Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168461.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_671, 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: 18172
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Found at i:602 original size:78 final size:77
Alignment explanation
Indices: 520--689 Score: 173
Period size: 78 Copynumber: 2.2 Consensus size: 77
510 TTTTTTTTCC
* * * * *
520 TTTTTTCGTATTTCATTTA-ATT-TTATTTTTTCACTTATTTTTTATTTATATTTTAAAAATTTT
1 TTTTTTTGTATTT-ATTTATATTCTTATTTTTTCAC-TAGTTTGTA-ATATATTTTAAAAACTTT
* *
583 TTATAAAGTTCAATT
63 TTAGAAAGTTCAAAT
* * * **
598 TTTTTTTGAATCTTTTTTATTTTCTTATTTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTT
1 TTTTTTTGTAT-TTATTTATATTCTTATTTTTTCACTAGTTTGTAATATATTTTAAAAACTTTTT
663 AGAAAGTTCAAAAT
65 AGAAAGTTC-AAAT
677 TTTTTTTGTATTT
1 TTTTTTTGTATTT
690 TTTGAATCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
78 41 0.55
79 24 0.32
80 10 0.13
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.64
Consensus pattern (77 bp):
TTTTTTTGTATTTATTTATATTCTTATTTTTTCACTAGTTTGTAATATATTTTAAAAACTTTTTA
GAAAGTTCAAAT
Found at i:692 original size:78 final size:80
Alignment explanation
Indices: 566--740 Score: 216
Period size: 78 Copynumber: 2.2 Consensus size: 80
556 ATTTTTTATT
* * * * *
566 TATATTTTAAAAATTTTTTATAAAGTTCAATTTTTTTTTGAATCTTTTT-TAT-TTTCTTATTTT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAATTTTTTTTGAATCTTTTTGAATCTTTCTTATATT
**
629 TTTTCTAGTTTGTAA
66 TTTTCTACCTTGTAA
* *
644 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGTAT-TTTTTGAATCTTTTTTATAT
1 TATATTTTAAAAACTTTTTAGAAAGTTC-AAATTTTTTTTGAATCTTTTTGAATCTTTCTTATAT
708 TTTTTCTACCTTGTAA
65 TTTTTCTACCTTGTAA
*
724 T-T-TTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
741 CCCTTCACAA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 45 0.54
79 16 0.19
80 23 0.27
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (80 bp):
TATATTTTAAAAACTTTTTAGAAAGTTCAAATTTTTTTTGAATCTTTTTGAATCTTTCTTATATT
TTTTCTACCTTGTAA
Found at i:1203 original size:33 final size:33
Alignment explanation
Indices: 1146--1209 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
1136 TTTTTTCTCT
1146 TTTATTTTTTCCTTTTTTCGTATTT-TATTTAA
1 TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
*
1178 TTTATTTTTTCACTTATTTT-TTATTTATATTT
1 TTTATTTTTTC-CTT-TTTTCGTATTTATATTT
1210 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 8 0.29
34 9 0.32
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (33 bp):
TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
Found at i:1292 original size:77 final size:81
Alignment explanation
Indices: 1203--1378 Score: 229
Period size: 77 Copynumber: 2.2 Consensus size: 81
1193 ATTTTTTATT
* *
1203 TATATTTTAAAAAATTTTTATAAAGTTCAAA-TTTTTTTTTAATCTTTTTT-A-CTTTCTTAT-T
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTTAATCTTTCTTATAT
*
1264 TTTTTCTAGTTTGTAA
66 TTTTTCTACTTTGTAA
** * *
1280 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTTTGAATCTTTTTTATA
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTT-AATCTTTCTTATA
1345 TTTTTTCTACTTTGTAA
65 TTTTTTCTACTTTGTAA
*
1362 T-T-TTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
1379 CCCTTCACAA
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
77 29 0.34
78 16 0.19
80 15 0.17
81 9 0.10
82 17 0.20
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (81 bp):
TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTTAATCTTTCTTATAT
TTTTTCTACTTTGTAA
Found at i:1598 original size:631 final size:632
Alignment explanation
Indices: 245--1785 Score: 2328
Period size: 631 Copynumber: 2.4 Consensus size: 632
235 ATCTTTGGCC
245 ATTCTATTTTTTTCCCACAAATTTCC-TTCATTTC-TATTTGCG-TTTTAAATATCTCAATACTT
1 ATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAAT-TCTC-ATACTT
* * * * *
307 ATTTAATTTGGCATAAACTTTTTTCTTTTTTTTTTTCAATTTTTTTGTCTGACCTTTTTTTAATA
64 TTTTTATTTTGCATTAAC--TTTTC---TCTTTTTT-AA-TTTTTTGTCTGA-C--TTTTT-AT-
*
372 AATGGTTAAAGGGGTC-TATATG-TTTTCAATTTTTT-T-TTTTTTAAACTATTTTTTTCCTTTT
117 -ATTGTT--A--GGTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAACTATTTTTTT-CTTTT
*
433 TCTCATTCCATTTTCA-TTTTG-AATTTTTATTCAATTTTTGTTCTTTTTTATTTTCTTAC-TTT
176 TCTCATTCCA-TTTCATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTT
*
495 TA-A-TTTTTG-G------T-TGTTTTTTTTTTCCTTTTTTCGTATTTCATTTAATTTTATTTTT
240 TATATTTTTTGTGTTTTTTTCTCTTTTTTTTTTCCTTTTTTCGTATTTCATTTAATTTTATTTTT
*
550 TCACTTATTTTTTATTTATATTTTAAAAATTTTTTATAAAGTTCAATTTTTTTTTGAATCTTTTT
305 TCACTTATTTTTTATTTATATTTTAAAAAATTTTTATAAAGTTCAATTTTTTTTTGAATCTTTTT
* *
615 TATTTTCTTATTTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTT
370 TACTTTCTTATTTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAATTTT
680 TTTTGTATTTTTTGAATCTTTTTTATATTTTTTCTACCTTGTAATTTTTTAATAACTTTTTCCCT
435 TTTTGTATTTTTTGAATCTTTTTTATATTTTTTCTACCTTGTAATTTTTTAATAACTTTTTCCCT
745 TCACAATTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTCGT
500 TCACAATTTTCC-TC--TTTGC-TTTTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTCGT
*
810 TCTTTTAAAAATTTTATTTTTCTATTTTTTTATCCAAATCTTTTGTCTTTTCATTTTTATTCTTT
561 TCTTTTAAAAATTTTATTTTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTT
875 TCTTGCT
626 TCTTGCT
*
882 ATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCCCATACTTTT
1 ATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATACTTTT
947 TTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTA
66 TTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTA
*
1012 TATGTTTTTCAATTTTTTGTATTTTTTAAGCTATTTTTTTCTTTTTCTCATTCCATTTCATTTTT
131 TATGTTTTTCAATTTTTTGTATTTTTTAAACTATTTTTTTCTTTTTCTCATTCCATTTCATTTTT
1077 GAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGCTGTTTTTTT
196 GAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTG-TGTTTTTTT
*
1142 CTCTTTTATTTTTTCCTTTTTTCGTATTTTATTTAA-TTTATTTTTTCACTTATTTTTTATTTAT
260 CTCTTTT-TTTTTTCCTTTTTTCGTATTTCATTTAATTTTATTTTTTCACTTATTTTTTATTTAT
1206 ATTTTAAAAAATTTTTATAAAGTTCAAATTTTTTTTT-AATCTTTTTTACTTTCTTA-TTTTTTT
324 ATTTTAAAAAATTTTTATAAAGTTC-AATTTTTTTTTGAATCTTTTTTACTTTCTTATTTTTTTT
* * *
1269 CTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTTTGAA
388 CTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAA--ATTTTTTTTGTATTTTTTGAA
*
1334 TCTTTTTTATATTTTTTCTACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTT-C-C-T
451 TCTTTTTTATATTTTTTCTACCTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTCTT
* *
1396 T-C-TTTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCGTTGTTTTAAAAATTTTTATT
516 TGCTTTTTTCATATGCTTTCATTTTTACTTCTTTTAA-TTTTTCGTTCTTTTAAAAA-TTTTATT
1459 TTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCT
579 TTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCT
1513 ATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATACTTTT
1 ATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATACTTTT
1578 TTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTA
66 TTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTA
* * *
1643 TATGTTTTTCAATTTTTTGCATTTTTTAAACTATTTTTTTTCTTTTTGTCATTCTATTTCATTTT
131 TATGTTTTTCAATTTTTTGTATTTTTTAAACTA-TTTTTTTCTTTTTCTCATTCCATTTCATTTT
*
1708 TGAACTTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGTTGTATTTT
195 TGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTG-TGT-TTTT
* *
1773 TTTTCTCTTTTTT
258 TTCTCTTTTTTTT
1786 GGGCTTTATT
Statistics
Matches: 845, Mismatches: 30, Indels: 63
0.90 0.03 0.07
Matches are distributed among these distances:
621 4 0.00
622 6 0.01
623 19 0.02
624 21 0.02
625 60 0.07
626 5 0.01
627 3 0.00
628 11 0.01
629 32 0.04
630 20 0.02
631 233 0.28
632 95 0.11
633 18 0.02
635 1 0.00
636 54 0.06
637 102 0.12
638 142 0.17
639 11 0.01
640 8 0.01
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (632 bp):
ATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATACTTTT
TTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTA
TATGTTTTTCAATTTTTTGTATTTTTTAAACTATTTTTTTCTTTTTCTCATTCCATTTCATTTTT
GAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGTGTTTTTTTC
TCTTTTTTTTTTCCTTTTTTCGTATTTCATTTAATTTTATTTTTTCACTTATTTTTTATTTATAT
TTTAAAAAATTTTTATAAAGTTCAATTTTTTTTTGAATCTTTTTTACTTTCTTATTTTTTTTCTA
GTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAATTTTTTTTGTATTTTTTGAATCTTT
TTTATATTTTTTCTACCTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTCTTTGCTT
TTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTCGTTCTTTTAAAAATTTTATTTTTCTAT
TTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCT
Found at i:1830 original size:15 final size:15
Alignment explanation
Indices: 1812--1860 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
1802 TTTCTTTTGC
1812 TTTTATTTTTTTTCT
1 TTTTATTTTTTTTCT
1827 TTTTATTTTTTATT-T
1 TTTTATTTTTT-TTCT
*
1842 TTCTATCTTTTTTTCT
1 TTTTAT-TTTTTTTCT
1858 TTT
1 TTT
1861 ATCATTCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTTTTCT
Found at i:1835 original size:20 final size:19
Alignment explanation
Indices: 1800--1845 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
1790 TTTATTTATC
* *
1800 TTTTTCTTTTGCTTTTATTT
1 TTTTTCTTTTGATTTT-TTA
*
1820 TTTTTCTTTTTATTTTTTA
1 TTTTTCTTTTGATTTTTTA
1839 TTTTTCT
1 TTTTTCT
1846 ATCTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTGATTTTTTA
Found at i:1850 original size:23 final size:22
Alignment explanation
Indices: 1806--1862 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
1796 TATCTTTTTC
* *
1806 TTTTGCTTTTATTTTTTTTCTT
1 TTTTTCTTTTATTTTTTATCTT
1828 TTTATT-TTTTATTTTTCTATCTT
1 TTT-TTCTTTTATTTTT-TATCTT
1851 TTTTTCTTTTAT
1 TTTTTCTTTTAT
1863 CATTCTCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTATTTTTTATCTT
Found at i:1863 original size:15 final size:14
Alignment explanation
Indices: 1801--1862 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 14
1791 TTATTTATCT
1801 TTTTCTTTTGCTTTTA
1 TTTT-TTTT-CTTTTA
1817 TTTTTTTTCTTTTTA
1 TTTTTTTTC-TTTTA
1832 TTTTTTATT-TTTCTA
1 TTTTTT-TTCTTT-TA
1847 TCTTTTTTTCTTTTA
1 T-TTTTTTTCTTTTA
1862 T
1 T
1863 CATTCTCGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.10
15 23 0.56
16 14 0.34
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCTTTTA
Found at i:1868 original size:23 final size:23
Alignment explanation
Indices: 1824--1868 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1814 TTATTTTTTT
**
1824 TCTTTTTATTTTTTATTTTTCTA
1 TCTTTTTATTTTTTATCATTCTA
1847 TCTTTTT-TTCTTTTATCATTCT
1 TCTTTTTATT-TTTTATCATTCT
1869 CGGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (23 bp):
TCTTTTTATTTTTTATCATTCTA
Found at i:2932 original size:16 final size:16
Alignment explanation
Indices: 2913--2983 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 16
2903 AAAAATTTAC
2913 CTTTTTTATTTTCTTA
1 CTTTTTTATTTTCTTA
* * *
2929 CTTTTATATTTTTTGTTG
1 CTTTT-T-TATTTTCTTA
* *
2947 TTTTTTTGTTTTCTTA
1 CTTTTTTATTTTCTTA
*
2963 -TTTTTTATTTT-TTC
1 CTTTTTTATTTTCTTA
2977 CTTTTTT
1 CTTTTTT
2984 CGTGTTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
14 2 0.05
15 16 0.37
16 12 0.28
17 2 0.05
18 11 0.26
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.79
Consensus pattern (16 bp):
CTTTTTTATTTTCTTA
Found at i:2990 original size:33 final size:34
Alignment explanation
Indices: 2921--2991 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
2911 ACCTTTTTTA
* **
2921 TTTTCTTACTTTTATATTTTTTGTTGTTTTTTTG
1 TTTTCTTACTTTTATATTTTTTCTTGTTTTCGTG
*
2955 TTTTCTTA-TTTTTTATTTTTTCCTT-TTTTCGTG
1 TTTTCTTACTTTTATATTTTTT-CTTGTTTTCGTG
2988 TTTT
1 TTTT
2992 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 22 0.69
34 10 0.31
ACGTcount: A:0.07, C:0.08, G:0.07, T:0.77
Consensus pattern (34 bp):
TTTTCTTACTTTTATATTTTTTCTTGTTTTCGTG
Found at i:3623 original size:76 final size:77
Alignment explanation
Indices: 3522--3690 Score: 197
Period size: 76 Copynumber: 2.2 Consensus size: 77
3512 ATTTTTTATT
* * **
3522 TATATTTT-AAAATTTTTTATAAAGTTCAATTTTTTTTTGAATCTTTTT-AT-TTTCTTAT-TTT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTGAAT-TTTTTAATCTTT-TTATATTT
**
3583 TTTCTAGTTTGTAA
64 TTTCTACCTTGTAA
*
3597 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTGTATTTTTTGAATCTTTTTATATTTT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTGAATTTTTT-AATCTTTTTATATTTT
3662 TTCTACCTTGTAA
65 TTCTACCTTGTAA
*
3675 T-T-TTTTAATAACTTTT
1 TATATTTTAAAAACTTTT
3691 CCCTTCACAA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
75 13 0.16
76 42 0.52
77 7 0.09
78 19 0.23
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (77 bp):
TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTGAATTTTTTAATCTTTTTATATTTTT
TCTACCTTGTAA
Found at i:4005 original size:617 final size:632
Alignment explanation
Indices: 3203--4731 Score: 2507
Period size: 617 Copynumber: 2.4 Consensus size: 632
3193 TCCAAATCTT
*
3203 TTGCCATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
* * * *
3268 CTTATTTTAATTTGCATAAACTTTTCTTTTTTTTTCATTTTTTGTCTGACTTTTTATATTGTTAG
66 CTT-TTTTATTTTGCATTAACTTTTC-TCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAG
*
3333 GTCTTATATGTTTTTCAATTTTTTGTTTTTTTTAAACTATTTTTTTTCTTTTTCTCATTCCATTT
129 GTCTTATATGTTTTTCAATTTTTTGTATTTTTT-AACTATTTTTTTTCTTTTTCTCATTCCATTT
*
3398 CATTTTTGAAATTTTTATTCAATTTTTGTTCTTTTTTATTTTCTTACTTTTTATATTTTTGGTTG
193 CATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTGGTTG
*
3463 TTTTTTTCTTTTTTCC-TTTTTCGTATTTCATTTAATTTA-TTTTTCACTTATTTTTTATTTATA
258 TTTTTTTATTTTTTCCTTTTTTCGTATTTCATTTAATTTATTTTTTCACTTATTTTTTATTTATA
* *
3526 TTTT-AAAATTTTTTATAAAGTTC-AATTTTTTTTTGAATC-TTTTTATTTTCTTATTTTTTTCT
323 TTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTT-AATCTTTTTTACTTTCTTATTTTTTTCT
*
3588 AGTTTGTAATATATTTTAAAAACTTTTTAGAAAGTTCAAA-ATTTTTTTGTATTTTTTGAATC-T
387 AGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAATATTTTTTTGTATTTTTTGAATCTT
* *
3651 TTTTATATTTTTTCTACCTTGTAA-TTTTTTAATAAC-TTTTCCCTTCACAATTTTCCTTC-TTT
452 TTTTATATTTTTTCCACCTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTTCCTTCTTTT
3713 TGC-TTTTTTTCATATGCTTTCA-TTTTACTTCTTTTAA-TTTTTCGTTCTTTTAAAAATTTTTA
517 TGCTTTTTTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTA
*
3775 TTTTTCTATTTTTT-ATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTC
582 TTTTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
3825 TTGCTATTCTA-TTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTC-CATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
3888 CTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGT
66 CTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGT
3953 CTTATATG-TTTTCAATTTTTTGTATTTTTTAAGCTATTTTTTTTCTTTTTCTCATTCCATTTCA
131 CTTATATGTTTTTCAATTTTTTGTATTTTTTAA-CTATTTTTTTTCTTTTTCTCATTCCATTTCA
4017 TTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGCTGTT
195 TTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATA-TTTTTG--G--
* *
4082 TTTTTCTCTTTTATTTTTTCCTTTTTTCGTATTTTATTTAATTTATTTTTTCACTTATTTTTTAT
255 TTGTT-T-TTTTATTTTTTCCTTTTTTCGTATTTCATTTAATTTATTTTTTCACTTATTTTTTAT
4147 TTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTAATCTTTTTTACTTTCTTATTTTT
318 TTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTAATCTTTTTTACTTTCTTATTTTT
* * *
4212 TTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTTTG
383 TTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAA--TATTTTTTTGTATTTTTTG
*
4277 AATCTTTTTTATATTTTTTCCACTTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTTCCT
446 AATCTTTTTTATATTTTTTCCACCTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTTCCT
* * *
4342 TCTTTTTGCTTTTTTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCTTTGTTTTAAAAA
511 TCTTTTTGCTTTTTTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAA
4407 TTTTTATTTTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
576 TTTTTATTTTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
4464 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
*
4529 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACATTTTATATTGTTAGG
66 C-TTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
* * *
4594 TCTTATATGTTTTTCAATTTTTTTGCATTTTTTTAACTATTTTTTTTCTTTTTGTCATTCTATTT
130 TCTTATATGTTTTTCAA-TTTTTTGTA-TTTTTTAACTATTTTTTTTCTTTTTCTCATTCCATTT
* * *
4659 CATTTTTGAACTTTTTATTCAATTTTTGTCCTTTTTTATTTTGTTACTTTTTATATTTTTTGTTG
193 CATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTGGTTG
4724 TATTTTTT
258 T-TTTTTT
4732 TTCTCTTTTT
Statistics
Matches: 845, Mismatches: 31, Indels: 46
0.92 0.03 0.05
Matches are distributed among these distances:
616 2 0.00
617 104 0.12
618 52 0.06
619 20 0.02
620 8 0.01
621 48 0.06
622 14 0.02
623 1 0.00
624 12 0.01
625 22 0.03
626 28 0.03
627 22 0.03
628 72 0.09
631 19 0.02
632 23 0.03
633 12 0.01
634 22 0.03
635 6 0.01
636 19 0.02
637 14 0.02
638 41 0.05
639 50 0.06
640 49 0.06
641 6 0.01
642 71 0.08
643 12 0.01
644 88 0.10
645 8 0.01
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (632 bp):
TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
CTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGT
CTTATATGTTTTTCAATTTTTTGTATTTTTTAACTATTTTTTTTCTTTTTCTCATTCCATTTCAT
TTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTGGTTGTTT
TTTTATTTTTTCCTTTTTTCGTATTTCATTTAATTTATTTTTTCACTTATTTTTTATTTATATTT
TAAAAACTTTTTATAAAGTTCAAATTTTTTTTTAATCTTTTTTACTTTCTTATTTTTTTCTAGTT
TGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAATATTTTTTTGTATTTTTTGAATCTTTTTT
ATATTTTTTCCACCTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTTCCTTCTTTTTGCT
TTTTTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTT
TCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
Found at i:4148 original size:33 final size:33
Alignment explanation
Indices: 4091--4154 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
4081 TTTTTTCTCT
4091 TTTATTTTTTCCTTTTTTCGTATTT-TATTTAA
1 TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
*
4123 TTTATTTTTTCACTTATTTT-TTATTTATATTT
1 TTTATTTTTTC-CTT-TTTTCGTATTTATATTT
4155 TAAAAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 8 0.29
34 9 0.32
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (33 bp):
TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
Found at i:4237 original size:77 final size:81
Alignment explanation
Indices: 4148--4324 Score: 229
Period size: 77 Copynumber: 2.2 Consensus size: 81
4138 ATTTTTTATT
*
4148 TATATTTTAAAAACTTTTTATAAAGTTCAAA-TTTTTTTTTAATCTTTTTT-A-CTTTCTTAT-T
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTTAATCTTTCTTATAT
* *
4209 TTTTTCTAGTTTGTAA
66 TTTTTCCACTTTGTAA
** * *
4225 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTTTGAATCTTTTTTATA
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTT-AATCTTTCTTATA
4290 TTTTTTCCACTTTGTAA
65 TTTTTTCCACTTTGTAA
* *
4307 T-TTTTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
4325 CCCTGCACAA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
77 30 0.35
78 16 0.19
80 1 0.01
81 23 0.27
82 16 0.19
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (81 bp):
TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTTAATCTTTCTTATAT
TTTTTCCACTTTGTAA
Found at i:4389 original size:16 final size:17
Alignment explanation
Indices: 4370--4403 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4360 ATATGCTTTC
4370 ATTTTTAC-TTGTTTTA
1 ATTTTTACTTTGTTTTA
*
4386 ATTTTTTCTTTGTTTTA
1 ATTTTTACTTTGTTTTA
4403 A
1 A
4404 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTACTTTGTTTTA
Found at i:4794 original size:20 final size:20
Alignment explanation
Indices: 4748--4804 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
4738 TTTTTTGGGC
*
4748 TTTA-TTTATCTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
**
4767 TTGCTTTTATTTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
*
4787 TTTATTTT-TTATTTTTCT
1 TTTATTTTATTTTTTTTCT
4805 ATCTTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTATTTTATTTTTTTTCTT
Found at i:4809 original size:23 final size:22
Alignment explanation
Indices: 4765--4821 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
4755 ATCTTTTTTC
* *
4765 TTTTGCTTTTATTTTTTTTCTT
1 TTTTTCTTTTATTTTTTATCTT
4787 TTTATT-TTTTATTTTTCTATCTT
1 TTT-TTCTTTTATTTTT-TATCTT
4810 TTTTTCTTTTAT
1 TTTTTCTTTTAT
4822 CATTCTCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTATTTTTTATCTT
Found at i:4822 original size:15 final size:14
Alignment explanation
Indices: 4756--4821 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 14
4746 GCTTTATTTA
*
4756 TCTTTT-TTCTTTT
1 TCTTTTATTTTTTT
*
4769 GCTTTTATTTTTTT
1 TCTTTTATTTTTTT
4783 TCTTTTTATTTTTTAT
1 TC-TTTTATTTTTT-T
4799 T-TTTCTATCTTTTTT
1 TCTTT-TAT-TTTTTT
4814 TCTTTTAT
1 TCTTTTAT
4822 CATTCTCGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.11
14 10 0.23
15 19 0.43
16 10 0.23
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.80
Consensus pattern (14 bp):
TCTTTTATTTTTTT
Found at i:4827 original size:23 final size:23
Alignment explanation
Indices: 4783--4827 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4773 TTATTTTTTT
**
4783 TCTTTTTATTTTTTATTTTTCTA
1 TCTTTTTATTTTTTATCATTCTA
4806 TCTTTTT-TTCTTTTATCATTCT
1 TCTTTTTATT-TTTTATCATTCT
4828 CGGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (23 bp):
TCTTTTTATTTTTTATCATTCTA
Found at i:5420 original size:12 final size:11
Alignment explanation
Indices: 5375--5437 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 11
5365 ACTTTGTTAC
*
5375 TTTTTGTTTA-
1 TTTTTATTTAT
5385 TTTTTATTT-T
1 TTTTTATTTAT
5395 TTCTCTTAATTTAT
1 TT-T-TT-ATTTAT
5409 TTTTTCATTTAT
1 TTTTT-ATTTAT
5421 TTTTTATTTAT
1 TTTTTATTTAT
*
5432 ATTTTA
1 TTTTTA
5438 AAAAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 10 0.22
11 12 0.27
12 15 0.33
13 5 0.11
14 3 0.07
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:5902 original size:17 final size:16
Alignment explanation
Indices: 5886--5958 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
5876 AAAAATTTAC
5886 CTTTTTTATTTTCTTA
1 CTTTTTTATTTTCTTA
* *
5902 CTTTTTATATTTTTTGTTG
1 CTTTTT-TA--TTTTCTTA
* *
5921 TTTTTTTGTTTTCTTA
1 CTTTTTTATTTTCTTA
* *
5937 TTTTTTTATTTT-TTC
1 CTTTTTTATTTTCTTA
5952 CTTTTTT
1 CTTTTTT
5959 CGTGTTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
15 8 0.18
16 23 0.51
17 2 0.04
18 1 0.02
19 11 0.24
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.79
Consensus pattern (16 bp):
CTTTTTTATTTTCTTA
Found at i:5949 original size:8 final size:8
Alignment explanation
Indices: 5887--5950 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
5877 AAAATTTACC
5887 TTTTTTAT
1 TTTTTTAT
*
5895 TTTCTTACT
1 TTTTTTA-T
*
5904 TTTTATATT
1 TTTTTTA-T
*
5913 TTTTGTTGT
1 TTTT-TTAT
*
5922 TTTTTTGT
1 TTTTTTAT
*
5930 TTTCTTAT
1 TTTTTTAT
5938 TTTTTTAT
1 TTTTTTAT
5946 TTTTT
1 TTTTT
5951 CCTTTTTTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
8 28 0.62
9 16 0.36
10 1 0.02
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.81
Consensus pattern (8 bp):
TTTTTTAT
Found at i:5965 original size:34 final size:35
Alignment explanation
Indices: 5894--5966 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
5884 ACCTTTTTTA
* **
5894 TTTTCTTACTTTTTATATTTTTTGTTGTTTTTTTG
1 TTTTCTTACTTTTTATATTTTTTCTTGTTTTCGTG
*
5929 TTTTCTTA-TTTTTTTATTTTTTCCTT-TTTTCGTG
1 TTTTCTTACTTTTTATATTTTTT-CTTGTTTTCGTG
5963 TTTT
1 TTTT
5967 ATTTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 23 0.70
35 10 0.30
ACGTcount: A:0.07, C:0.08, G:0.07, T:0.78
Consensus pattern (35 bp):
TTTTCTTACTTTTTATATTTTTTCTTGTTTTCGTG
Found at i:6596 original size:79 final size:80
Alignment explanation
Indices: 6499--6674 Score: 207
Period size: 79 Copynumber: 2.2 Consensus size: 80
6489 ATTTTTTATT
** * ** * *
6499 TATATTTTAAAATTTTTTTATAAAGTTCAATTTTTTTTTTGAATCTTTTT-TAT-TTTCTTATTT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAAT-TTTTTGAATCTTTCTTATAT
**
6562 TTTTTCTAGTTTGTAA
65 TTTTTCTACCTTGTAA
* *
6578 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGTATTTTTTGAATCTTTTTTATATT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATTTTTTGAATCTTTCTTATATT
6643 TTTTCTACCTTGTAA
66 TTTTCTACCTTGTAA
*
6658 T-T-TTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
6675 CCCTTCACAA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 19 0.23
79 41 0.49
80 23 0.28
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.62
Consensus pattern (80 bp):
TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATTTTTTGAATCTTTCTTATATT
TTTTCTACCTTGTAA
Found at i:6992 original size:608 final size:607
Alignment explanation
Indices: 6029--7696 Score: 2310
Period size: 608 Copynumber: 2.7 Consensus size: 607
6019 TTCAAAATTT
* * *
6029 TTTTTTCTACTTTGTAATTTTTTAATTACTATTTCCCTTCACAATTTTCCTTCGTTTTGCTTTTT
1 TTTTTTCTACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTTTGC-TTTT
* *
6094 TTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTTGATGTTTTAAAAATTTTTATTTTTCT
65 TTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCGTTGTTTTAAAAATTTTTATTTTTCT
** ** *
6159 ATTTTTTCCTCCAAATCTTTTG-CCATTCTATTTTT-TTCCCACAAATTTCCTTTC-ATTTCTTA
130 ATTTTTTAATCCAAATCTTTTGTCTTTTC-ATTTTTATT----C---TTTCCTTGCTA-TTC-TA
* * * * ** **
6221 TTTGCGTTTT----TAAATTCTCATACTT-ATTT-TAATTTGC----ATAAACTTTTC-TTTTTT
185 TTT---TTTTCCCACAAATT-TCCT--TTCATTTCTTATTTGCGTTTTTAAACTTCCCATACTTT
* *
6275 TTTCATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTATATGTTTTTCAATTTTTTGTTTTTTT
244 TTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTATATGTTTTTCAATTTTTTGTATTTTT
6340 TAAACTATTTTTTTTCTTTTTCTCATTCCATTTCATTTTTGAAATTTTTATTCAATTTTTGTTCT
309 T-AACTATTTTTTTTCTTTTTCTCATTCCATTTCATTTTTGAAATTTTTATTCAATTTTTGTTCT
*
6405 TTTTTATTTTCTTACTTTTTATATTTTTGGTTGTTTTTTTCTTTTTTCCTTTTTTCGTATTTCAT
373 TTTTTATTTTCTTACTTTTTATATTTTTTGTTGTTTTTTTCTTTTTTCCTTTTTTCGTATTTCAT
** *
6470 TTAATTTATTTTTTCACTTATTTTTTATTTATATTTTAAAATTTTTTTATAAAGTTCAATTTTTT
438 TTAATTTATTTTTTCACTTATTTTTTATTTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTT
* *
6535 TTTTGAATCTTTTTTATTTTCTTATTTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAGA
503 TTTT-AATCTTTTTTACTTTCTTA-TTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAA
6600 AAGTTCAAA-ATTTTTTTTGTATTTTTTGAATCTTTTTTATA
566 AAGTTCAAAGATTTTTTTTGTATTTTTTGAATCTTTTTTATA
*
6641 TTTTTTCTACCTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTTTGCTTTTT
1 TTTTTTCTACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTTTGCTTTTT
* *
6706 TTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTTTCTA
66 TTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCGTTGTTTTAAAAATTTTTATTTTTCTA
* *
6771 TTTTTTTATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTATTCTATTTTTTTCCCA
131 TTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTCCTTGCTATTCTATTTTTTTCCCA
6836 CAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAA-TTCCCATACTTTTTTAATTTTTTGTCTGA
196 CAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAACTTCCCATACTTTTTTAATTTTTTGTCTGA
6900 CTTTTTATATTGTTAGGTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAGCTATTTTTTTTCT
261 CTTTTTATATTGTTAGGTCTTATATGTTTTTCAATTTTTTGTATTTTTTAA-CTATTTTTTTTCT
*
6965 TTTTCTCATTCCATTTCATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTT
325 TTTTCTCATTCCATTTCATTTTTGAAATTTTTATTCAATTTTTGTTCTTTTTTATTTTCTTACTT
* *
7030 TTTATATTTTTTGCTGTTTTTTTCTTTTTTCCTTTTTTCGTATTTTATTTAATTTATTTTTTCAC
390 TTTATATTTTTTGTTGTTTTTTTCTTTTTTCCTTTTTTCGTATTTCATTTAATTTATTTTTTCAC
7095 TTATTTTTTATTTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTAATCTTTTTTACT
455 TTATTTTTTATTTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTAATCTTTTTTACT
*
7160 TTCTTATTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTT
520 TTCTTATTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAG-ATTTTTTT
* *
7225 TTTTTTTTTTGAATCTTTTTTATA
584 TGTATTTTTTGAATCTTTTTTATA
* *
7249 TTTTTTCCACTTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTTCCTTCTTTTTGCTTTT
1 TTTTTTCTACTTTGTAA-TTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTTTGCTTTT
*
7314 TTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCTTTGTTTTAAAAATTTTTATTTTTCT
65 TTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCGTTGTTTTAAAAATTTTTATTTTTCT
*
7379 ATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGCTTGCTATTCTATTTTTTTCCC
130 ATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTCCTTGCTATTCTATTTTTTTCCC
*
7444 ACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATACTTTTTTTATTTTGCATTAAC
195 ACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAA--CT--T-C------------CCA-T-A-
7509 TTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTATATGTTTTTCAATTTT
240 ------CTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGGTCTTATATGTTTTTCAATTTT
* * *
7574 TTGTATTTTTTTAACTA-TTTTTTTCTTTTTGTCATTCTATTTCATTTTTGAACTTTTTATTCAA
299 TTGTA-TTTTTTAACTATTTTTTTTCTTTTTCTCATTCCATTTCATTTTTGAAATTTTTATTCAA
* *
7638 TTTTTG-TCCTTTTTATTTTGTTACTTTTTATATTTTTTGTTGTATTTTTTTCTCTTTTT
363 TTTTTGTTCTTTTTTATTTTCTTACTTTTTATATTTTTTGTTG--TTTTTTTCT-TTTTT
7697 TGGGCTTTAT
Statistics
Matches: 955, Mismatches: 52, Indels: 73
0.88 0.05 0.07
Matches are distributed among these distances:
601 4 0.00
602 2 0.00
603 4 0.00
604 15 0.02
605 15 0.02
606 49 0.05
607 23 0.02
608 305 0.32
609 207 0.22
611 91 0.10
612 63 0.07
614 1 0.00
615 1 0.00
627 2 0.00
628 1 0.00
629 1 0.00
634 32 0.03
635 50 0.05
636 76 0.08
637 13 0.01
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (607 bp):
TTTTTTCTACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTTTGCTTTTT
TTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCGTTGTTTTAAAAATTTTTATTTTTCTA
TTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTCCTTGCTATTCTATTTTTTTCCCA
CAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAACTTCCCATACTTTTTTAATTTTTTGTCTGA
CTTTTTATATTGTTAGGTCTTATATGTTTTTCAATTTTTTGTATTTTTTAACTATTTTTTTTCTT
TTTCTCATTCCATTTCATTTTTGAAATTTTTATTCAATTTTTGTTCTTTTTTATTTTCTTACTTT
TTATATTTTTTGTTGTTTTTTTCTTTTTTCCTTTTTTCGTATTTCATTTAATTTATTTTTTCACT
TATTTTTTATTTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTAATCTTTTTTACTT
TCTTATTTTTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGATTTTTTTTG
TATTTTTTGAATCTTTTTTATA
Found at i:7191 original size:77 final size:81
Alignment explanation
Indices: 7107--7283 Score: 229
Period size: 77 Copynumber: 2.2 Consensus size: 81
7097 ATTTTTTATT
*
7107 TATATTTTAAAAACTTTTTATAAAGTTCAAA-TTTTTTTTTAATCTTTTTT-A-CTTTCTTAT-T
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTTAATCTTTCTTATAT
* *
7168 TTTTTCTAGTTTGTAA
66 TTTTTCCACTTTGTAA
** * *
7184 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTTTGAATCTTTTTTATA
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTT-AATCTTTCTTATA
7249 TTTTTTCCACTTTGTAA
65 TTTTTTCCACTTTGTAA
* *
7266 T-TTTTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
7284 CCCTGCACAA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
77 30 0.35
78 16 0.19
80 1 0.01
81 23 0.27
82 16 0.19
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (81 bp):
TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTAATCTTTTTTAATCTTTCTTATAT
TTTTTCCACTTTGTAA
Found at i:7348 original size:16 final size:17
Alignment explanation
Indices: 7329--7362 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7319 ATATGCTTTC
7329 ATTTTTAC-TTGTTTTA
1 ATTTTTACTTTGTTTTA
*
7345 ATTTTTTCTTTGTTTTA
1 ATTTTTACTTTGTTTTA
7362 A
1 A
7363 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTACTTTGTTTTA
Found at i:7634 original size:20 final size:21
Alignment explanation
Indices: 7611--7655 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7601 TTTGTCATTC
7611 TATTTC-ATTTTTGAACTTTT
1 TATTTCAATTTTTGAACTTTT
**
7631 TA-TTCAATTTTTGTCCTTTT
1 TATTTCAATTTTTGAACTTTT
7651 TATTT
1 TATTT
7656 TGTTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 3 0.14
20 16 0.76
21 2 0.10
ACGTcount: A:0.18, C:0.11, G:0.04, T:0.67
Consensus pattern (21 bp):
TATTTCAATTTTTGAACTTTT
Found at i:7742 original size:15 final size:15
Alignment explanation
Indices: 7724--7772 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
7714 TTTCTTTTGC
7724 TTTTATTTTTTTTCT
1 TTTTATTTTTTTTCT
7739 TTTTATTTTTTATT-T
1 TTTTATTTTTT-TTCT
*
7754 TTCTATCTTTTTTTCT
1 TTTTAT-TTTTTTTCT
7770 TTT
1 TTT
7773 ATCATTCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTTTTCT
Found at i:7747 original size:20 final size:19
Alignment explanation
Indices: 7712--7757 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
7702 TTTATTTATC
* *
7712 TTTTTCTTTTGCTTTTATTT
1 TTTTTCTTTTGATTTT-TTA
*
7732 TTTTTCTTTTTATTTTTTA
1 TTTTTCTTTTGATTTTTTA
7751 TTTTTCT
1 TTTTTCT
7758 ATCTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTGATTTTTTA
Found at i:7762 original size:23 final size:22
Alignment explanation
Indices: 7718--7774 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
7708 TATCTTTTTC
* *
7718 TTTTGCTTTTATTTTTTTTCTT
1 TTTTTCTTTTATTTTTTATCTT
7740 TTTATT-TTTTATTTTTCTATCTT
1 TTT-TTCTTTTATTTTT-TATCTT
7763 TTTTTCTTTTAT
1 TTTTTCTTTTAT
7775 CATTCTCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTATTTTTTATCTT
Found at i:7775 original size:15 final size:14
Alignment explanation
Indices: 7713--7774 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 14
7703 TTATTTATCT
7713 TTTTCTTTTGCTTTTA
1 TTTT-TTTT-CTTTTA
7729 TTTTTTTTCTTTTTA
1 TTTTTTTTC-TTTTA
7744 TTTTTTATT-TTTCTA
1 TTTTTT-TTCTTT-TA
7759 TCTTTTTTTCTTTTA
1 T-TTTTTTTCTTTTA
7774 T
1 T
7775 CATTCTCGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.10
15 23 0.56
16 14 0.34
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCTTTTA
Found at i:7780 original size:23 final size:23
Alignment explanation
Indices: 7736--7780 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7726 TTATTTTTTT
**
7736 TCTTTTTATTTTTTATTTTTCTA
1 TCTTTTTATTTTTTATCATTCTA
7759 TCTTTTT-TTCTTTTATCATTCT
1 TCTTTTTATT-TTTTATCATTCT
7781 CGGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (23 bp):
TCTTTTTATTTTTTATCATTCTA
Found at i:8376 original size:12 final size:11
Alignment explanation
Indices: 8332--8393 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
8322 ACTTTTTTCC
*
8332 TTTTGTTTA-T
1 TTTTATTTATT
8342 TTTTATTT-TT
1 TTTTATTTATT
8352 TCTCTTAATTTATT
1 T-T-TT-ATTTATT
8366 TTTTCATTTATT
1 TTTT-ATTTATT
*
8378 TTTTATTTATA
1 TTTTATTTATT
8389 TTTTA
1 TTTTA
8394 AAAAATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 9 0.20
11 12 0.27
12 15 0.34
13 5 0.11
14 3 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:8870 original size:17 final size:16
Alignment explanation
Indices: 8854--8926 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
8844 AAAAATTTAC
8854 CTTTTTTATTTTCTTA
1 CTTTTTTATTTTCTTA
* *
8870 CTTTTTATATTTTTTGTTG
1 CTTTTT-TA--TTTTCTTA
* *
8889 TTTTTTTGTTTTCTTA
1 CTTTTTTATTTTCTTA
* *
8905 TTTTTTTATTTT-TTC
1 CTTTTTTATTTTCTTA
8920 CTTTTTT
1 CTTTTTT
8927 CGTGTTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
15 8 0.18
16 23 0.51
17 2 0.04
18 1 0.02
19 11 0.24
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.79
Consensus pattern (16 bp):
CTTTTTTATTTTCTTA
Found at i:8917 original size:8 final size:8
Alignment explanation
Indices: 8855--8918 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
8845 AAAATTTACC
8855 TTTTTTAT
1 TTTTTTAT
*
8863 TTTCTTACT
1 TTTTTTA-T
*
8872 TTTTATATT
1 TTTTTTA-T
*
8881 TTTTGTTGT
1 TTTT-TTAT
*
8890 TTTTTTGT
1 TTTTTTAT
*
8898 TTTCTTAT
1 TTTTTTAT
8906 TTTTTTAT
1 TTTTTTAT
8914 TTTTT
1 TTTTT
8919 CCTTTTTTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
8 28 0.62
9 16 0.36
10 1 0.02
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.81
Consensus pattern (8 bp):
TTTTTTAT
Found at i:8933 original size:34 final size:35
Alignment explanation
Indices: 8862--8934 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
8852 ACCTTTTTTA
* **
8862 TTTTCTTACTTTTTATATTTTTTGTTGTTTTTTTG
1 TTTTCTTACTTTTTATATTTTTTCTTGTTTTCGTG
*
8897 TTTTCTTA-TTTTTTTATTTTTTCCTT-TTTTCGTG
1 TTTTCTTACTTTTTATATTTTTT-CTTGTTTTCGTG
8931 TTTT
1 TTTT
8935 ATTTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 23 0.70
35 10 0.30
ACGTcount: A:0.07, C:0.08, G:0.07, T:0.78
Consensus pattern (35 bp):
TTTTCTTACTTTTTATATTTTTTCTTGTTTTCGTG
Found at i:9559 original size:77 final size:80
Alignment explanation
Indices: 9464--9637 Score: 216
Period size: 77 Copynumber: 2.2 Consensus size: 80
9454 ATTTTTTATT
** * * *
9464 TATATTTTAAAATTTTTTTATAAAGTTC-AATTTTTTTTTGAATCTTTTT-TAT-TTTCTTAT-T
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAAT-TTTTTGAATCTTTCTTATAT
*
9525 TTTTTCTAGTTTGTAA
65 TTTTTCTACTTTGTAA
* *
9541 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGTATTTTTTGAATCTTTTTTATATT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATTTTTTGAATCTTTCTTATATT
9606 TTTTCTACTTTGTAA
66 TTTTCTACTTTGTAA
*
9621 T-T-TTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
9638 CCCTTCACAA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 30 0.36
78 29 0.35
79 8 0.10
80 17 0.20
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.63
Consensus pattern (80 bp):
TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATTTTTTGAATCTTTCTTATATT
TTTTCTACTTTGTAA
Found at i:10101 original size:33 final size:33
Alignment explanation
Indices: 10044--10107 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
10034 TTTTTTCTCT
10044 TTTATTTTTTCCTTTTTTCGTATTT-TATTTAA
1 TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
*
10076 TTTATTTTTTCACTTATTTT-TTATTTATATTT
1 TTTATTTTTTC-CTT-TTTTCGTATTTATATTT
10108 TAAAAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 8 0.29
34 9 0.32
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (33 bp):
TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
Found at i:10191 original size:78 final size:81
Alignment explanation
Indices: 10101--10278 Score: 231
Period size: 78 Copynumber: 2.2 Consensus size: 81
10091 ATTTTTTATT
*
10101 TATATTTTAAAAACTTTTTATAAAGTTCAAA-TTTTTTTTTTAATCTTTTTT-A-CTTTCTTAT-
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTT-ATCTTTTTTAATCTTTCTTATA
* *
10162 TTTTTTCTAGTTTGTAA
65 TTTTTTCCACTTTGTAA
* * *
10179 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTTTGAATCTTTTTTATA
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTATCTTTTTT-AATCTTTCTTATA
10244 TTTTTTCCACTTTGTAA
65 TTTTTTCCACTTTGTAA
* *
10261 T-TTTTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
10279 CCCTTCACAA
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 37 0.43
79 10 0.11
80 1 0.01
81 23 0.26
82 16 0.18
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (81 bp):
TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTATCTTTTTTAATCTTTCTTATAT
TTTTTCCACTTTGTAA
Found at i:10342 original size:16 final size:17
Alignment explanation
Indices: 10323--10356 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10313 ATATGCTTTC
10323 ATTTTTAC-TTGTTTTA
1 ATTTTTACTTTGTTTTA
*
10339 ATTTTTTCTTTGTTTTA
1 ATTTTTACTTTGTTTTA
10356 A
1 A
10357 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTACTTTGTTTTA
Found at i:10747 original size:20 final size:20
Alignment explanation
Indices: 10701--10757 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
10691 TTTTTTGGGC
*
10701 TTTA-TTTATCTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
**
10720 TTGCTTTTATTTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
*
10740 TTTATTTT-TTATTTTTCT
1 TTTATTTTATTTTTTTTCT
10758 ATCTTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTATTTTATTTTTTTTCTT
Found at i:10762 original size:23 final size:22
Alignment explanation
Indices: 10718--10774 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
10708 ATCTTTTTTC
* *
10718 TTTTGCTTTTATTTTTTTTCTT
1 TTTTTCTTTTATTTTTTATCTT
10740 TTTATT-TTTTATTTTTCTATCTT
1 TTT-TTCTTTTATTTTT-TATCTT
10763 TTTTTCTTTTAT
1 TTTTTCTTTTAT
10775 CATTCTCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTATTTTTTATCTT
Found at i:10775 original size:15 final size:14
Alignment explanation
Indices: 10709--10774 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 14
10699 GCTTTATTTA
*
10709 TCTTTT-TTCTTTT
1 TCTTTTATTTTTTT
*
10722 GCTTTTATTTTTTT
1 TCTTTTATTTTTTT
10736 TCTTTTTATTTTTTAT
1 TC-TTTTATTTTTT-T
10752 T-TTTCTATCTTTTTT
1 TCTTT-TAT-TTTTTT
10767 TCTTTTAT
1 TCTTTTAT
10775 CATTCTCGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.11
14 10 0.23
15 19 0.43
16 10 0.23
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.80
Consensus pattern (14 bp):
TCTTTTATTTTTTT
Found at i:10780 original size:23 final size:23
Alignment explanation
Indices: 10736--10780 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10726 TTATTTTTTT
**
10736 TCTTTTTATTTTTTATTTTTCTA
1 TCTTTTTATTTTTTATCATTCTA
10759 TCTTTTT-TTCTTTTATCATTCT
1 TCTTTTTATT-TTTTATCATTCT
10781 CGGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (23 bp):
TCTTTTTATTTTTTATCATTCTA
Found at i:11380 original size:12 final size:11
Alignment explanation
Indices: 11336--11397 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
11326 ACTTTTTTCC
*
11336 TTTTGTTTA-T
1 TTTTATTTATT
11346 TTTTATTT-TT
1 TTTTATTTATT
11356 TCTCTTAATTTATT
1 T-T-TT-ATTTATT
11370 TTTTCATTTATT
1 TTTT-ATTTATT
*
11382 TTTTATTTATA
1 TTTTATTTATT
11393 TTTTA
1 TTTTA
11398 AAAAATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 9 0.20
11 12 0.27
12 15 0.34
13 5 0.11
14 3 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:11874 original size:17 final size:16
Alignment explanation
Indices: 11858--11930 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
11848 AAAAATTTAC
11858 CTTTTTTATTTTCTTA
1 CTTTTTTATTTTCTTA
* *
11874 CTTTTTATATTTTTTGTTG
1 CTTTTT-TA--TTTTCTTA
* *
11893 TTTTTTTGTTTTCTTA
1 CTTTTTTATTTTCTTA
* *
11909 TTTTTTTATTTT-TTC
1 CTTTTTTATTTTCTTA
11924 CTTTTTT
1 CTTTTTT
11931 CGTGTTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
15 8 0.18
16 23 0.51
17 2 0.04
18 1 0.02
19 11 0.24
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.79
Consensus pattern (16 bp):
CTTTTTTATTTTCTTA
Found at i:11921 original size:8 final size:8
Alignment explanation
Indices: 11859--11922 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
11849 AAAATTTACC
11859 TTTTTTAT
1 TTTTTTAT
*
11867 TTTCTTACT
1 TTTTTTA-T
*
11876 TTTTATATT
1 TTTTTTA-T
*
11885 TTTTGTTGT
1 TTTT-TTAT
*
11894 TTTTTTGT
1 TTTTTTAT
*
11902 TTTCTTAT
1 TTTTTTAT
11910 TTTTTTAT
1 TTTTTTAT
11918 TTTTT
1 TTTTT
11923 CCTTTTTTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
8 28 0.62
9 16 0.36
10 1 0.02
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.81
Consensus pattern (8 bp):
TTTTTTAT
Found at i:11937 original size:34 final size:35
Alignment explanation
Indices: 11866--11938 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
11856 ACCTTTTTTA
* **
11866 TTTTCTTACTTTTTATATTTTTTGTTGTTTTTTTG
1 TTTTCTTACTTTTTATATTTTTTCTTGTTTTCGTG
*
11901 TTTTCTTA-TTTTTTTATTTTTTCCTT-TTTTCGTG
1 TTTTCTTACTTTTTATATTTTTT-CTTGTTTTCGTG
11935 TTTT
1 TTTT
11939 ATTTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 23 0.70
35 10 0.30
ACGTcount: A:0.07, C:0.08, G:0.07, T:0.78
Consensus pattern (35 bp):
TTTTCTTACTTTTTATATTTTTTCTTGTTTTCGTG
Found at i:12465 original size:29 final size:29
Alignment explanation
Indices: 12417--12472 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
12407 TGTTTTTTTC
12417 TTTTTTCCTTTTTTCGTATTT-TATTTAA
1 TTTTTTCCTTTTTTCGTATTTATATTTAA
*
12445 TTTTTTCACTTATTTT-TTATTTATATTT
1 TTTTTTC-CTT-TTTTCGTATTTATATTT
12473 TAAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.29
29 8 0.33
30 9 0.38
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTTTCCTTTTTTCGTATTTATATTTAA
Found at i:12621 original size:80 final size:78
Alignment explanation
Indices: 12466--12640 Score: 212
Period size: 78 Copynumber: 2.2 Consensus size: 78
12456 ATTTTTTATT
** * ** *
12466 TATATTTTAAAATTTTTTTATAAAGTTCAATTTTTTTTTTGAATCTTTTTTATTTTCTTATTTTT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATCTTTTTAATTTTCTTATTTTT
*
12531 TTCTAGTTTGTAA
66 TTCTACTTTGTAA
* *
12544 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGTAT-TTTTTGAATCTTTTTTATAT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATCTTTTT-AAT-TTTCTTAT-T
12608 TTTTTCTACTTTGTAA
63 TTTTTCTACTTTGTAA
*
12624 T-T-TTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
12641 CCCTTCACAA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
77 5 0.06
78 54 0.64
79 8 0.10
80 17 0.20
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.63
Consensus pattern (78 bp):
TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATCTTTTTAATTTTCTTATTTTT
TTCTACTTTGTAA
Found at i:12933 original size:620 final size:624
Alignment explanation
Indices: 12149--13678 Score: 2629
Period size: 633 Copynumber: 2.4 Consensus size: 624
12139 TCCAAATCTT
*
12149 TTGCCATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
* * * * *
12214 CTTATTTTAATTTGCATAAACTTTTCTTTTTTTTTCATTTTTTGTCTGACTTTTTATATTGTTAG
66 CTTTTTTTATTTTGCATTAACTTTTC-TCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAG
*
12279 GTCTTATATGTTTTTCAATTTTTTGTTTTTTTTAAACTATTTTTTTTCTTTTTCTCATTCCATTT
130 GTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAACTATTTTTTTTCTTTTTCTCATTCCATTT
*
12344 CATTTTTGAAATTTTTATTCAATTTTTGTTCTTTTTTATTTTCTTACTTTTTATATTTTTTGTTG
195 CATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATA-TTTTTGTTG
12409 -TTTTTTTCTTTTTTCCTTTTTTCGTATTTTATTT-A-ATTTTTTCACTTATTTTTTATTTATAT
259 TTTTTTTTCTTTTTTCCTTTTTTCGTATTTTATTTAATATTTTTTCACTTATTTTTTATTTATAT
** * *
12471 TTTAAAATTTTTTTATAAAGTTCAATTTTTTTTTTGAATCTTTTTTATTTTCTTATTTTTTTCTA
324 TTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTGAATCTTTTTTACTTTCTTATTTTTTTCTA
*
12536 GTTTGTAATATATTTTAAAAACTTTTTAGAAAGTTCAAA-ATTTTTTTTGTA-TTTTTTGAATCT
389 GTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGATTTTTTTTGTATTTTTTTGAATCT
*
12599 TTTTTATATTTTTTCTACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTT
454 TTTTTATATTTTTTCCACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTT
12664 TCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTTTCTATT
519 TCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTTTCTATT
* *
12729 TTTTTATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTC
584 TTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
*
12770 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCCCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
12835 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
66 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
*
12900 TCTTATATGTTTTTCAATTTTTTGTATTTTTTAAGCTATTTTTTTTCTTTTTCTCATTCCATTTC
131 TCTTATATGTTTTTCAATTTTTTGTATTTTTTAAACTATTTTTTTTCTTTTTCTCATTCCATTTC
12965 ATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTGTTGTT
196 ATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTGTTGTT
13030 TTTTTCTCTTTTATTTTTTCCTTTTTTCGTATTTTATTTAATTTATTTTTTCACTTATTTTTTAT
261 TTTTT-TC-----TTTTTTCCTTTTTTCGTATTTTATTTAA--TATTTTTTCACTTATTTTTTAT
13095 TTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTGAATCTTTTTTACTTTCTTATTTT
318 TTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTGAATCTTTTTTACTTTCTTATTTT
* *
13160 TTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTATTTTTT
383 TTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAG-ATTTTTTTTGTATTTTTT
13225 TGAATCTTTTTTATATTTTTTCCACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCC
447 TGAATCTTTTTTATATTTTTTCCACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCC
* * *
13290 TTCTTTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCTTTGTTTTAAAAATTTTTATTT
512 TTCTTTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTT
13355 TTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
577 TTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
13403 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
*
13468 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACATTTTATATTGTTAGG
66 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
* * * *
13533 TCTTATATGTTTTTCAATTTTTTTGCATTTTTTTAACTATTTTTTTTCTTTTTGTCATTCTATTT
131 TCTTATATGTTTTTCAA-TTTTTTGTATTTTTTAAACTATTTTTTTTCTTTTTCTCATTCCATTT
* *
13598 CATTTTTGAACTTTTTATTCAATTTTTGTCCTTTTTTATTTTGTTACTTTTTATATTTTTGTTGT
195 CATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTGTTGT
13663 ATTTTTTTCTCTTTTT
260 -TTTTTTTCT-TTTTT
13679 TTGGGCTTTA
Statistics
Matches: 860, Mismatches: 32, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
619 9 0.01
620 159 0.18
621 88 0.10
626 26 0.03
627 1 0.00
629 1 0.00
630 131 0.15
632 10 0.01
633 322 0.37
634 107 0.12
635 6 0.01
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (624 bp):
TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
TCTTATATGTTTTTCAATTTTTTGTATTTTTTAAACTATTTTTTTTCTTTTTCTCATTCCATTTC
ATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTGTTGTT
TTTTTTCTTTTTTCCTTTTTTCGTATTTTATTTAATATTTTTTCACTTATTTTTTATTTATATTT
TAAAAACTTTTTATAAAGTTCAAATTTTTTTTTGAATCTTTTTTACTTTCTTATTTTTTTCTAGT
TTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGATTTTTTTTGTATTTTTTTGAATCTTT
TTTATATTTTTTCCACTTTGTAATTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTTTC
ATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTTTCTATTTT
TTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
Found at i:13096 original size:33 final size:33
Alignment explanation
Indices: 13039--13102 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
13029 TTTTTTCTCT
13039 TTTATTTTTTCCTTTTTTCGTATTT-TATTTAA
1 TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
*
13071 TTTATTTTTTCACTTATTTT-TTATTTATATTT
1 TTTATTTTTTC-CTT-TTTTCGTATTTATATTT
13103 TAAAAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 8 0.29
34 9 0.32
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (33 bp):
TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
Found at i:13223 original size:78 final size:82
Alignment explanation
Indices: 13096--13273 Score: 217
Period size: 78 Copynumber: 2.2 Consensus size: 82
13086 ATTTTTTATT
* *
13096 TATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTGAAT-CTTTTTT-A-CTTTCTTAT-
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAATTTTTTTTTGAATATTTTTTTAATCTTTCTTATA
* *
13157 TTTTTTCTAGTTTGTAA
66 TTTTTTCCACTTTGTAA
** *
13174 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTT-TTTATTTTTTTGAATCTTTTTTA
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAA-TTTTTTTTTGAATATTTTTTT-AATCTTTCTTA
13238 TATTTTTTCCACTTTGTAA
64 TATTTTTTCCACTTTGTAA
*
13257 T-T-TTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
13274 CCCTTCACAA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
78 31 0.36
79 15 0.17
81 15 0.17
82 9 0.10
83 16 0.19
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (82 bp):
TATATTTTAAAAACTTTTTAAAAAGTTCAAATTTTTTTTTGAATATTTTTTTAATCTTTCTTATA
TTTTTTCCACTTTGTAA
Found at i:13328 original size:16 final size:17
Alignment explanation
Indices: 13309--13342 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13299 ATATGCTTTC
13309 ATTTTTAC-TTGTTTTA
1 ATTTTTACTTTGTTTTA
*
13325 ATTTTTTCTTTGTTTTA
1 ATTTTTACTTTGTTTTA
13342 A
1 A
13343 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTACTTTGTTTTA
Found at i:13731 original size:20 final size:20
Alignment explanation
Indices: 13685--13741 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
13675 TTTTTTGGGC
*
13685 TTTA-TTTATCTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
**
13704 TTGCTTTTATTTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
*
13724 TTTATTTT-TTATTTTTCT
1 TTTATTTTATTTTTTTTCT
13742 ATCTTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTATTTTATTTTTTTTCTT
Found at i:13746 original size:23 final size:22
Alignment explanation
Indices: 13702--13758 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
13692 ATCTTTTTTC
* *
13702 TTTTGCTTTTATTTTTTTTCTT
1 TTTTTCTTTTATTTTTTATCTT
13724 TTTATT-TTTTATTTTTCTATCTT
1 TTT-TTCTTTTATTTTT-TATCTT
13747 TTTTTCTTTTAT
1 TTTTTCTTTTAT
13759 CATTCTCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTATTTTTTATCTT
Found at i:13759 original size:15 final size:14
Alignment explanation
Indices: 13693--13758 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 14
13683 GCTTTATTTA
*
13693 TCTTTT-TTCTTTT
1 TCTTTTATTTTTTT
*
13706 GCTTTTATTTTTTT
1 TCTTTTATTTTTTT
13720 TCTTTTTATTTTTTAT
1 TC-TTTTATTTTTT-T
13736 T-TTTCTATCTTTTTT
1 TCTTT-TAT-TTTTTT
13751 TCTTTTAT
1 TCTTTTAT
13759 CATTCTCGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.11
14 10 0.23
15 19 0.43
16 10 0.23
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.80
Consensus pattern (14 bp):
TCTTTTATTTTTTT
Found at i:13764 original size:23 final size:23
Alignment explanation
Indices: 13720--13764 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13710 TTATTTTTTT
**
13720 TCTTTTTATTTTTTATTTTTCTA
1 TCTTTTTATTTTTTATCATTCTA
13743 TCTTTTT-TTCTTTTATCATTCT
1 TCTTTTTATT-TTTTATCATTCT
13765 CGGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (23 bp):
TCTTTTTATTTTTTATCATTCTA
Found at i:14361 original size:12 final size:11
Alignment explanation
Indices: 14317--14378 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
14307 ACTTTTTTCC
*
14317 TTTTGTTTA-T
1 TTTTATTTATT
14327 TTTTATTT-TT
1 TTTTATTTATT
14337 TCTCTTAATTTATT
1 T-T-TT-ATTTATT
14351 TTTTCATTTATT
1 TTTT-ATTTATT
*
14363 TTTTATTTATA
1 TTTTATTTATT
14374 TTTTA
1 TTTTA
14379 AAAAATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 9 0.20
11 12 0.27
12 15 0.34
13 5 0.11
14 3 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:14937 original size:17 final size:18
Alignment explanation
Indices: 14910--14944 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14900 TTCGTGTTTT
*
14910 ATTTAATTTTTTCTCTTA
1 ATTTAATTTTTTCACTTA
14928 ATTT-ATTTTTTCACTTA
1 ATTTAATTTTTTCACTTA
14945 TTTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTAATTTTTTCACTTA
Found at i:15556 original size:78 final size:80
Alignment explanation
Indices: 15441--15614 Score: 207
Period size: 78 Copynumber: 2.2 Consensus size: 80
15431 ATTTTTTATT
* * ** *
15441 TATATTTT-AAAATTTTTTATAAAGTTCAATTTTTTTTTTGAATCTTTTT-TAT-TTTCTTAT-T
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAAT-TTTTTGAATCTTTCTTATAT
**
15502 TTTTTCTAGTTTGTAA
65 TTTTTCTACCTTGTAA
* *
15518 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGTATTTTTTGAATCTTTTTTATATT
1 TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATTTTTTGAATCTTTCTTATATT
15583 TTTTCTACCTTGTAA
66 TTTTCTACCTTGTAA
*
15598 T-T-TTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
15615 CCCTTCACAA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 13 0.16
78 46 0.55
79 8 0.10
80 16 0.19
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.62
Consensus pattern (80 bp):
TATATTTTAAAAACTTTTTAGAAAGTTCAAAATTTTTTTTGAATTTTTTGAATCTTTCTTATATT
TTTTCTACCTTGTAA
Found at i:15943 original size:616 final size:623
Alignment explanation
Indices: 15137--16677 Score: 2470
Period size: 645 Copynumber: 2.4 Consensus size: 623
15127 TCCAAATCTT
*
15137 TTGCCATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
* * * * *
15202 CTTATTTTAATTTGCATAAACTTTTCTTTTTTTTTCATTTTTTGTCTGACTTTTTATATTGTTAG
66 CTTTTTTTATTTTGCATTAACTTTTC-TCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAG
*
15267 GTCTTATATGTTTTTCAATTTTTTGTTTTTTTTAAACTATTTTTTTTCTTTTTATCATTCCATTT
130 GTCTTATATGTTTTTCAATTTTTTGTATTTTTT-AACTATTTTTTTTCTTTTTATCATTCCATTT
15332 CATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGTTG
194 CATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGTTG
*
15397 TTTTTTC-T-TTTTTTCG-TA-T-TTTATTTTTTCACTTATTTTTTATTTATATTTT-AAAATTT
259 TTTTTTCTTCTTTTTTCGTTATTATTTATTTTTTCACTTATTTTTTATTTATATTTTAAAAACTT
*
15456 TTTATAAAGTTC-AATTTTTTTTTTGAATCTTTTTTATTTTCTTATTTTTTTCTAGTTTGTAATA
324 TTTATAAAGTTCAAATTTTTTTTTT-AATCTTTTTTACTTTCTTATTTTTTTCTAGTTTGTAATA
*
15520 TATTTTAAAAACTTTTTAGAAAGTTCAAA-ATTTTTTTTGTATTTTTTGAATCTTTTTTATATTT
388 TATTTTAAAAACTTTTTAAAAAGTTCAAATATTTTTTTTGTATTTTTTGAATCTTTTTTATATTT
* *
15584 TTTCTACCTTGTAA-TTTTTTAATAACTTTTTCCCTTCACAATTTTCCTTCTTTTTGCTTTTTTT
453 TTTCCACCTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTTCCTTCTTTTTGCTTTTTTT
15648 TCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTTTCTATT
518 TCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTTTCTATT
* *
15713 TTTTTATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTC
583 TTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
*
15754 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCCCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
15819 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
66 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
*
15884 TCTTATATGTTTTTCAATTTTTTGTATTTTTTAAGCTATTTTTTTTCTTTTTCTCATTCCATTTC
131 TCTTATATGTTTTTCAATTTTTTGTATTTTTTAA-CTATTTTTTTTCTTTTTATCATTCCATTTC
15949 ATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGCTGT
195 ATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTG-T-T
*
16014 TTTTTTCTCTTTTATTTTTTCCTTTTTTCGTATTTTATTTAATTTATTTTTTCACTTATTTTTTA
258 GTTTTT-TC---------TT-CTTTTTTCG----TTA-TT-ATTTATTTTTTCACTTATTTTTTA
16079 TTTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTTAATCTTTTTTACTTTCTTATTT
306 TTTATATTTTAAAAACTTTTTATAAAGTTCAAATTTTTTTTTTAATCTTTTTTACTTTCTTATTT
* * *
16144 TTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTT
371 TTTTCTAGTTTGTAATATATTTTAAAAACTTTTTAAAAAGTTCAAA--TATTTTTTTTGTATTTT
*
16209 TTGAATCTTTTTTATATTTTTTCCACTTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTT
434 TTGAATCTTTTTTATATTTTTTCCACCTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTT
* * *
16274 CCTTCTTTTTGCTTTTTTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCTTTGTTTTAA
499 CCTTCTTTTTGCTTTTTTTTCATATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAA
16339 AAATTTTTATTTTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
564 AAATTTTTATTTTTCTATTTTTTAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
16399 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
1 TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
*
16464 CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTTAATTTTTTGTCTGACATTTTATATTGTTAG
66 CTTTTTTTATTTTGCATTAACTTTTCTC-TTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAG
* * *
16529 GTCTTATATGTTTTTCAATTTTTTTGCATTTTTTTAACTATTTTTTTTCTTTTTGTCATTCTATT
130 GTCTTATATGTTTTTCAA-TTTTTTGTA-TTTTTTAACTATTTTTTTTCTTTTTATCATTCCATT
* *
16594 TCATTTTTGAACTTTTTATTCAATTTTTGTCCTTTTTTATTTTGTTACTTTTTATATTTTTTGTT
193 TCATTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGTT
*
16659 GTATTTTTTTTCTCTTTTT
258 GT-TTTTTCTTCT-TTTTT
16678 TTGGGCTTTA
Statistics
Matches: 855, Mismatches: 33, Indels: 53
0.91 0.04 0.06
Matches are distributed among these distances:
615 2 0.00
616 158 0.18
617 87 0.10
618 6 0.01
619 2 0.00
629 1 0.00
631 8 0.01
635 2 0.00
636 9 0.01
638 1 0.00
640 33 0.04
641 84 0.10
642 12 0.01
644 44 0.05
645 245 0.29
646 58 0.07
647 95 0.11
648 8 0.01
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (623 bp):
TTGCTATTCTATTTTTTTCCCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATTCTCATA
CTTTTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTGACTTTTTATATTGTTAGG
TCTTATATGTTTTTCAATTTTTTGTATTTTTTAACTATTTTTTTTCTTTTTATCATTCCATTTCA
TTTTTGAAATTTTTATTCAATTTTTGTCCTTTTTTATTTTCTTACTTTTTATATTTTTTGTTGTT
TTTTCTTCTTTTTTCGTTATTATTTATTTTTTCACTTATTTTTTATTTATATTTTAAAAACTTTT
TATAAAGTTCAAATTTTTTTTTTAATCTTTTTTACTTTCTTATTTTTTTCTAGTTTGTAATATAT
TTTAAAAACTTTTTAAAAAGTTCAAATATTTTTTTTGTATTTTTTGAATCTTTTTTATATTTTTT
CCACCTTGTAATTTTTTTAATAACTTTTTCCCTGCACAATTTTCCTTCTTTTTGCTTTTTTTTCA
TATGCTTTCATTTTTACTTCTTTTAATTTTTTCGTTCTTTTAAAAATTTTTATTTTTCTATTTTT
TAATCCAAATCTTTTGTCTTTTCATTTTTATTCTTTGC
Found at i:16081 original size:33 final size:33
Alignment explanation
Indices: 16024--16087 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
16014 TTTTTTCTCT
16024 TTTATTTTTTCCTTTTTTCGTATTT-TATTTAA
1 TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
*
16056 TTTATTTTTTCACTTATTTT-TTATTTATATTT
1 TTTATTTTTTC-CTT-TTTTCGTATTTATATTT
16088 TAAAAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 8 0.29
34 9 0.32
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (33 bp):
TTTATTTTTTCCTTTTTTCGTATTTATATTTAA
Found at i:16171 original size:78 final size:82
Alignment explanation
Indices: 16081--16259 Score: 233
Period size: 78 Copynumber: 2.2 Consensus size: 82
16071 ATTTTTTATT
*
16081 TATATTTTAAAAACTTTTTATAAAGTTCAAA-TTTTTTTTTTAATCTTTTTT-A-CTTTCTTAT-
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTAATCTTTTTTAATCTTTCTTATA
* *
16142 TTTTTTCTAGTTTGTAA
66 TTTTTTCCACTTTGTAA
** * *
16159 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTTTTTTTTTTTGAATCTTTTTTAT
1 TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTAATCTTTTTT-AATCTTTCTTAT
16224 ATTTTTTCCACTTTGTAA
65 ATTTTTTCCACTTTGTAA
* *
16242 T-TTTTTTAATAACTTTTT
1 TATATTTTAAAAACTTTTT
16260 CCCTGCACAA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 30 0.34
79 17 0.20
81 1 0.01
82 23 0.26
83 16 0.18
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (82 bp):
TATATTTTAAAAACTTTTTAAAAAGTTCAAAGTTTTTTTTTTAATCTTTTTTAATCTTTCTTATA
TTTTTTCCACTTTGTAA
Found at i:16324 original size:16 final size:17
Alignment explanation
Indices: 16305--16338 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16295 ATATGCTTTC
16305 ATTTTTAC-TTGTTTTA
1 ATTTTTACTTTGTTTTA
*
16321 ATTTTTTCTTTGTTTTA
1 ATTTTTACTTTGTTTTA
16338 A
1 A
16339 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTACTTTGTTTTA
Found at i:16730 original size:20 final size:20
Alignment explanation
Indices: 16684--16740 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
16674 TTTTTTGGGC
*
16684 TTTA-TTTATCTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
**
16703 TTGCTTTTATTTTTTTTCTT
1 TTTATTTTATTTTTTTTCTT
*
16723 TTTATTTT-TTATTTTTCT
1 TTTATTTTATTTTTTTTCT
16741 ATCTTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTATTTTATTTTTTTTCTT
Found at i:16745 original size:23 final size:22
Alignment explanation
Indices: 16701--16757 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
16691 ATCTTTTTTC
* *
16701 TTTTGCTTTTATTTTTTTTCTT
1 TTTTTCTTTTATTTTTTATCTT
16723 TTTATT-TTTTATTTTTCTATCTT
1 TTT-TTCTTTTATTTTT-TATCTT
16746 TTTTTCTTTTAT
1 TTTTTCTTTTAT
16758 CATTCTCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTATTTTTTATCTT
Found at i:16758 original size:15 final size:14
Alignment explanation
Indices: 16692--16757 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 14
16682 GCTTTATTTA
*
16692 TCTTTT-TTCTTTT
1 TCTTTTATTTTTTT
*
16705 GCTTTTATTTTTTT
1 TCTTTTATTTTTTT
16719 TCTTTTTATTTTTTAT
1 TC-TTTTATTTTTT-T
16735 T-TTTCTATCTTTTTT
1 TCTTT-TAT-TTTTTT
16750 TCTTTTAT
1 TCTTTTAT
16758 CATTCTCGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.11
14 10 0.23
15 19 0.43
16 10 0.23
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.80
Consensus pattern (14 bp):
TCTTTTATTTTTTT
Found at i:16763 original size:23 final size:23
Alignment explanation
Indices: 16719--16763 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16709 TTATTTTTTT
**
16719 TCTTTTTATTTTTTATTTTTCTA
1 TCTTTTTATTTTTTATCATTCTA
16742 TCTTTTT-TTCTTTTATCATTCT
1 TCTTTTTATT-TTTTATCATTCT
16764 CGGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (23 bp):
TCTTTTTATTTTTTATCATTCTA
Found at i:17344 original size:16 final size:14
Alignment explanation
Indices: 17323--17361 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
17313 CTTTTGTTTA
17323 TTATTTTTTCTCTAAT
1 TTATTTTTT-TC-AAT
17339 TTA-TTTTTTCAAT
1 TTATTTTTTTCAAT
17352 TTATTTTTTT
1 TTATTTTTTT
17362 TATTTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 8 0.36
15 5 0.23
16 3 0.14
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTTTTCAAT
Found at i:17366 original size:13 final size:13
Alignment explanation
Indices: 17309--17368 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
17299 TTTTGTTACT
*
17309 TTTACTTTTGTTTA
1 TTTA-TTTTTTTTA
17323 -TTATTTTTTCTCTAA
1 TTTATTTTTT-T-T-A
**
17338 TTTATTTTTTCAA
1 TTTATTTTTTTTA
17351 TTTATTTTTTTTA
1 TTTATTTTTTTTA
17364 TTTAT
1 TTTAT
17369 ATTTAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
12 5 0.14
13 21 0.57
14 1 0.03
15 1 0.03
16 9 0.24
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:17912 original size:8 final size:8
Alignment explanation
Indices: 17850--17914 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
17840 AAAATTTACC
17850 TTTTTTAT
1 TTTTTTAT
*
17858 TTTCTTACT
1 TTTTTTA-T
*
17867 TTTTATAT
1 TTTTTTAT
*
17875 TTTTTTGT
1 TTTTTTAT
17883 TGTTTTT-T
1 T-TTTTTAT
17891 GTTTTCTTAT
1 -TTTT-TTAT
17901 TTTTTTAT
1 TTTTTTAT
17909 TTTTTT
1 TTTTTT
17915 CCTTTTTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 28 0.60
9 18 0.38
10 1 0.02
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Done.