAATATTTT
3510947 AGTCCCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.64
28 3 0.12
29 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AAAATATTTAGAATTTTAAAAATATTTTT
Found at i:3510988 original size:18 final size:18
Alignment explanation
Indices: 3510965--3511003 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3510955 ATATAAAAAT
3510965 ATTTTTTGAAATAT-ATTA
1 ATTTTTT-AAATATAATTA
*
3510983 ATTTTTTATATATAATTA
1 ATTTTTTAAATATAATTA
3511001 ATT
1 ATT
3511004 ATTAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTTTTAAATATAATTA
Found at i:3511021 original size:21 final size:19
Alignment explanation
Indices: 3510975--3511023 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
3510965 ATTTTTTGAA
* *
3510975 ATATATTAATTTTTTATAT
1 ATATATTAATTATTAATAT
3510994 ATA-ATTAATTATTAATAAT
1 ATATATTAATTATTAAT-AT
3511013 ATCATATTAAT
1 AT-ATATTAAT
3511024 AATAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 7 0.28
20 1 0.04
21 6 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATTAATTATTAATAT
Found at i:3511067 original size:16 final size:13
Alignment explanation
Indices: 3511042--3511111 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 13
3511032 TATTATCATC
*
3511042 ATTTATATTAATCA
1 ATTTAAATTAAT-A
3511056 ATTATAAAATTAATA
1 ATT-T-AAATTAATA
3511071 ATTTAAATTAATA
1 ATTTAAATTAATA
**
3511084 TATCGAAATTAATA
1 -ATTTAAATTAATA
*
3511098 TTATTTTAATTAAT
1 --ATTTAAATTAAT
3511112 TTAAATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
13 9 0.20
14 15 0.33
15 15 0.33
16 7 0.15
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (13 bp):
ATTTAAATTAATA
Found at i:3516343 original size:13 final size:13
Alignment explanation
Indices: 3516325--3516351 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3516315 AATGAATGAA
3516325 TAAAAATTAAAAT
1 TAAAAATTAAAAT
3516338 TAAAAATTAAAAT
1 TAAAAATTAAAAT
3516351 T
1 T
3516352 GATAGCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:3516470 original size:29 final size:28
Alignment explanation
Indices: 3516438--3516500 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
3516428 TTTTTAATAA
**
3516438 AAATATTGATAAAATTTTTATTATTAAAT
1 AAATATTGATAAAATTTAAATTA-TAAAT
* *
3516467 AAATATCGATTAAATTTAAATTATAAAT
1 AAATATTGATAAAATTTAAATTATAAAT
3516495 -AATATT
1 AAATATT
3516501 TTTAATAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 5 0.17
28 5 0.17
29 19 0.66
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (28 bp):
AAATATTGATAAAATTTAAATTATAAAT
Found at i:3518768 original size:18 final size:18
Alignment explanation
Indices: 3518745--3518779 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3518735 ATCGGAATCA
3518745 AAGTCATCTTCATCATCC
1 AAGTCATCTTCATCATCC
3518763 AAGTCATCTTCATCATC
1 AAGTCATCTTCATCATC
3518780 TTCATGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.34
Consensus pattern (18 bp):
AAGTCATCTTCATCATCC
Found at i:3519365 original size:36 final size:36
Alignment explanation
Indices: 3519323--3519399 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
3519313 GACACTCAGA
*
3519323 TTTTTTGATTGCTTCACAGACAGCATTTTGCAGCTC
1 TTTTTTGATTGCTTCACAGACAGCATCTTGCAGCTC
3519359 TTTTTTGATTGCTTCACAGACAGCATCTTGCAGCTC
1 TTTTTTGATTGCTTCACAGACAGCATCTTGCAGCTC
3519395 TTTTT
1 TTTTT
3519400 CAGTCCTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (36 bp):
TTTTTTGATTGCTTCACAGACAGCATCTTGCAGCTC
Found at i:3522326 original size:18 final size:17
Alignment explanation
Indices: 3522302--3522346 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
3522292 ATCCGTTGAA
3522302 TATTTAAAATATTTAAATT
1 TATTTAAAATATTT--ATT
3522321 TA-TTAAAATATTTATT
1 TATTTAAAATATTTATT
3522337 TATTTAAAAT
1 TATTTAAAAT
3522347 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.20
17 7 0.28
18 11 0.44
19 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTAAAATATTTATT
Found at i:3522333 original size:27 final size:28
Alignment explanation
Indices: 3522300--3522365 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
3522290 AAATCCGTTG
*
3522300 AATATTTAAAATATTT-AAATTTATTAA
1 AATATTTAAAATATTTAAAATTTATCAA
**
3522327 AATATTT-ATTTATTTAAAATTTATCAA
1 AATATTTAAAATATTTAAAATTTATCAA
3522354 AATA--TAAAATAT
1 AATATTTAAAATAT
3522366 AAATTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 10 0.31
27 21 0.66
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AATATTTAAAATATTTAAAATTTATCAA
Found at i:3522543 original size:17 final size:16
Alignment explanation
Indices: 3522515--3522546 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
3522505 TTTATTATTT
3522515 ATTTAAATTTAAATAA
1 ATTTAAATTTAAATAA
3522531 ATTTAAATATTAAATA
1 ATTTAAAT-TTAAATA
3522547 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:3525428 original size:2 final size:2
Alignment explanation
Indices: 3525421--3525452 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3525411 GCACTTATCC
3525421 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3525453 CACGTGAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3530667 original size:14 final size:15
Alignment explanation
Indices: 3530637--3530670 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3530627 CGATTTTATC
*
3530637 AATATTTTTATTAAA
1 AATATTTATATTAAA
3530652 AATATTTATA-TAAA
1 AATATTTATATTAAA
3530666 AATAT
1 AATAT
3530671 ATAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTATATTAAA
Found at i:3553076 original size:49 final size:49
Alignment explanation
Indices: 3553004--3553104 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
3552994 GGAGTACCCT
3553004 CAAGGTGAGCAAACTGGTACCAGTAAAAACTGCACAGTAGAAGGTTCTA
1 CAAGGTGAGCAAACTGGTACCAGTAAAAACTGCACAGTAGAAGGTTCTA
3553053 CAAGGTGAGCAAACTGGTACCAGTAAAAACTGCACAGTAGAAGGTTCTA
1 CAAGGTGAGCAAACTGGTACCAGTAAAAACTGCACAGTAGAAGGTTCTA
3553102 CAA
1 CAA
3553105 TGCCTTAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.18
Consensus pattern (49 bp):
CAAGGTGAGCAAACTGGTACCAGTAAAAACTGCACAGTAGAAGGTTCTA
Found at i:3568781 original size:25 final size:23
Alignment explanation
Indices: 3568736--3568787 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
3568726 TATCTATAAC
3568736 ATTTATTATATAATAAAAAA-TT
1 ATTTATTATATAATAAAAAATTT
*
3568758 ATTTATTATATTAAATCAACAAATTT
1 ATTTATTATA-T-AAT-AAAAAATTT
3568784 ATTT
1 ATTT
3568788 CAATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 10 0.40
23 1 0.04
24 3 0.12
25 5 0.20
26 6 0.24
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTATTATATAATAAAAAATTT
Found at i:3574691 original size:47 final size:47
Alignment explanation
Indices: 3574622--3574715 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
3574612 CACTCCATCT
3574622 TGCGTTGCTTTAGTGCTCAGGTAAAACGGTTGAAACAATGTGGTTAG
1 TGCGTTGCTTTAGTGCTCAGGTAAAACGGTTGAAACAATGTGGTTAG
* *
3574669 TGCGTTGCTTTAGTGCTCAGGTAAAATGGTTGAGACAATGTGGTTAG
1 TGCGTTGCTTTAGTGCTCAGGTAAAACGGTTGAAACAATGTGGTTAG
3574716 CGTGGGTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (47 bp):
TGCGTTGCTTTAGTGCTCAGGTAAAACGGTTGAAACAATGTGGTTAG
Found at i:3578101 original size:21 final size:20
Alignment explanation
Indices: 3578075--3578128 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 20
3578065 AGATATTAGT
*
3578075 AATAAAATTTAAAATAACAAA
1 AATAAAATTCAAAA-AACAAA
3578096 AATAAAATTCAAAAAAC--A
1 AATAAAATTCAAAAAACAAA
3578114 AA-AAAATTCAAAAAA
1 AATAAAATTCAAAAAA
3578129 AATTTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 13 0.41
18 3 0.09
20 3 0.09
21 13 0.41
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAAATTCAAAAAACAAA
Found at i:3579068 original size:23 final size:24
Alignment explanation
Indices: 3579019--3579068 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
3579009 TGCCCCTACC
* *
3579019 TTTTTGTTTTTTTTGTTCTTTGAA
1 TTTTTGTTGTTTTTGTTCTTTCAA
* *
3579043 TTTTT-TTGTTTTTGTTTTTTCTA
1 TTTTTGTTGTTTTTGTTCTTTCAA
3579066 TTT
1 TTT
3579069 CATTATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.06, C:0.04, G:0.10, T:0.80
Consensus pattern (24 bp):
TTTTTGTTGTTTTTGTTCTTTCAA
Found at i:3581128 original size:29 final size:29
Alignment explanation
Indices: 3581094--3581153 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
3581084 CTAATTTCAC
3581094 CTCCATCATTATTTTTAATCTCACCAAAA
1 CTCCATCATTATTTTTAATCTCACCAAAA
*
3581123 CTCCATCATTATTTTTAATTTCACCAAAA
1 CTCCATCATTATTTTTAATCTCACCAAAA
3581152 CT
1 CT
3581154 AATCCCAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (29 bp):
CTCCATCATTATTTTTAATCTCACCAAAA
Found at i:3581444 original size:2 final size:2
Alignment explanation
Indices: 3581437--3581461 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3581427 TGGGTATGTA
3581437 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
3581462 AAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3581468 original size:2 final size:2
Alignment explanation
Indices: 3581463--3581490 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3581453 TGTGTGTGTA
3581463 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3581491 TATAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3586154 original size:27 final size:27
Alignment explanation
Indices: 3586099--3586157 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
3586089 TTATTAAAAA
*
3586099 ATTTATTTATAATTTAAATTTAATTAAT
1 ATTTATTTATAA-TTAAATTTAATGAAT
*
3586127 ATTTATTTAATAA-TAAATTTTATGAAT
1 ATTTATTT-ATAATTAAATTTAATGAAT
3586154 ATTT
1 ATTT
3586158 TTATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.57
28 8 0.29
29 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
ATTTATTTATAATTAAATTTAATGAAT
Found at i:3586169 original size:28 final size:27
Alignment explanation
Indices: 3586099--3586169 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
3586089 TTATTAAAAA
** *
3586099 ATTTATTTATAATTTAAATTTAATTAAT
1 ATTTATTTA-AAAATAAATTTAATGAAT
* *
3586127 ATTTATTTAATAATAAATTTTATGAAT
1 ATTTATTTAAAAATAAATTTAATGAAT
*
3586154 ATTTTTATTAAAAATA
1 ATTTAT-TTAAAAATA
3586170 TTTATCTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTTATTTAAAAATAAATTTAATGAAT
Found at i:3589515 original size:130 final size:132
Alignment explanation
Indices: 3589265--3589521 Score: 374
Period size: 130 Copynumber: 2.0 Consensus size: 132
3589255 GACAATAAAC
*
3589265 TTTGAAGTCTTATTTTTTGAACCAACAGCGGCAGCAAGTGCCTGACAACACTGAAAAAGAAAGAA
1 TTTGAAGTCTCATTTTTTGAACCAACAGCGGCAGCAAGTGCCTGACAACACTGAAAAAGAAAGAA
** *
3589330 CAAAAATTCACTGATGGTCAGGACAAGATATGGATGTACATCAATGAGAAGTTTCACTATAACGT
66 CAAAAATTCACTGATGGTCAACACAAGATATGGATGTACATCAAAGAGAAGTTTCACTATAACGT
3589395 AA
131 AA
* * * *
3589397 TTTGAAGTCTCATTTTTTGAAGCAACAGTGGCAGCCAGTGCCTGACAATACTG-AAAA-AAAGAA
1 TTTGAAGTCTCATTTTTTGAACCAACAGCGGCAGCAAGTGCCTGACAACACTGAAAAAGAAAGAA
** * * * *
3589460 TGAAAATTCACTGATGGTTAACACAAGGTATGGGTGTACATCAAAGAGAAGTTTCATTATAA
66 CAAAAATTCACTGATGGTCAACACAAGATATGGATGTACATCAAAGAGAAGTTTCACTATAA
3589522 TATAATTGCC
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
130 59 0.53
131 4 0.04
132 48 0.43
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (132 bp):
TTTGAAGTCTCATTTTTTGAACCAACAGCGGCAGCAAGTGCCTGACAACACTGAAAAAGAAAGAA
CAAAAATTCACTGATGGTCAACACAAGATATGGATGTACATCAAAGAGAAGTTTCACTATAACGT
AA
Found at i:3590817 original size:1 final size:1
Alignment explanation
Indices: 3590774--3590798 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3590764 TTTGAAACAG
3590774 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
3590799 CCTTATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3593417 original size:15 final size:15
Alignment explanation
Indices: 3593397--3593429 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3593387 AGATGGATTC
3593397 TTTTTCTTCTTTCTT
1 TTTTTCTTCTTTCTT
*
3593412 TTTTTCTTTTTTCTT
1 TTTTTCTTCTTTCTT
3593427 TTT
1 TTT
3593430 CCTCTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTCTTTCTT
Found at i:3601300 original size:215 final size:215
Alignment explanation
Indices: 3600809--3601305 Score: 490
Period size: 215 Copynumber: 2.3 Consensus size: 215
3600799 ACTAACGTTT
*** * * * *
3600809 CAATAATATCTTTTTACGTTTGTTATTACTTTTCATTATATATAAAATTATTACAATTTTTTTGT
1 CAATAATATCTTTTTATACTTATTA-TACTTTT-ATTACATTTAAAATTATTACAACTTTTTT-T
* * *
3600874 TAAGGTGTAATGATACTTCTAACCATTTTACATAAAATAATACTAATTTTACGATTATTCTCACC
63 AAAGGTGTAACGATACTTCTAACCATTTAACATAAAATAATACTAATTTTACGATTATTCTCACC
* *
3600939 ATTTATGTTAACTTTTATTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACAT
128 ATTTATATTAACTTTTATTTTTTGTTTAAAATTATTATTTATTTGTAATAATAATTTTTTTACAT
*
3601004 TACCAACTTAATTATTTACATTA
193 TACCAACATAATTATTTACATTA
* * * * ** *
3601027 TAATAATATCTTTTTATGCTTATTA-CCTTTCATTACATTTATGATTATTATAACTTTTTTTAAA
1 CAATAATATCTTTTTATACTTATTATACTTTTATTACATTTAAAATTATTACAACTTTTTTTAAA
* * * * *
3601091 GTTGTTACGATACTTCTAACCATTTAAC-TCCAAATGATA-TCAATTTTATGATTAATT-TCA-C
66 GGTGTAACGATACTTCTAACCATTTAACAT-AAAATAATACT-AATTTTACGATT-ATTCTCACC
* *
3601152 ATTTTTTATTAA-TATTTATTTTTTAGTTTAGAATTATTATTTATTTGTAATAAT-A-TTTTTTA
128 A-TTTATATTAACT-TTTATTTTTT-GTTTAAAATTATTATTTATTTGTAATAATAATTTTTTTA
** ** *
3601214 TGTTGTCAA-ATACATTATTTATATTA
190 CATTACCAACATA-ATTATTTACATTA
* * * * *
3601240 CAGTAATGTTTTTTTATACTTGTTCATACTTTTATTACATTTAAAATTATCACAACTTTTTGTTA
1 CAATAATATCTTTTTATACTTATT-ATACTTTTATTACATTTAAAATTATTACAACTTTTT-TTA
3601305 A
64 A
3601306 GCTGATATGA
Statistics
Matches: 227, Mismatches: 42, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
212 2 0.01
213 47 0.21
214 68 0.30
215 81 0.36
216 8 0.04
218 21 0.09
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.52
Consensus pattern (215 bp):
CAATAATATCTTTTTATACTTATTATACTTTTATTACATTTAAAATTATTACAACTTTTTTTAAA
GGTGTAACGATACTTCTAACCATTTAACATAAAATAATACTAATTTTACGATTATTCTCACCATT
TATATTAACTTTTATTTTTTGTTTAAAATTATTATTTATTTGTAATAATAATTTTTTTACATTAC
CAACATAATTATTTACATTA
Found at i:3603884 original size:18 final size:18
Alignment explanation
Indices: 3603861--3603914 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
3603851 ATAAAGGATG
3603861 TGGTAATGTCAAAACTTA
1 TGGTAATGTCAAAACTTA
*
3603879 TGGTAA-GAATTAAAACTTA
1 TGGTAATG--TCAAAACTTA
*
3603898 TGATAATGTCAAAACTT
1 TGGTAATGTCAAAACTT
3603915 TTATGGTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.03
18 14 0.47
19 14 0.47
20 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (18 bp):
TGGTAATGTCAAAACTTA
Found at i:3604419 original size:19 final size:19
Alignment explanation
Indices: 3604395--3604440 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
3604385 ACTCTTCAAA
*
3604395 AAAATTTTAAAATTTTTTG
1 AAAATTTTAAAAATTTTTG
3604414 AAAATTTTAAAAATTTTTG
1 AAAATTTTAAAAATTTTTG
3604433 AAAATTTT
1 AAAATTTT
3604441 CTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
AAAATTTTAAAAATTTTTG
Found at i:3604512 original size:34 final size:33
Alignment explanation
Indices: 3604408--3604513 Score: 83
Period size: 34 Copynumber: 3.1 Consensus size: 33
3604398 ATTTTAAAAT
*
3604408 TTTTTGAAAAT-TTTAAAAATTTTTGAAAATTT-
1 TTTTTAAAAATCTTT-AAAATTTTTGAAAATTTA
** * * *
3604440 TCTTTTCAAAAA-CATTTAAAAACTTTCAGACATCTA
1 T-TTTT-AAAAATC-TTTAAAATTTTTGA-AAATTTA
3604476 TTTTTAAAAATCTTTAAAATTTTTTGAAAATTTA
1 TTTTTAAAAATCTTTAAAA-TTTTTGAAAATTTA
3604510 TTTT
1 TTTT
3604514 CAAACAATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
32 1 0.02
33 4 0.07
34 33 0.60
35 16 0.29
36 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (33 bp):
TTTTTAAAAATCTTTAAAATTTTTGAAAATTTA
Found at i:3606071 original size:28 final size:28
Alignment explanation
Indices: 3606016--3606071 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
3606006 GCATCAAGCT
* * *
3606016 TTTTTTTTATCTATTTATTTATTTATTA
1 TTTTTTTTATCTATTAATTAATTAATTA
* *
3606044 TTTTTTTTGTTTATTAATTAATTAATTA
1 TTTTTTTTATCTATTAATTAATTAATTA
3606072 AATTGGAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (28 bp):
TTTTTTTTATCTATTAATTAATTAATTA
Found at i:3606233 original size:59 final size:61
Alignment explanation
Indices: 3606151--3606301 Score: 177
Period size: 59 Copynumber: 2.5 Consensus size: 61
3606141 AAAAAAATAC
* ***
3606151 TTTTGA-GAAAAGTTGAAAATATCAATTTTCT-TTAAAAATAAAGA-TTTCAAGAA-TGGAT
1 TTTTGAGGAAAAGTTGAAAATATCAATTTTCTCTTAAAAATAAA-ATTTTCAAAAACAAAAT
* *
3606209 TTTTGAGGAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAAAATTTTCAAAAACAAAAT
1 TTTTGAGGAAAAGTTGAAAATATCAATTTTCTCTTAAAAATAAAATTTTCAAAAACAAAAT
* *
3606269 TTTTAAGGAAAAATTGAAAATATCAAATTTTCT
1 TTTTGAGGAAAAGTTGAAAATATC-AATTTTCT
3606302 AGAAAATAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
58 8 0.10
59 40 0.51
60 23 0.29
61 6 0.08
62 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (61 bp):
TTTTGAGGAAAAGTTGAAAATATCAATTTTCTCTTAAAAATAAAATTTTCAAAAACAAAAT
Found at i:3606279 original size:60 final size:57
Alignment explanation
Indices: 3606121--3606353 Score: 187
Period size: 60 Copynumber: 4.1 Consensus size: 57
3606111 TTTTTCAATT
* * *
3606121 ATTTT-TT-AAAATAAAAATT-AAAAAAAATACTTTTGA-GAAAAGTTGAAAATATCA
1 ATTTTCTTGAAAATAAAATTTCAAAAAAAA-ATTTTTAAGGAAAAGTTGAAAATATCA
* * *** * *
3606175 ATTTTCTTTAAAAATAAAGATTTCAAGAATGGATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTC-TTGAAAATAAA-ATTTCAAAAAAAAATTTTTAAGGAAAAGTTGAAAATATCA
*
3606234 ATTTTTCTTGAAAATAAAATTTTCAAAAACAAAATTTTTAAGGAAAAATTGAAAATATCAA
1 A-TTTTCTTGAAAATAAAA-TTTCAAAAA-AAAATTTTTAAGGAAAAGTTGAAAATATC-A
* * * *
3606295 ATTTTCTAGAAAATAAAAATATC-----AAAATGCTTTAAGAAAAAGTTGAAAATATCA
1 ATTTTCTTGAAAAT-AAAATTTCAAAAAAAAAT-TTTTAAGGAAAAGTTGAAAATATCA
3606349 ATTTT
1 ATTTT
3606354 TTTTGTATAA
Statistics
Matches: 147, Mismatches: 20, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
54 16 0.11
55 21 0.14
56 2 0.01
57 8 0.05
58 11 0.07
59 40 0.27
60 43 0.29
61 6 0.04
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (57 bp):
ATTTTCTTGAAAATAAAATTTCAAAAAAAAATTTTTAAGGAAAAGTTGAAAATATCA
Found at i:3606299 original size:27 final size:26
Alignment explanation
Indices: 3606269--3606354 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
3606259 AAAACAAAAT
3606269 TTTTAAGGAAAAATTGAAAATATCAAA
1 TTTTAA-GAAAAATTGAAAATATCAAA
* *
3606296 TTTTCTAG-AAAA-TAAAAATATCAAAA
1 TTTT-AAGAAAAATTGAAAATATC-AAA
*
3606322 TGCTTTAAGAAAAAGTTGAAAATATCAAT
1 T--TTTAAGAAAAA-TTGAAAATATCAAA
3606351 TTTT
1 TTTT
3606355 TTTGTATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
25 9 0.19
26 8 0.17
27 10 0.21
28 8 0.17
29 3 0.06
30 9 0.19
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (26 bp):
TTTTAAGAAAAATTGAAAATATCAAA
Found at i:3610310 original size:17 final size:16
Alignment explanation
Indices: 3610288--3610346 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 16
3610278 GGATAAAGTG
3610288 AAAAAATAAAAAAGCAA
1 AAAAAATAAAAAAG-AA
* *
3610305 AAAAAAT-GAAAA-AT
1 AAAAAATAAAAAAGAA
**
3610319 AAAAAATAAAAAAGGTG
1 AAAAAATAAAAAA-GAA
3610336 AAAAAATAAAA
1 AAAAAATAAAA
3610347 TAAAGAGAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
16 4 0.12
17 18 0.53
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (16 bp):
AAAAAATAAAAAAGAA
Found at i:3610320 original size:24 final size:24
Alignment explanation
Indices: 3610286--3610346 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
3610276 ATGGATAAAG
3610286 TGAAAAAATAAAAAAGCAAAAAAAA
1 TGAAAAAATAAAAAA-CAAAAAAAA
* **
3610311 TG-AAAAATAAAAAATAAAAAAGG
1 TGAAAAAATAAAAAACAAAAAAAA
3610334 TGAAAAAATAAAA
1 TGAAAAAATAAAA
3610347 TAAAGAGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.25
24 22 0.69
25 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (24 bp):
TGAAAAAATAAAAAACAAAAAAAA
Found at i:3610340 original size:31 final size:29
Alignment explanation
Indices: 3610288--3610350 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
3610278 GGATAAAGTG
3610288 AAAAAATAAAAAAGCAAAAAAAATGAAAAAT
1 AAAAAATAAAAAAGCAAAAAAAAT--AAAAT
***
3610319 AAAAAATAAAAAAGGTGAAAAAATAAAAT
1 AAAAAATAAAAAAGCAAAAAAAATAAAAT
3610348 AAA
1 AAA
3610351 GAGAGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.28
31 21 0.72
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (29 bp):
AAAAAATAAAAAAGCAAAAAAAATAAAAT
Found at i:3611743 original size:17 final size:17
Alignment explanation
Indices: 3611723--3611783 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
3611713 AATCTAAAAG
3611723 TCTTGTGAATCTCCAAT
1 TCTTGTGAATCTCCAAT
** * **
3611740 TCTTGCAAATTTGAAAGT
1 TCTTGTGAATCTCCAA-T
3611758 T-TTGTGAATCTCCAAT
1 TCTTGTGAATCTCCAAT
*
3611774 TGTTGTGAAT
1 TCTTGTGAAT
3611784 TTCAATGTCT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
16 2 0.06
17 28 0.88
18 2 0.06
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (17 bp):
TCTTGTGAATCTCCAAT
Found at i:3611767 original size:34 final size:34
Alignment explanation
Indices: 3611611--3611774 Score: 159
Period size: 34 Copynumber: 4.8 Consensus size: 34
3611601 GTGAATCTTC
* * *
3611611 AATCTGAAAGTCTTGCGAATCT-GAATGTCTTACA
1 AATCTAAAAGTCTTGTGAATCTCCAAT-TCTTACA
* * * * *
3611645 AATTTAAAAGCCTTGTAAATTTCTAATTCTTACA
1 AATCTAAAAGTCTTGTGAATCTCCAATTCTTACA
* * * * *
3611679 AATCTAAATGTCTTGCGAATATTCGATTCTTACA
1 AATCTAAAAGTCTTGTGAATCTCCAATTCTTACA
*
3611713 AATCTAAAAGTCTTGTGAATCTCCAATTCTTGCA
1 AATCTAAAAGTCTTGTGAATCTCCAATTCTTACA
* * *
3611747 AATTTGAAAGTTTTGTGAATCTCCAATT
1 AATCTAAAAGTCTTGTGAATCTCCAATT
3611775 GTTGTGAATT
Statistics
Matches: 104, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
34 101 0.97
35 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (34 bp):
AATCTAAAAGTCTTGTGAATCTCCAATTCTTACA
Found at i:3611836 original size:34 final size:34
Alignment explanation
Indices: 3611798--3611872 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
3611788 ATGTCTTACA
3611798 AATCTTTAATTCTTGTGAATATGAAAATAGTACG
1 AATCTTTAATTCTTGTGAATATGAAAATAGTACG
* * **
3611832 AATCTCTAATTCTTGTGAATTTGAAAATCTTACG
1 AATCTTTAATTCTTGTGAATATGAAAATAGTACG
3611866 AATCTTT
1 AATCTTT
3611873 TAAATGTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (34 bp):
AATCTTTAATTCTTGTGAATATGAAAATAGTACG
Found at i:3611918 original size:34 final size:34
Alignment explanation
Indices: 3611879--3611945 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
3611869 CTTTTAAATG
*
3611879 TCTTACGAATCTCCAATTCTTGTGAATCTGAAAA
1 TCTTACGAATCTCCAATTCTTATGAATCTGAAAA
* *
3611913 TCTTACGAATCTCTAATTCTTATGAATTTGAAA
1 TCTTACGAATCTCCAATTCTTATGAATCTGAAA
3611946 GTTTTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (34 bp):
TCTTACGAATCTCCAATTCTTATGAATCTGAAAA
Found at i:3611933 original size:17 final size:17
Alignment explanation
Indices: 3611828--3611939 Score: 71
Period size: 17 Copynumber: 6.4 Consensus size: 17
3611818 ATGAAAATAG
3611828 TACGAATCTCTAATTCT
1 TACGAATCTCTAATTCT
** * ** *
3611845 TGTGAATTTGAAAATCT
1 TACGAATCTCTAATTCT
*
3611862 TACGAATCTTTTAAATGTCT
1 TACGAATC-TCT-AAT-TCT
*
3611882 TACGAATCTCCAATTCT
1 TACGAATCTCTAATTCT
** ** *
3611899 TGTGAATCTGAAAATCT
1 TACGAATCTCTAATTCT
3611916 TACGAATCTCTAATTCT
1 TACGAATCTCTAATTCT
*
3611933 TATGAAT
1 TACGAAT
3611940 TTGAAAGTTT
Statistics
Matches: 67, Mismatches: 25, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
17 49 0.73
18 4 0.06
19 3 0.04
20 11 0.16
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (17 bp):
TACGAATCTCTAATTCT
Found at i:3612337 original size:85 final size:85
Alignment explanation
Indices: 3612173--3612757 Score: 431
Period size: 85 Copynumber: 6.9 Consensus size: 85
3612163 CTGTAAAGTC
* * * * * **
3612173 AGACTTCGGTTCCAT-CATGGTCATTTTGTTTTCGGATTTCGGCCTATGCCAGATCTTTCTTTGG
1 AGACTTCGGTTCCATCCA-AGTCATTTTATTTTCGAATTTTGACCTATGCCAGATCCCTCTTTGG
3612237 TTTAGTCC-AGATTATTCATTTT
65 TTTAGTCCAAG-TTATTC-TTTT
* * * * ** *
3612259 AGACTTCGATTCCATCCAAGTCATTTTATTTTTGGA-TTCGACCTATGCCAGATCTTTCTTTAGT
1 AGACTTCGGTTCCATCCAAGTCATTTTATTTTCGAATTTTGACCTATGCCAGATCCCTCTTTGGT
**
3612323 TTAGTTTAAGTTATTCTTTTT
66 TTAGTCCAAGTTATTC-TTTT
* * * * * *
3612344 AGACTTCGATTCCATCTAAGTCATTTCA-TTTCAAATTTTGACTTATGTCA-AGTCCCTCTTTGG
1 AGACTTCGGTTCCATCCAAGTCATTTTATTTTCGAATTTTGACCTATGCCAGA-TCCCTCTTTGG
*
3612407 TTTAGTCTAAGTTATTCTTTT
65 TTTAGTCCAAGTTATTCTTTT
* * ** * * * *
3612428 AGACTTTGGTTTCATCCAAGTCATTTCGTTTT-GAATTTTAACTTATGTCA-AGTCCCTCTTCGG
1 AGACTTCGGTTCCATCCAAGTCATTTTATTTTCGAATTTTGACCTATGCCAGA-TCCCTCTTTGG
*
3612491 TTTAGTCTAAGTTATTCTTTT
65 TTTAGTCCAAGTTATTCTTTT
* * * * * * **
3612512 AGACTTCGGTTTCATCCAGGTC-TTTTCA-TTTC-AAATTTAACCTATGCCAGATTCTTCTTCAG
1 AGACTTCGGTTCCATCCAAGTCATTTT-ATTTTCGAATTTTGACCTATGCCAGATCCCTCTTTGG
* *
3612574 CTTAGTCCAAGTTATTCGTTTC
65 TTTAGTCCAAGTTATTC-TTTT
** * * * * * *
3612596 AGACTTCAATTCAATCCAAGTCATTTTATATTT-GGATTTTGACTTATGTCAGATCCCTCTTCGA
1 AGACTTCGGTTCCATCCAAGTCATTTTAT-TTTCGAATTTTGACCTATGCCAGATCCCTCTTTGG
* * *
3612660 CTTATTCCAAGTTATTCACTTT
65 TTTAGTCCAAGTTATTC-TTTT
* * ** * *
3612682 AGACTTCGGTTCAATCC-AGATCATTTTATTTT-GAATTTTGACTTATGTTAAATCCTTCTTTGG
1 AGACTTCGGTTCCATCCAAG-TCATTTTATTTTCGAATTTTGACCTATGCCAGATCCCTCTTTGG
* *
3612745 CTTAGTTCAAGTT
65 TTTAGTCCAAGTT
3612758 GTTCGTTTCA
Statistics
Matches: 415, Mismatches: 70, Indels: 29
0.81 0.14 0.06
Matches are distributed among these distances:
83 43 0.10
84 123 0.30
85 150 0.36
86 97 0.23
87 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (85 bp):
AGACTTCGGTTCCATCCAAGTCATTTTATTTTCGAATTTTGACCTATGCCAGATCCCTCTTTGGT
TTAGTCCAAGTTATTCTTTT
Found at i:3612466 original size:84 final size:86
Alignment explanation
Indices: 3612230--3612750 Score: 431
Period size: 84 Copynumber: 6.2 Consensus size: 86
3612220 GCCAGATCTT
* * * * *
3612230 TCTTTGGTTTAGTC-CAGATTATTCATTTTAGACTTCGATTCCATCCAAGTCATTTTATTTTTGG
1 TCTTTGGTTTAGTCTAAG-TTATTCATTTTAGACTTCGGTTTCATCCAAGTCATTTCA-TTTTGA
* * * **
3612294 A-TTCGACCTATG-CCAGATCTT
64 ATTTTGACTTATGTCAAGATCCC
* * * * * * **
3612315 TCTTTAGTTTAGTTTAAGTTATTCTTTTTAGACTTCGATTCCATCTAAGTCATTTCATTTCAAAT
1 TCTTTGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTCATCCAAGTCATTTCATTTTGAAT
3612380 TTTGACTTATGTCAAG-TCCC
66 TTTGACTTATGTCAAGATCCC
* *
3612400 TCTTTGGTTTAGTCTAAGTTATTC-TTTTAGACTTTGGTTTCATCCAAGTCATTTCGTTTTGAAT
1 TCTTTGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTCATCCAAGTCATTTCATTTTGAAT
*
3612464 TTTAACTTATGTCAAG-TCCC
66 TTTGACTTATGTCAAGATCCC
* * * * *
3612484 TCTTCGGTTTAGTCTAAGTTATTC-TTTTAGACTTCGGTTTCATCCAGGTCTTTTCA-TTTCAAA
1 TCTTTGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTCATCCAAGTCATTTCATTTTGAAT
* * * * *
3612547 TTTAACCTATG-CCAGATTCT
66 TTTGACTTATGTCAAGATCCC
** * * * * ** * *
3612567 TCTTCAGCTTAGTCCAAGTTATTCGTTTCAGACTTC-AATTCAATCCAAGTCATTTTATATTTGG
1 TCTTTGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTC-ATCCAAGTCATTTCAT-TTTGA
3612631 ATTTTGACTTATGTC-AGATCCC
64 ATTTTGACTTATGTCAAGATCCC
* ** * * * *
3612653 TCTTCGACTTATTCCAAGTTATTCACTTTAGACTTCGG-TTCAATCC-AGATCATTTTATTTTGA
1 TCTTTGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTC-ATCCAAG-TCATTTCATTTTGA
* *
3612716 ATTTTGACTTATGTTAA-ATCCT
64 ATTTTGACTTATGTCAAGATCCC
*
3612738 TCTTTGGCTTAGT
1 TCTTTGGTTTAGT
3612751 TCAAGTTGTT
Statistics
Matches: 360, Mismatches: 64, Indels: 24
0.80 0.14 0.05
Matches are distributed among these distances:
82 3 0.01
83 41 0.11
84 129 0.36
85 115 0.32
86 71 0.20
87 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (86 bp):
TCTTTGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTCATCCAAGTCATTTCATTTTGAAT
TTTGACTTATGTCAAGATCCC
Found at i:3612616 original size:168 final size:170
Alignment explanation
Indices: 3612238--3612712 Score: 412
Period size: 169 Copynumber: 2.8 Consensus size: 170
3612228 TTTCTTTGGT
* * * * * **
3612238 TTAGTCC-AGATTATTCATTTTAGAC-TTCGATTCCATCCAAGTCATTTTATTTTTGGA-TTCGA
1 TTAGTCCAAG-TTATTC-TTTCAGACTTTCAATT-CATCCAAGTCATTTCATATTTGAATTTTAA
* * ** ** * * * * * *
3612300 CCTATGCCAGATCTTTCTTTAGTTTAGTTTAAGTTATTCTTTTTAGACTTCGATTCCATCTAAGT
63 CTTATGTCAGATCCCTCTTCGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTCATCCAGGT
* * * ** *
3612365 CATTTCATTTCAAATTTTGACTTATGTCAAGTCCCTCTTTGGT
128 CATTTCATTTCAAATTTTAACCTATGCCAAGTCCCTCTTCAGC
* * *** *
3612408 TTAGTCTAAGTTATTCTTTTAGACTTTGGTTTCATCCAAGTCATTTCGT-TTTGAATTTTAACTT
1 TTAGTCCAAGTTATTCTTTCAGACTTTCAATTCATCCAAGTCATTTCATATTTGAATTTTAACTT
*
3612472 ATGTCA-AGTCCCTCTTCGGTTTAGTCTAAGTTATTC-TTTTAGACTTCGGTTTCATCCAGGTCT
66 ATGTCAGA-TCCCTCTTCGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTCATCCAGGTCA
* *
3612535 TTTCATTTCAAA-TTTAACCTATGCC-AGATTCTTCTTCAGC
130 TTTCATTTCAAATTTTAACCTATGCCAAG-TCCCTCTTCAGC
* * *
3612575 TTAGTCCAAGTTATTCGTTTCAGAC-TTCAATTCAATCCAAGTCATTTTATATTTGGATTTTGAC
1 TTAGTCCAAGTTATTC-TTTCAGACTTTCAATTC-ATCCAAGTCATTTCATATTTGAATTTTAAC
** * * * *
3612639 TTATGTCAGATCCCTCTTCGACTTATTCCAAGTTATTCACTTTAGACTTCGG-TTCAATCCAGAT
64 TTATGTCAGATCCCTCTTCGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTC-ATCCAGGT
*
3612703 CATTTTATTT
128 CATTTCATTT
3612713 TGAATTTTGA
Statistics
Matches: 249, Mismatches: 45, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
166 2 0.01
167 37 0.15
168 61 0.24
169 102 0.41
170 45 0.18
171 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (170 bp):
TTAGTCCAAGTTATTCTTTCAGACTTTCAATTCATCCAAGTCATTTCATATTTGAATTTTAACTT
ATGTCAGATCCCTCTTCGGTTTAGTCTAAGTTATTCATTTTAGACTTCGGTTTCATCCAGGTCAT
TTCATTTCAAATTTTAACCTATGCCAAGTCCCTCTTCAGC
Found at i:3613814 original size:4 final size:4
Alignment explanation
Indices: 3613801--3613886 Score: 81
Period size: 4 Copynumber: 22.0 Consensus size: 4
3613791 CAATGTTTTT
*
3613801 TTTA TCTA TTTA TTTA TTTA TTTA TTTA -TTA -TTA -TTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
3613845 TTTA TTTA TTGA TTAAA TTAGA ATTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TT-TA TT-TA TTTA TTTA TTTA TTTA TTTA
3613887 AGCATTCTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
3 12 0.17
4 54 0.75
5 6 0.08
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:3613966 original size:59 final size:58
Alignment explanation
Indices: 3613910--3614113 Score: 205
Period size: 59 Copynumber: 3.4 Consensus size: 58
3613900 TTTTCAATGA
3613910 TTTT-TTTAAAATAAAAATT-AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAAATAAAAATTCAAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * ** * *
3613967 TTTTCTTAAAAATAAAGATTTCAATAAGGAATTTTTGAGAAAAAATTGAAAGTATCAAT
1 TTTTCTTTAAAATAAA-AATTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * * *
3614026 TTTTCTTGAAAAGAAAATTTTCAAAAAAAGCATTTTTAAGGAAAAGTTGAAAGTATCAATT
1 TTTTCTTTAAAATAAAA-ATTCAAAAAAA-AATTTTTGAGGAAAAGTTGAAAGTATCAA-T
* *
3614087 TTTTTTTTCAAAATAGAAATGTCAAAA
1 TTTTCTTT-AAAATAAAAAT-TCAAAA
3614114 TGCTTTAATG
Statistics
Matches: 118, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
57 4 0.03
58 11 0.09
59 52 0.44
60 30 0.25
61 8 0.07
62 13 0.11
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (58 bp):
TTTTCTTTAAAATAAAAATTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:3618146 original size:20 final size:21
Alignment explanation
Indices: 3618107--3618146 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3618097 TAATAATTCT
3618107 TTTACATTATCAACAATATTA
1 TTTACATTATCAACAATATTA
* *
3618128 TTTATATTA-CAATAATATT
1 TTTACATTATCAACAATATT
3618147 TTTTTTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTACATTATCAACAATATTA
Done.