Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold116
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: 1263769
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 4928 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:846898 original size:22 final size:23
Alignment explanation
Indices: 846849--846906 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
846839 CATGTCATAT
* *
846849 TTATTTTTTATATTATGTTTTAA
1 TTATTTTTTATATCATATTTTAA
* *
846872 TTATTTTTTATGTCATATTTTTA
1 TTATTTTTTATATCATATTTTAA
*
846895 -TATTTTATATAT
1 TTATTTTTTATAT
846907 TTAAAGTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (23 bp):
TTATTTTTTATATCATATTTTAA
Found at i:847839 original size:16 final size:17
Alignment explanation
Indices: 847810--847859 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
847800 TATAGTCAAA
**
847810 TTATTTAAAAATAAAAT
1 TTATTTAATTATAAAAT
*
847827 TTA-TTAATTAT-AATT
1 TTATTTAATTATAAAAT
847842 TTATTTAATTA-AAAAT
1 TTATTTAATTATAAAAT
847858 TT
1 TT
847860 TATGAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 6 0.22
16 18 0.67
17 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATTTAATTATAAAAT
Found at i:848749 original size:30 final size:29
Alignment explanation
Indices: 848714--848774 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
848704 AATTATATTC
*
848714 ATAAAATTAA-AATT-TTGTTATTATTAATAT
1 ATAAAA-TAATAATTATT-TTATTAATAA-AT
848744 ATAAAATAATAATTATTTTATTAATAAAT
1 ATAAAATAATAATTATTTTATTAATAAAT
848773 AT
1 AT
848775 CTCAAAACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 7 0.25
30 19 0.68
31 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
ATAAAATAATAATTATTTTATTAATAAAT
Found at i:848863 original size:18 final size:18
Alignment explanation
Indices: 848840--848904 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 18
848830 TACATTTATT
848840 ATAATATTTTTATTATAA
1 ATAATATTTTTATTATAA
848858 ATAATATATTAATTGATCT-TAA
1 ATAATAT-TT--TT-AT-TATAA
*
848880 AAAATATTTTTTATTATAA
1 ATAATA-TTTTTATTATAA
848899 ATAATA
1 ATAATA
848905 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
18 8 0.21
19 12 0.32
20 2 0.05
21 2 0.05
22 12 0.32
23 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
ATAATATTTTTATTATAA
Found at i:852556 original size:2 final size:2
Alignment explanation
Indices: 852549--852578 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
852539 CTAATGTTAA
852549 AT 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
852579 TCTACCCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:855315 original size:20 final size:22
Alignment explanation
Indices: 855264--855319 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
855254 AATGTAATAA
*
855264 AAATATTAAAATAATCATTATAT
1 AAATATT-AATTAATCATTATAT
* *
855287 AATTTTTAATTAAT-ATT-TAT
1 AAATATTAATTAATCATTATAT
855307 AAATATTAATTAA
1 AAATATTAATTAA
855320 ATAAACTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 14 0.50
21 3 0.11
22 6 0.21
23 5 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATATTAATTAATCATTATAT
Found at i:855646 original size:2 final size:2
Alignment explanation
Indices: 855639--855663 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
855629 CATCATTATC
855639 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
855664 ATACACACAC
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:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:855793 original size:23 final size:23
Alignment explanation
Indices: 855756--855799 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
855746 TTAAAATTTT
* * *
855756 ATATTTTATATTTATTCAATATC
1 ATATTTTAAAATTATTAAATATC
855779 ATATTTTAAAATTATTAAATA
1 ATATTTTAAAATTATTAAATA
855800 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTTTAAAATTATTAAATATC
Found at i:867682 original size:5 final size:5
Alignment explanation
Indices: 867672--867710 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
867662 TTTTACCAAC
* * *
867672 AAAAA AAAAA AAAAA AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
867711 CCAATCTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:877497 original size:9 final size:9
Alignment explanation
Indices: 877483--877513 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
877473 CATACAAAAA
877483 AGGGGGGGG
1 AGGGGGGGG
877492 AGGGGGGGG
1 AGGGGGGGG
*
877501 GGGGGGGGG
1 AGGGGGGGG
877510 AGGG
1 AGGG
877514 AATTAAAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.90, T:0.00
Consensus pattern (9 bp):
AGGGGGGGG
Found at i:879737 original size:3 final size:3
Alignment explanation
Indices: 879724--879758 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
879714 GTACACTGTG
* *
879724 TTA TCA TTA TTA TTA TCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
879759 GTTTGGTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:879741 original size:12 final size:12
Alignment explanation
Indices: 879724--879758 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
879714 GTACACTGTG
879724 TTATCATTATTA
1 TTATCATTATTA
879736 TTATCATTATTA
1 TTATCATTATTA
*
879748 TTATTATTATT
1 TTATCATTATT
879759 GTTTGGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:895559 original size:27 final size:27
Alignment explanation
Indices: 895527--895604 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
895517 TTTTTTTAAA
895527 CAATATTGATCCTTTTACATTATTTAT
1 CAATATTGATCCTTTTACATTATTTAT
* * *
895554 CAATA-TG-TAC-ATT---TT-TTTAA
1 CAATATTGATCCTTTTACATTATTTAT
895574 CAATATTGATCCTTTTACATTATTTAT
1 CAATATTGATCCTTTTACATTATTTAT
895601 CAAT
1 CAAT
895605 TAGAAGTACT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 9 0.24
21 4 0.11
22 2 0.05
23 2 0.05
24 2 0.05
25 2 0.05
26 4 0.11
27 13 0.34
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (27 bp):
CAATATTGATCCTTTTACATTATTTAT
Found at i:895583 original size:47 final size:48
Alignment explanation
Indices: 895508--895604 Score: 187
Period size: 47 Copynumber: 2.0 Consensus size: 48
895498 TGTGTAATTC
895508 ATATGTACATTTTTTTAAACAATATTGATCCTTTTACATTATTTATCA
1 ATATGTACATTTTTTTAAACAATATTGATCCTTTTACATTATTTATCA
895556 ATATGTACATTTTTTT-AACAATATTGATCCTTTTACATTATTTATCA
1 ATATGTACATTTTTTTAAACAATATTGATCCTTTTACATTATTTATCA
895603 AT
1 AT
895605 TAGAAGTACT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 33 0.67
48 16 0.33
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (48 bp):
ATATGTACATTTTTTTAAACAATATTGATCCTTTTACATTATTTATCA
Found at i:902020 original size:2 final size:2
Alignment explanation
Indices: 902013--902050 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
902003 TTTTACCCAT
902013 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
902051 TTGTCTAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:904075 original size:2 final size:2
Alignment explanation
Indices: 904068--904105 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
904058 AAAATGAGAA
*
904068 AT AT AT AT AT AT AT AT AT AT AT GT 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
904106 GCAACCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:916821 original size:2 final size:2
Alignment explanation
Indices: 916814--916847 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
916804 TTATCACGTG
916814 AT AT AT 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
916848 CATGCACATG
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):
AT
Found at i:918275 original size:19 final size:19
Alignment explanation
Indices: 918232--918278 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
918222 ATAGTAAAAA
*
918232 AAATAA-TTAAATATTTTT
1 AAATAATTTAAATATTTAT
*
918250 AATTAATTTAAA-ATTTAAT
1 AAATAATTTAAATATTT-AT
918269 AAATAATTTA
1 AAATAATTTA
918279 TATAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATTTAAATATTTAT
Found at i:918326 original size:20 final size:20
Alignment explanation
Indices: 918277--918327 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
918267 ATAAATAATT
*
918277 TATATAAATAAAATGTAAAA
1 TATATAAATTAAATGTAAAA
*
918297 TATAAAAATTAAAT-TAAATA
1 TATATAAATTAAATGTAAA-A
918317 TATATAAATTA
1 TATATAAATTA
918328 TATAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TATATAAATTAAATGTAAAA
Found at i:918417 original size:2 final size:2
Alignment explanation
Indices: 918410--918438 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
918400 TTCTGGTCGC
918410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
918439 AAGGGTTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:919484 original size:2 final size:2
Alignment explanation
Indices: 919477--919508 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
919467 AACTTTTGAA
919477 AT AT 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
919509 GAACACTAAC
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):
AT
Found at i:922241 original size:29 final size:28
Alignment explanation
Indices: 922176--922243 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
922166 TTTGATATTT
* *
922176 TTTAATATAAATTAAAAGTTAAATATTTA
1 TTTAA-ATAAATTAAAAGTTAAAAATTAA
*
922205 TTTGAATAAATTAAACA-TATAAAAATTAA
1 TTTAAATAAATTAAA-AGT-TAAAAATTAA
922234 TTTAAATAAA
1 TTTAAATAAA
922244 ATAATAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 11 0.33
29 22 0.67
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTAAATAAATTAAAAGTTAAAAATTAA
Found at i:944139 original size:27 final size:27
Alignment explanation
Indices: 944078--944141 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
944068 CTTTTTCATT
* *
944078 TTCCTTTGGTGGCCCTGGTGGATCACG
1 TTCCTTTGGTAGCCCTGGTGGATCAAG
* * *
944105 CTCATTTGGTAGCCGTGGTGGATCAAG
1 TTCCTTTGGTAGCCCTGGTGGATCAAG
944132 TTCCTTTGGT
1 TTCCTTTGGT
944142 TTTGATCTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.11, C:0.22, G:0.31, T:0.36
Consensus pattern (27 bp):
TTCCTTTGGTAGCCCTGGTGGATCAAG
Found at i:947981 original size:47 final size:47
Alignment explanation
Indices: 947912--948004 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
947902 GATTCTATCG
* *
947912 CATCTTAGGTATAGATCAAGTGACACGTGCAACCAAAGTTCTTTTTA
1 CATCTTAGGTATACATCAAGTGACACATGCAACCAAAGTTCTTTTTA
* *
947959 CATCTTTGGTCTACATCAAGTGACACATGCAACCAAAGTTCTTTTT
1 CATCTTAGGTATACATCAAGTGACACATGCAACCAAAGTTCTTTTT
948005 GAGGTAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (47 bp):
CATCTTAGGTATACATCAAGTGACACATGCAACCAAAGTTCTTTTTA
Found at i:961658 original size:2 final size:2
Alignment explanation
Indices: 961653--961677 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
961643 AAACTTACTC
961653 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
961678 GAATGAAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:967419 original size:2 final size:2
Alignment explanation
Indices: 967412--967439 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
967402 ACATTAATAG
967412 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
967440 GACAAATGTA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:974367 original size:3 final size:3
Alignment explanation
Indices: 974359--974388 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
974349 GGTTTGACTG
974359 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
974389 TGGAGGATTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:978373 original size:22 final size:22
Alignment explanation
Indices: 978348--978391 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
978338 TAATTAATGA
*
978348 GAGCATTCTCTATAGTTTTCAC
1 GAGCATTCTCTATAGTTCTCAC
978370 GAGCATTCTCTATAGTTCTCAC
1 GAGCATTCTCTATAGTTCTCAC
978392 AATTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (22 bp):
GAGCATTCTCTATAGTTCTCAC
Found at i:980632 original size:1 final size:1
Alignment explanation
Indices: 980626--980738 Score: 82
Period size: 1 Copynumber: 113.0 Consensus size: 1
980616 AAATCTTCAC
* * ** * *** **
980626 TTTTTTTTTTGTTTTTTTTTCTTTTTCCTTTTTTTTTGTTTTTTTTTTTCAATTTCCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** *
980691 GTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
980739 CAATTGCCAT
Statistics
Matches: 89, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.02, C:0.08, G:0.04, T:0.86
Consensus pattern (1 bp):
T
Found at i:980673 original size:32 final size:32
Alignment explanation
Indices: 980626--980739 Score: 157
Period size: 32 Copynumber: 3.7 Consensus size: 32
980616 AAATCTTCAC
*
980626 TTTTTT-TTTTGTTTTTTTTTCTTTTTCCTTT
1 TTTTTTGTTTTTTTTTTTTTTCTTTTTCCTTT
**
980657 TTTTTTG---TTTTTTTTTTTCAATTTCC-TT
1 TTTTTTGTTTTTTTTTTTTTTCTTTTTCCTTT
980685 TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTTT
1 TTTTTTGTTTT-TTTTTTTTTTCTTTTTCCTTT
980718 TTTTTTGTTTTTTTTTTTTTTC
1 TTTTTTGTTTTTTTTTTTTTTC
980740 AATTGCCATG
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.12
29 16 0.22
31 7 0.10
32 27 0.38
33 13 0.18
ACGTcount: A:0.02, C:0.09, G:0.04, T:0.85
Consensus pattern (32 bp):
TTTTTTGTTTTTTTTTTTTTTCTTTTTCCTTT
Found at i:988463 original size:7 final size:7
Alignment explanation
Indices: 988436--988465 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
988426 CCTCAAATTA
*
988436 AAAAAAA
1 AAAAAAG
988443 AAAAAAG
1 AAAAAAG
988450 AAAAAAG
1 AAAAAAG
988457 AAAAAAG
1 AAAAAAG
988464 AA
1 AA
988466 CAATTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:997448 original size:16 final size:16
Alignment explanation
Indices: 997427--997472 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
997417 TTTTAAAAGC
* *
997427 AAAATAATTATAATTT
1 AAAATAAATATAAATT
997443 AAAATAAATATAAATT
1 AAAATAAATATAAATT
*
997459 -AATTAAAT-TAAATT
1 AAAATAAATATAAATT
997473 TCAAACTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 14 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATAAATATAAATT
Found at i:998742 original size:17 final size:17
Alignment explanation
Indices: 998720--998777 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
998710 CGTATTTATT
998720 TTAAATA-ATAATATTTA
1 TTAAATATATAAT-TTTA
*
998737 TTAAATATTTAATTTTA
1 TTAAATATATAATTTTA
* *
998754 TTAAATATTTAATATTA
1 TTAAATATATAATTTTA
998771 TTTAAAT
1 -TTAAAT
998778 TAAAATCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 27 0.73
18 10 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATATATAATTTTA
Found at i:998849 original size:12 final size:12
Alignment explanation
Indices: 998832--998861 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
998822 TTTTAAGGTG
998832 AATAATAAATTT
1 AATAATAAATTT
998844 AATAATAAATTT
1 AATAATAAATTT
998856 AATAAT
1 AATAAT
998862 GTCCTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAATAAATTT
Found at i:1000356 original size:2 final size:2
Alignment explanation
Indices: 1000349--1000391 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1000339 ATTGGTAGTT
*
1000349 TA TA TA TA CA 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
1000391 T
1 T
1000392 TGCTTTGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1001181 original size:124 final size:118
Alignment explanation
Indices: 1000955--1001198 Score: 382
Period size: 124 Copynumber: 2.0 Consensus size: 118
1000945 ATTTCCAAAA
*
1000955 TATATGTTTTACTTGTAAAAGAATTTATTATCAATGTCTTAACAGTAACCAGAAAACCGTTATAT
1 TATATGTTTTACTTGTAAAAGAATTTATCATCAATGTCTTAACAGTAACCAGAAAACCGTTATAT
*
1001020 ATAGTCTTTCCAAAAGCATGCAGACTTATATGGACACACAAACTATACTCTTC
66 ATAGTCTTTCCAAAAGCATGCAGACTTATATAGACACACAAACTATACTCTTC
1001073 TATATGTTTTACTTGTAAAAGAATTTATCATCAATGTCTTAACAGTAACCGGTTGCAGAAAACCG
1 TATATGTTTTACTTGTAAAAGAATTTATCATCAATGTCTTAACAGTAA-C-----CAGAAAACCG
* *
1001138 TTATATATAGTCTTTCCAAAAGCGTGCAG-GTATATATAGACACACAAACTATACTCTTC
60 TTATATATAGTCTTTCCAAAAGCATGCAGACT-TATATAGACACACAAACTATACTCTTC
1001197 TA
1 TA
1001199 ATCAGGAAAG
Statistics
Matches: 115, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
118 47 0.41
119 1 0.01
123 1 0.01
124 66 0.57
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (118 bp):
TATATGTTTTACTTGTAAAAGAATTTATCATCAATGTCTTAACAGTAACCAGAAAACCGTTATAT
ATAGTCTTTCCAAAAGCATGCAGACTTATATAGACACACAAACTATACTCTTC
Found at i:1001319 original size:2 final size:2
Alignment explanation
Indices: 1001312--1001336 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1001302 ACAATACAGC
1001312 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1001337 TGGAAATTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1001593 original size:2 final size:2
Alignment explanation
Indices: 1001586--1001610 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1001576 ATACTTACAA
1001586 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1001611 GTACTAGTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1005288 original size:2 final size:2
Alignment explanation
Indices: 1005281--1005318 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
1005271 CACCCCCAAA
* *
1005281 AT AT AT AT AT AT AT AT AT AT AT AC AT A- AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1005319 AAAAATCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:1006713 original size:2 final size:2
Alignment explanation
Indices: 1006706--1006743 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1006696 TATTAATTTC
1006706 AT AT AT AT AT 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
1006744 TCTCTGGCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1007510 original size:2 final size:2
Alignment explanation
Indices: 1007499--1007527 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1007489 CATGACATTG
1007499 AT AT -T 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
1007528 GTTTGCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1008688 original size:4 final size:4
Alignment explanation
Indices: 1008679--1008722 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
1008669 TCCTAACCAA
1008679 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1008723 GAAGGAAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:1010393 original size:19 final size:17
Alignment explanation
Indices: 1010362--1010397 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
1010352 ATTTCTTTCT
1010362 TTTTCTTTTATTTTTAA
1 TTTTCTTTTATTTTTAA
1010379 TTTTCATTTTCATTTTTAA
1 TTTTC-TTTT-ATTTTTAA
1010398 AATGTAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCTTTTATTTTTAA
Found at i:1010560 original size:14 final size:14
Alignment explanation
Indices: 1010541--1010572 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1010531 TGTTTTATAC
1010541 ATATATATATGTAT
1 ATATATATATGTAT
1010555 ATATATATATGTAT
1 ATATATATATGTAT
1010569 ATAT
1 ATAT
1010573 TTTGAGGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:1013061 original size:73 final size:73
Alignment explanation
Indices: 1012942--1013090 Score: 298
Period size: 73 Copynumber: 2.0 Consensus size: 73
1012932 AGTGTGGATT
1012942 ATGGTTAACGACAGATAAGTTAAATAATAAACTGTCTGATATTCTAGTAAGTTTACTGTTGAGAA
1 ATGGTTAACGACAGATAAGTTAAATAATAAACTGTCTGATATTCTAGTAAGTTTACTGTTGAGAA
1013007 AATGCAGC
66 AATGCAGC
1013015 ATGGTTAACGACAGATAAGTTAAATAATAAACTGTCTGATATTCTAGTAAGTTTACTGTTGAGAA
1 ATGGTTAACGACAGATAAGTTAAATAATAAACTGTCTGATATTCTAGTAAGTTTACTGTTGAGAA
1013080 AATGCAGC
66 AATGCAGC
1013088 ATG
1 ATG
1013091 CATGGCCAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (73 bp):
ATGGTTAACGACAGATAAGTTAAATAATAAACTGTCTGATATTCTAGTAAGTTTACTGTTGAGAA
AATGCAGC
Found at i:1017555 original size:2 final size:2
Alignment explanation
Indices: 1017548--1017586 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1017538 ATACTTCATA
1017548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1017587 AATAAGTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1018021 original size:15 final size:15
Alignment explanation
Indices: 1018001--1018032 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1017991 CTTTTCCTTT
1018001 CTTCTTCTTCTTCTC
1 CTTCTTCTTCTTCTC
1018016 CTTCTTCTTCTTCTC
1 CTTCTTCTTCTTCTC
1018031 CT
1 CT
1018033 CCTCATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
CTTCTTCTTCTTCTC
Found at i:1018045 original size:3 final size:3
Alignment explanation
Indices: 1017999--1018029 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1017989 CTCTTTTCCT
*
1017999 TTC TTC TTC TTC TTC TCC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1018030 CCTCCTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:1018074 original size:2 final size:2
Alignment explanation
Indices: 1018067--1018092 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1018057 AAAACAGTTT
1018067 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
1018093 AACCCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1018688 original size:32 final size:32
Alignment explanation
Indices: 1018652--1018715 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
1018642 TGGTAACTTA
*
1018652 CCTTTGGACACAGAAGTTACTGCATGTGCTTG
1 CCTTTGGACACAGAAGTTACTGAATGTGCTTG
*
1018684 CCTTTGGACACTGAAGTTACTGAATGTGCTTG
1 CCTTTGGACACAGAAGTTACTGAATGTGCTTG
1018716 AAATTTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (32 bp):
CCTTTGGACACAGAAGTTACTGAATGTGCTTG
Found at i:1022189 original size:2 final size:2
Alignment explanation
Indices: 1022182--1022228 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1022172 TTTAATTTGA
*
1022182 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1022224 TC TC T
1 TC TC T
1022229 TAGCAGAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:1023232 original size:3 final size:3
Alignment explanation
Indices: 1023224--1023261 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1023214 ATCCAATTCC
1023224 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1023262 TAAATTAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1023410 original size:2 final size:2
Alignment explanation
Indices: 1023403--1023434 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1023393 ATCACTACAC
1023403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1023435 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1024151 original size:3 final size:3
Alignment explanation
Indices: 1024137--1024167 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1024127 AATTCCATCG
*
1024137 TCT TCC TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1024168 TAAATTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:1024308 original size:2 final size:2
Alignment explanation
Indices: 1024301--1024344 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1024291 CTCTTTCTTG
1024301 AT AT AT AT AT AT AT 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
1024343 AT
1 AT
1024345 TTATTCAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1031248 original size:2 final size:2
Alignment explanation
Indices: 1031243--1031273 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1031233 ACACACACAT
1031243 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1031274 AACTCACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1035907 original size:2 final size:2
Alignment explanation
Indices: 1035900--1035939 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1035890 TGCACAATTT
1035900 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
1035940 CAGACACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1043223 original size:2 final size:2
Alignment explanation
Indices: 1043216--1043245 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1043206 ATTTCTTGTA
*
1043216 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1043246 TCTTGCCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1047483 original size:2 final size:2
Alignment explanation
Indices: 1047476--1047505 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1047466 CCTTCCCTCT
*
1047476 TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1047506 ACGATAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1059298 original size:7 final size:7
Alignment explanation
Indices: 1059286--1059320 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
1059276 CCTCCCTAAT
1059286 GCTTGTG
1 GCTTGTG
1059293 GCTTGTG
1 GCTTGTG
1059300 GCTTGTG
1 GCTTGTG
1059307 GCTTGTG
1 GCTTGTG
1059314 GC-TGTG
1 GCTTGTG
1059320 G
1 G
1059321 GAATAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.00, C:0.14, G:0.46, T:0.40
Consensus pattern (7 bp):
GCTTGTG
Found at i:1059577 original size:2 final size:2
Alignment explanation
Indices: 1059570--1059611 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1059560 CACTTCGCAA
1059570 AT AT AT AT AT AT AT 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
1059612 TTTAGGCATT
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):
AT
Found at i:1059913 original size:13 final size:13
Alignment explanation
Indices: 1059878--1059918 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
1059868 GTGATTCCCG
*
1059878 TTTTCTTTTTACT
1 TTTTCTTTTAACT
*
1059891 ATTT-TTTTAACT
1 TTTTCTTTTAACT
1059903 TTTTCTTTTAA-T
1 TTTTCTTTTAACT
1059915 TTTT
1 TTTT
1059919 ACATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTTTAACT
Found at i:1060544 original size:13 final size:13
Alignment explanation
Indices: 1060528--1060586 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
1060518 AAAATTTATT
1060528 TTAAATATTTTAA
1 TTAAATATTTTAA
* *
1060541 TTAAATAAATTAAA
1 TTAAAT-ATTTTAA
*
1060555 TT-ATTAATTTTAA
1 TTAAAT-ATTTTAA
*
1060568 TAAAATATTTT-A
1 TTAAATATTTTAA
1060580 TTAAATA
1 TTAAATA
1060587 AAATTAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 7 0.19
13 20 0.56
14 9 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAAATATTTTAA
Found at i:1060591 original size:35 final size:34
Alignment explanation
Indices: 1060546--1060616 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 34
1060536 TTTAATTAAA
* *
1060546 TAAATTAAATTATTAATTTTAATAAAATA-TTTTAT
1 TAAATAAAATTAATAA-TTT-ATAAAATATTTTTAT
1060581 TAAATAAAATTAATAATTTATAAAATATTTTTAT
1 TAAATAAAATTAATAATTTATAAAATATTTTTAT
1060615 TA
1 TA
1060617 TCGTGAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 8 0.24
34 11 0.33
35 14 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TAAATAAAATTAATAATTTATAAAATATTTTTAT
Found at i:1060981 original size:37 final size:37
Alignment explanation
Indices: 1060924--1060996 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
1060914 TTTCTTCAAC
* *
1060924 TTTTCTTTTCTGTTCGTCTTAAAACTTCTGAACTTCT
1 TTTTCTATTCTGTTCGTCTTAAAACCTCTGAACTTCT
* * *
1060961 TTTTCTATTCTTTTCTTCTTATAACCTCTGAACTTC
1 TTTTCTATTCTGTTCGTCTTAAAACCTCTGAACTTC
1060997 ATTAGTTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.55
Consensus pattern (37 bp):
TTTTCTATTCTGTTCGTCTTAAAACCTCTGAACTTCT
Found at i:1063647 original size:3 final size:3
Alignment explanation
Indices: 1063639--1063681 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
1063629 TGAATCTGAT
*
1063639 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1063682 GTGATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1074182 original size:2 final size:2
Alignment explanation
Indices: 1074175--1074209 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1074165 GATATGTAAA
* *
1074175 AT AT AT AT AT AT AT AT AT AT AT AT GT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1074210 CAAGACTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1074892 original size:2 final size:2
Alignment explanation
Indices: 1074885--1074909 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1074875 AAAAAGCTTC
1074885 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1074910 GTTTGTATGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1078825 original size:2 final size:2
Alignment explanation
Indices: 1078818--1078849 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1078808 TTCAGGATTA
*
1078818 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1078850 TTGGTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1088368 original size:33 final size:33
Alignment explanation
Indices: 1088331--1088397 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1088321 TTCAACGATT
1088331 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1088364 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1088397 T
1 T
1088398 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1088369 original size:13 final size:13
Alignment explanation
Indices: 1088351--1088375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1088341 CATAAAATGT
1088351 TGTATCGATACAA
1 TGTATCGATACAA
1088364 TGTATCGATACA
1 TGTATCGATACA
1088376 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1088461 original size:13 final size:13
Alignment explanation
Indices: 1088443--1088467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1088433 ATTACTCACA
1088443 TGTATCGATACAT
1 TGTATCGATACAT
1088456 TGTATCGATACA
1 TGTATCGATACA
1088468 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1095776 original size:15 final size:15
Alignment explanation
Indices: 1095756--1095789 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1095746 TCCAAACACA
*
1095756 AAAAAAAGAAAAAAG
1 AAAAAAACAAAAAAG
*
1095771 AAAAAAACAAAACAG
1 AAAAAAACAAAAAAG
1095786 AAAA
1 AAAA
1095790 TCTCGGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:1095847 original size:13 final size:13
Alignment explanation
Indices: 1095829--1095853 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1095819 CCTACTCTTC
1095829 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
1095842 ACAAAAAAAAAA
1 ACAAAAAAAAAA
1095854 GGGAAAAACC
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:1096922 original size:30 final size:32
Alignment explanation
Indices: 1096823--1097164 Score: 339
Period size: 31 Copynumber: 10.8 Consensus size: 32
1096813 AAAAAAAAAA
*
1096823 AAAGTCCACGACTCAGTGGCAATCTCTG-C-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGTCTTC
* *
1096854 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
1096886 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
*
1096916 AAAGTCCACGACTCAGTGGCATCTTT-TCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGT-CTTC
*
1096948 AAAGTCCACAACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
1096978 AAAGTCCACGACTCAGTGGCATCTTT-TCCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGT-CTTC
*
1097010 AAAGTCCACGACTCAGTGACAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* *
1097040 AAAGTCCACGACTCAGTGACAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * * *
1097071 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGTCCACGACTCAGTGGCA-TCTTTGT--C--TTC
* * * * *
1097108 AAAGCCCACAACTCCGTGGCACCTTT-TTTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * * *
1097139 AAAGCCCACAACTCCGTGGCACCTTT
1 AAAGTCCACGACTCAGTGGCATCTTT
1097165 TTTTAAAAAG
Statistics
Matches: 276, Mismatches: 18, Indels: 34
0.84 0.05 0.10
Matches are distributed among these distances:
30 81 0.29
31 90 0.33
32 71 0.26
33 5 0.02
35 2 0.01
36 4 0.01
37 23 0.08
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
Found at i:1096933 original size:62 final size:62
Alignment explanation
Indices: 1096823--1097091 Score: 407
Period size: 62 Copynumber: 4.3 Consensus size: 62
1096813 AAAAAAAAAA
* * *
1096823 AAAGTCCACGACTCAGTGGCAATCTCTG-CTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTC
*
1096886 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTC
*
1096948 AAAGTCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTC
* * *
1097010 AAAGTCCACGACTCAGTGACATTTTGTCTCAAAGTCCACGACTCAGTGACAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTC
* * *
1097071 AAAGCCCACAACTCTGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1097092 CTCTTTTTCC
Statistics
Matches: 193, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
61 28 0.15
62 145 0.75
63 20 0.10
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTC
Found at i:1097100 original size:33 final size:33
Alignment explanation
Indices: 1096852--1097975 Score: 1028
Period size: 33 Copynumber: 33.9 Consensus size: 33
1096842 CAATCTCTGC
* * *
1096852 TCAAAGTCCACGACTCAGTGGCA-TCTTTTTCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * * *
1096884 TTAAAGTCCACGACTCAGTGGCA-T-TTTGTC-
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1096914 TCAAAGTCCACGACTCAGTGGCA-TCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1096946 TTAAAGTCCACAACTCAGTGGCA-T-TTTGTC-
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1096976 TCAAAGTCCACGACTCAGTGGCA-TCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * * *
1097008 TCAAAGTCCACGACTCAGTGACA-T-TTTGTC-
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1097038 TCAAAGTCCACGACTCAGTGACA-T-TTTTTCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
1097069 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--C--T
1097106 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT-T
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
1097137 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT-T
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * *
1097168 TAAAAAGCCCACAACTCTGTGGCACACTTTTTCTTT
1 T-CAAAGCCCACAACTCCGTGGCACTCTTTTTC--T
* * *
1097204 TTAAAGCCCACAACTCTGTGGCACCCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--C--T
*
1097241 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1097274 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
1097307 TCTAAGCCCACAACTCCGTGGCACTCTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTT-TCT
* * *
1097341 TTAAAGCCCACAACTCTGTGGCACCCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--C--T
*
1097378 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1097411 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
1097444 TCTAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1097477 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
1097510 TCTAAGCCCACAACTCCGTGGCATTCTTTTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
* * * *
1097544 TTAAAGCCCACAACTCTGTGGCACACTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
1097577 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1097610 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
1097643 TCTAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
1097676 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * *
1097709 TCTAAGCCCACAACTCTGTGGCATTCTTTTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
* * * *
1097743 TTAAAGCCCACAACTCTGTGGCACACTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
1097776 TCTAAGCCCACAACTCCGTGGTACTCTTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT-CT
*
1097810 TCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT-CT
* *
1097844 TCTAAGCCCACAACTTCGTGGCACTCTTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT-CT
* *
1097878 TCTAAGTCCACAACTCCGTGGCACTCTTTTTTCCCTT
1 TCAAAGCCCACAACTCCGTGGCACTC-TTTTT--C-T
* *
1097915 TTAAAGCCCACAACTCCGTGGCACT-TTGTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
** * *
1097948 TTTAAGTCCACAACTTCGTGGCA-TCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTT
1097976 CACCCTTTCT
Statistics
Matches: 947, Mismatches: 115, Indels: 59
0.84 0.10 0.05
Matches are distributed among these distances:
30 74 0.08
31 73 0.08
32 91 0.10
33 379 0.40
34 174 0.18
35 40 0.04
36 10 0.01
37 106 0.11
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
Found at i:1097687 original size:199 final size:200
Alignment explanation
Indices: 1097062--1097970 Score: 1209
Period size: 199 Copynumber: 4.5 Consensus size: 200
1097052 TCAGTGACAT
* * * *
1097062 TTTTTCTTCAAAGCCCACAACT-CTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTG
1 TTTTCCTTTAAAGCCCACAATTAC-GTGGCACTC-TTTT-CC--TTCTAAGCCCACAACTCCGTG
* * * * * *
1097126 GCA-CCTTTT-TTTCAAAGCCCACAACTCCGTGGCAC-CTTTT-TTTAAAAAGCCCACAACTCTG
61 GCATCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTCCTT-CAAAGCCCACAACTCCG
* * * *
1097187 TGGCACACTTTTTCTTTTTAAAGCCCACAACT-CTGTGGCACCCTTTTTCCCTTTTCAAAGCCCA
125 TGGCACTCTTTTTC-CTTTAAAGCCCACAACTAC-GTGGCACTCTTTTT-CC--TTCTAAGCCCA
1097251 CAACTCCGTGGCACTC
185 CAACTCCGTGGCACTC
1097267 TTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCA-C
1 TTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCATC
*
1097331 TCTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTTTCCCTTTTCAAAGCCCACAACTCCG
66 T-TTTTC-TTTTAAAGCCCACAACTCTGTGGCACAC-TTTT-CC--TTCAAAGCCCACAACTCCG
*
1097396 TGGCACTC-TTTTCCTTTAAAGCCCACAATTACGTGGCACTC-TTTTCCTTCTAAGCCCACAACT
125 TGGCACTCTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTTCCTTCTAAGCCCACAACT
1097459 CCGTGGCACTC
190 CCGTGGCACTC
1097470 TTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCATT
1 TTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCA-T
1097535 CTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTCCTTCAAAGCCCACAACTCCGTGGCA
65 CTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTCCTTCAAAGCCCACAACTCCGTGGCA
*
1097600 CTC-TTTTCCTTTAAAGCCCACAATTACGTGGCACTC-TTTTCCTTCTAAGCCCACAACTCCGTG
130 CTCTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTG
1097663 GCACTC
195 GCACTC
*
1097669 TTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCTGTGGCATT
1 TTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCA-T
* *
1097734 CTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTCCTTCTAAGCCCACAACTCCGTGGTA
65 CTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTCCTTCAAAGCCCACAACTCCGTGGCA
* *
1097799 CTCTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTTCGT
130 CTCTTTTTCCTT-TAAAGCCCACAACTACGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGT
1097863 GGCACTC
194 GGCACTC
* * * *
1097870 TTTTTCCTTCT-AAGTCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGT
1 -TTTTCCTT-TAAAGCCCACAATTACGTGGCACTC--TTTT-CCTTCT-AAGCCCACAACTCCGT
* *
1097934 GGCA-CTTTGTTCTTTTTAAGTCCACAACT-TCGTGGCA
60 GGCATCTTT-TTCTTTTAAAGCCCACAACTCT-GTGGCA
1097971 TCTTTCACCC
Statistics
Matches: 651, Mismatches: 29, Indels: 48
0.89 0.04 0.07
Matches are distributed among these distances:
199 223 0.34
200 29 0.04
201 59 0.09
202 36 0.06
203 119 0.18
204 42 0.06
205 62 0.10
206 28 0.04
207 23 0.04
208 6 0.01
209 22 0.03
210 2 0.00
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (200 bp):
TTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCATC
TTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTCCTTCAAAGCCCACAACTCCGTGGCAC
TCTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGG
CACTC
Found at i:1098020 original size:33 final size:33
Alignment explanation
Indices: 1097979--1098049 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1097969 CATCTTTCAC
1097979 CCTT-TCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
1098011 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1098044 CCTTCT
1 CCTTCT
1098050 AAGCCCAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:1098113 original size:49 final size:49
Alignment explanation
Indices: 1098049--1098847 Score: 1043
Period size: 49 Copynumber: 16.7 Consensus size: 49
1098039 GCAACCCTTC
* * * *
1098049 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1098098 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1098147 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1098196 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1098239 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1098288 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1098337 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1098386 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1098435 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1098478 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1098527 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1098576 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1098625 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1098668 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1098717 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1098760 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
*
1098812 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1098848 ACATCCTTTT
Statistics
Matches: 658, Mismatches: 65, Indels: 51
0.85 0.08 0.07
Matches are distributed among these distances:
43 158 0.24
45 3 0.00
47 3 0.00
49 457 0.69
50 1 0.00
52 36 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1098387 original size:190 final size:192
Alignment explanation
Indices: 1098049--1098910 Score: 1125
Period size: 190 Copynumber: 4.5 Consensus size: 192
1098039 GCAACCCTTC
* * * * * * *
1098049 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * * * *
1098114 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* * * *
1098179 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-CTT
131 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCACTT
1098239 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* *
1098304 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACAC
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
1098369 ATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TCA-CT
1098434 T
192 T
1098435 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* *
1098494 GGCCTTGAATCAGCATATTGGCATCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
1098559 ATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---TCA-CT
1098624 T
192 T
1098625 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1098684 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
1098749 ATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCA
131 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CA---T-CA
1098808 TCTT
190 -CTT
* * * *
1098812 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAA
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T--TCATCTTTAAGTCCAA
* * *
1098877 TATCGTTGGCCGTGAATCAACATATTGGCATCTT
59 TATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1098911 TATCACTTTT
Statistics
Matches: 618, Mismatches: 32, Indels: 34
0.90 0.05 0.05
Matches are distributed among these distances:
184 39 0.06
186 6 0.01
187 42 0.07
190 444 0.72
192 1 0.00
194 1 0.00
196 42 0.07
198 1 0.00
200 42 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (192 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCACTT
Found at i:1098473 original size:239 final size:237
Alignment explanation
Indices: 1098049--1098910 Score: 1150
Period size: 239 Copynumber: 3.6 Consensus size: 237
1098039 GCAACCCTTC
* *
1098049 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1098114 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* *
1098179 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGT
131 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGT
*
1098244 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
196 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCA-CTT
* *
1098288 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
1098353 GGCCTTGACTCAACACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
1098418 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGT
131 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGT
* * *
1098483 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCACCTT
196 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCA-CTT
* * * * *
1098527 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * * *
1098592 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * *
1098657 ATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCT
131 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CT
1098716 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTT
190 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCACTT
* *
1098760 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTTTAAGTCCAATGTA
* * * * *
1098825 GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCGT
63 GCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTTTAAGTCCAATATAGCTGGCCTT
*
1098890 GAATCAACATATTGGCATCTT
121 GAATCAGCATATTGGCATCTT
1098911 TATCACTTTT
Statistics
Matches: 549, Mismatches: 54, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
233 78 0.14
235 4 0.01
236 40 0.07
237 2 0.00
239 386 0.70
241 1 0.00
243 38 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (237 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGT
CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCACTT
Found at i:1098827 original size:52 final size:54
Alignment explanation
Indices: 1098757--1098906 Score: 178
Period size: 52 Copynumber: 2.8 Consensus size: 54
1098747 ACATTGGCAC
1098757 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCACAT
* * * * *
1098809 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCA-CAT
* * * * *
1098865 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1098907 TCTTTATCAC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 38 0.47
54 6 0.08
56 36 0.45
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCACAT
Found at i:1099760 original size:33 final size:33
Alignment explanation
Indices: 1099723--1099789 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1099713 TTCAACGATT
1099723 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1099756 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1099789 T
1 T
1099790 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1099761 original size:13 final size:13
Alignment explanation
Indices: 1099743--1099767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1099733 CATAAAATGT
1099743 TGTATCGATACAA
1 TGTATCGATACAA
1099756 TGTATCGATACA
1 TGTATCGATACA
1099768 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1099853 original size:13 final size:13
Alignment explanation
Indices: 1099835--1099859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1099825 ATTACTCACA
1099835 TGTATCGATACAT
1 TGTATCGATACAT
1099848 TGTATCGATACA
1 TGTATCGATACA
1099860 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1108895 original size:41 final size:41
Alignment explanation
Indices: 1108833--1108914 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
1108823 GCATTTTTAA
* *
1108833 GCATTTTACTTGAATTCATGTCTAGTTGTCAACCTTATATG
1 GCATGTTACTTGAATTCATGTCAAGTTGTCAACCTTATATG
*
1108874 GCATGTTACTTGAATTCATGTCAAGTTGTCAGCCTTATATG
1 GCATGTTACTTGAATTCATGTCAAGTTGTCAACCTTATATG
1108915 ACATTTTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (41 bp):
GCATGTTACTTGAATTCATGTCAAGTTGTCAACCTTATATG
Found at i:1112197 original size:20 final size:19
Alignment explanation
Indices: 1112172--1112222 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1112162 GTTCAATATT
*
1112172 TTAATTCAATACGAAAATAA
1 TTAATTCAATA-GAAAACAA
*
1112192 TTAATTCAAGTATAAAACAA
1 TTAATTCAA-TAGAAAACAA
*
1112212 TTAATTTAATA
1 TTAATTCAATA
1112223 AATTATCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (19 bp):
TTAATTCAATAGAAAACAA
Found at i:1124258 original size:5 final size:5
Alignment explanation
Indices: 1124248--1124289 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
1124238 TGTTGTTATC
1124248 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT AT
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT AT
1124290 GGCTTAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (5 bp):
ATTGT
Found at i:1124957 original size:16 final size:16
Alignment explanation
Indices: 1124917--1124961 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1124907 TAAGCTCCAG
1124917 ATTCAAAATAATTCAA
1 ATTCAAAATAATTCAA
* *
1124933 A-TCTGAAATAATTTAA
1 ATTC-AAAATAATTCAA
1124949 ATTCAAAATAATT
1 ATTCAAAATAATT
1124962 AAAACTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.08
16 20 0.83
17 2 0.08
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTCAAAATAATTCAA
Found at i:1125443 original size:16 final size:16
Alignment explanation
Indices: 1125424--1125466 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
1125414 TAGCTGAACT
1125424 CAAAATGATTTGAAAC
1 CAAAATGATTTGAAAC
* *
1125440 CAAAATGATATGAATC
1 CAAAATGATTTGAAAC
*
1125456 CAAAATAATTT
1 CAAAATGATTT
1125467 AAAAATTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (16 bp):
CAAAATGATTTGAAAC
Found at i:1125542 original size:15 final size:17
Alignment explanation
Indices: 1125519--1125559 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1125509 TTAAACTTTA
1125519 AAAATTTAATCT-AATTT
1 AAAA-TTAATCTCAATTT
1125536 -AAATTAA-CTCAATTT
1 AAAATTAATCTCAATTT
1125551 AAAATTAAT
1 AAAATTAAT
1125560 TTAACTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.10
15 9 0.43
16 10 0.48
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTAATCTCAATTT
Found at i:1131088 original size:3 final size:3
Alignment explanation
Indices: 1131080--1131121 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1131070 TACGAAAAAT
1131080 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1131122 ATGATGAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1136220 original size:19 final size:19
Alignment explanation
Indices: 1136196--1136242 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1136186 AATTTTGAAT
1136196 TTATTATTATAAT-ATCTAA
1 TTATTATTATAATAAT-TAA
1136215 TTATTATTATAATAATTAA
1 TTATTATTATAATAATTAA
1136234 TT-TTATTAT
1 TTATTATTAT
1136243 TATTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.26
19 18 0.67
20 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATTATAATAATTAA
Found at i:1137767 original size:18 final size:19
Alignment explanation
Indices: 1137732--1137772 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1137722 AATAAAAAAA
*
1137732 TAAATTTTTTTATTTTTAT
1 TAAATTTTTTTATTTTTAG
1137751 TAAATTTTTTTA-TTTTAG
1 TAAATTTTTTTATTTTTAG
1137769 TAAA
1 TAAA
1137773 CTTTATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TAAATTTTTTTATTTTTAG
Found at i:1138978 original size:18 final size:18
Alignment explanation
Indices: 1138955--1138990 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1138945 TTTTGGAGGT
1138955 ATATAAAT-ATAAGTATAA
1 ATATAAATAAT-AGTATAA
1138973 ATATAAATAATAGTATAA
1 ATATAAATAATAGTATAA
1138991 TACAAGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
ATATAAATAATAGTATAA
Found at i:1140038 original size:25 final size:26
Alignment explanation
Indices: 1140010--1140066 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
1140000 AGGAATTTTT
*
1140010 TTAATATTTAT-AAATTTTAATTAAA
1 TTAATATTTATAAAATTTAAATTAAA
*
1140035 TTAA-AATTATAAAATTTAAATTAAA
1 TTAATATTTATAAAATTTAAATTAAA
1140060 TT-ATATT
1 TTAATATT
1140067 AAATAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAATATTTATAAAATTTAAATTAAA
Found at i:1140090 original size:16 final size:15
Alignment explanation
Indices: 1140048--1140098 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
1140038 AAATTATAAA
*
1140048 ATTTAAATTA-AATT
1 ATTTAAATAATAATT
1140062 ATATTAAATAATAATT
1 AT-TTAAATAATAATT
*
1140078 ATTTAATTAAATAATT
1 ATTTAAAT-AATAATT
*
1140094 TTTTA
1 ATTTA
1140099 TCTTGAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 2 0.06
15 12 0.39
16 17 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTAAATAATAATT
Found at i:1140519 original size:24 final size:24
Alignment explanation
Indices: 1140487--1140576 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 24
1140477 ACTTGACTCT
*
1140487 AATAAAATATAAAAAAATAATTAA
1 AATATAATATAAAAAAATAATTAA
* *
1140511 AATATAATATAAAAAGATAATAAA
1 AATATAATATAAAAAAATAATTAA
1140535 TATATATGAATATATTAAAAAAT-ATATAA
1 -A-ATAT-AATATA--AAAAAATAAT-TAA
* *
1140564 AATTTTATATAAA
1 AATATAATATAAA
1140577 TTTATGTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
24 23 0.43
25 1 0.02
26 9 0.17
27 9 0.17
28 3 0.06
29 8 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AATATAATATAAAAAAATAATTAA
Found at i:1140530 original size:13 final size:13
Alignment explanation
Indices: 1140492--1140532 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1140482 ACTCTAATAA
1140492 AATATAAAAAAAT
1 AATATAAAAAAAT
*
1140505 AAT-T-AAAATAT
1 AATATAAAAAAAT
*
1140516 AATATAAAAAGAT
1 AATATAAAAAAAT
1140529 AATA
1 AATA
1140533 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
AATATAAAAAAAT
Found at i:1141532 original size:3 final size:3
Alignment explanation
Indices: 1141524--1141552 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1141514 ATTCATCCAC
1141524 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1141553 TTAAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1142234 original size:2 final size:2
Alignment explanation
Indices: 1142224--1142262 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
1142214 TGTGTGTGTG
* * *
1142224 TA TA AA TA TA TA TA TA TA TA TA TA TA TC TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1142263 GCAGCAGGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1146906 original size:18 final size:18
Alignment explanation
Indices: 1146879--1146913 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1146869 TAAATATAAT
1146879 TATGATATGATA-AAATA
1 TATGATATGATATAAATA
1146896 TATGAATATGATATAAAT
1 TATG-ATATGATATAAAT
1146914 CTAAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (18 bp):
TATGATATGATATAAATA
Found at i:1149941 original size:2 final size:2
Alignment explanation
Indices: 1149934--1149958 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1149924 TCAAATCTCG
1149934 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1149959 AATCACAACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1153606 original size:16 final size:15
Alignment explanation
Indices: 1153582--1153611 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1153572 AATATTTTAC
1153582 ATAAAATAATAATTA
1 ATAAAATAATAATTA
1153597 ATAAATATAATAATT
1 ATAAA-ATAATAATT
1153612 CATATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAAATAATAATTA
Found at i:1158508 original size:26 final size:27
Alignment explanation
Indices: 1158470--1158522 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
1158460 TGTGTTTGTG
*
1158470 ATTAAATTAATATATTTA-ATTTTAAA
1 ATTAAATTAATATATTTATATATTAAA
*
1158496 ATTAAACTT-ATATTTTTATATATTAAA
1 ATTAAA-TTAATATATTTATATATTAAA
1158523 CTATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTAAATTAATATATTTATATATTAAA
Found at i:1161680 original size:3 final size:3
Alignment explanation
Indices: 1161672--1161712 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1161662 CATCAAATAT
*
1161672 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1161713 AAGAGTGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1167620 original size:2 final size:2
Alignment explanation
Indices: 1167613--1167643 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1167603 TCTTATAAAG
1167613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1167644 AAATATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1168745 original size:19 final size:20
Alignment explanation
Indices: 1168716--1168755 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1168706 TGATATGATA
*
1168716 ATTTACATATTAATATACAT
1 ATTTACATATTAATACACAT
*
1168736 ATTT-CATATTTATACACAT
1 ATTTACATATTAATACACAT
1168755 A
1 A
1168756 AATTGAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTACATATTAATACACAT
Found at i:1169866 original size:24 final size:25
Alignment explanation
Indices: 1169809--1169866 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
1169799 GAATATATTT
*
1169809 TTTAAATTAAATTTTATACGTGATA
1 TTTAAATTAAATTTTATACATGATA
* *
1169834 TTAAAATTAAATTTTATA-ATTATA
1 TTTAAATTAAATTTTATACATGATA
*
1169858 TTTACATTA
1 TTTAAATTA
1169867 CTTTCTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (25 bp):
TTTAAATTAAATTTTATACATGATA
Found at i:1179622 original size:9 final size:9
Alignment explanation
Indices: 1179610--1179639 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1179600 ATTTTCCTAG
1179610 TTTTTCTTT
1 TTTTTCTTT
1179619 TTTTCTCTTT
1 TTTT-TCTTT
1179629 TTTTTCTTT
1 TTTTTCTTT
1179638 TT
1 TT
1179640 CCTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:1179647 original size:16 final size:17
Alignment explanation
Indices: 1179618--1179649 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1179608 AGTTTTTCTT
1179618 TTTTTCTCTTTTTTTTC
1 TTTTTCTCTTTTTTTTC
1179635 TTTTTC-CTTTTTTTT
1 TTTTTCTCTTTTTTTT
1179650 AGCTGAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTC
Found at i:1179648 original size:17 final size:19
Alignment explanation
Indices: 1179610--1179649 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
1179600 ATTTTCCTAG
*
1179610 TTTTTCTTTTTTTCTCTTT
1 TTTTTCTTTTTTCCTCTTT
1179629 TTTTTC-TTTTTCCT-TTT
1 TTTTTCTTTTTTCCTCTTT
1179646 TTTT
1 TTTT
1179650 AGCTGAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 7 0.35
19 6 0.30
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTCTTTTTTCCTCTTT
Found at i:1179786 original size:22 final size:24
Alignment explanation
Indices: 1179758--1179804 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
1179748 TGTTGTGTGG
1179758 TTGCTTG-GTGTTGCT-GTTCTTC
1 TTGCTTGCGTGTTGCTCGTTCTTC
*
1179780 TTGCTTGCTTTGTTGCTCGTTCTTC
1 TTGCTTGC-GTGTTGCTCGTTCTTC
1179805 CTCTTTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.00, C:0.21, G:0.23, T:0.55
Consensus pattern (24 bp):
TTGCTTGCGTGTTGCTCGTTCTTC
Found at i:1179813 original size:22 final size:24
Alignment explanation
Indices: 1179766--1179819 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
1179756 GGTTGCTTGG
*
1179766 TGTTGCT-GTTCTTCTTGCTTGCTT
1 TGTTGCTCGTTCTTCCTGCTT-CTT
1179790 TGTTGCTCGTTCTTCCT-CTT-TT
1 TGTTGCTCGTTCTTCCTGCTTCTT
*
1179812 TGCTGCTC
1 TGTTGCTC
1179820 ATTTTTCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.33
24 10 0.37
25 8 0.30
ACGTcount: A:0.00, C:0.26, G:0.19, T:0.56
Consensus pattern (24 bp):
TGTTGCTCGTTCTTCCTGCTTCTT
Found at i:1179831 original size:22 final size:22
Alignment explanation
Indices: 1179788--1179831 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1179778 TCTTGCTTGC
* *
1179788 TTTGTTGCTCGTTCTTCCTCTT
1 TTTGCTGCTCATTCTTCCTCTT
* *
1179810 TTTGCTGCTCATTTTTCTTCTT
1 TTTGCTGCTCATTCTTCCTCTT
1179832 GTTTTCTTGC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.25, G:0.11, T:0.61
Consensus pattern (22 bp):
TTTGCTGCTCATTCTTCCTCTT
Found at i:1179902 original size:36 final size:36
Alignment explanation
Indices: 1179828--1179931 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
1179818 TCATTTTTCT
*
1179828 TCTTGTTTTCTTGCTGTTTCGAT-G-CTGTTGCTGCC
1 TCTTGTTTTCTTGCTGTTTCGATGGTCT-TTGCTACC
* *
1179863 TCTTGTTTTCTTGTTGTTTCGATGGTCTTTGCTATC
1 TCTTGTTTTCTTGCTGTTTCGATGGTCTTTGCTACC
1179899 TCTTGTTTTCTTGCTGTTTCGATGGTCTTTGCT
1 TCTTGTTTTCTTGCTGTTTCGATGGTCTTTGCT
1179932 GCTCGTTCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 22 0.35
36 39 0.62
37 2 0.03
ACGTcount: A:0.04, C:0.19, G:0.21, T:0.56
Consensus pattern (36 bp):
TCTTGTTTTCTTGCTGTTTCGATGGTCTTTGCTACC
Found at i:1179930 original size:18 final size:18
Alignment explanation
Indices: 1179877--1179932 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1179867 GTTTTCTTGT
1179877 TGTTTCGATGGTCTTTGC
1 TGTTTCGATGGTCTTTGC
* * * * *
1179895 TATCTC-TTGTTTTCTTGC
1 TGTTTCGATGGTCT-TTGC
1179913 TGTTTCGATGGTCTTTGC
1 TGTTTCGATGGTCTTTGC
1179931 TG
1 TG
1179933 CTCGTTCTTC
Statistics
Matches: 26, Mismatches: 10, Indels: 4
0.65 0.25 0.10
Matches are distributed among these distances:
17 4 0.15
18 18 0.69
19 4 0.15
ACGTcount: A:0.05, C:0.18, G:0.23, T:0.54
Consensus pattern (18 bp):
TGTTTCGATGGTCTTTGC
Found at i:1180189 original size:93 final size:93
Alignment explanation
Indices: 1180084--1180280 Score: 263
Period size: 93 Copynumber: 2.1 Consensus size: 93
1180074 TGCTCTGCCA
* * *
1180084 TCTTCC-ACGCTACTGCTAGCTACAT-CTTTTCACGTTGCACATGCTTCCTTCTTCTTTATTCCT
1 TCTTCCTA-GCTACTGCTAGATAC-TGCTTTTCACATTGCACATGCTTCCTTCTTCTTCATTCCT
** *
1180147 CGTTGCTGTGAGCTGCTCGTGCTTTTTTTT
64 CGTTGCTACGAGCTGCCCGTGCTTTTTTTT
* * * *
1180177 TCTTCCTAGCTACTGCTGGATACTGCTTTTCACATTGCACATGCTTTCTTCTTCTTCATTTCTTG
1 TCTTCCTAGCTACTGCTAGATACTGCTTTTCACATTGCACATGCTTCCTTCTTCTTCATTCCTCG
*
1180242 TTGCTACGAGTTGCCCGTGCTTTTTTTT
66 TTGCTACGAGCTGCCCGTGCTTTTTTTT
1180270 TCTTCCTAGCT
1 TCTTCCTAGCT
1180281 GCTTTCCATT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
92 1 0.01
93 89 0.98
94 1 0.01
ACGTcount: A:0.11, C:0.28, G:0.15, T:0.46
Consensus pattern (93 bp):
TCTTCCTAGCTACTGCTAGATACTGCTTTTCACATTGCACATGCTTCCTTCTTCTTCATTCCTCG
TTGCTACGAGCTGCCCGTGCTTTTTTTT
Found at i:1180893 original size:14 final size:15
Alignment explanation
Indices: 1180853--1180893 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
1180843 TATTTTGATT
*
1180853 TTTTGATTATTATTA
1 TTTTAATTATTATTA
*
1180868 TTAT-ATTATTATTA
1 TTTTAATTATTATTA
1180882 TTTTAATT-TTAT
1 TTTTAATTATTAT
1180894 ATAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTAATTATTATTA
Done.