Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold187
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: 2169796
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 45208 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:881320 original size:14 final size:16
Alignment explanation
Indices: 881245--881323 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
881235 TCTTTAATAC
881245 AAATATATTTATTATTT
1 AAATATATTTA-TATTT
* * *
881262 TATTTTATTTATATTT
1 AAATATATTTATATTT
*
881278 AAA-A-A-ATATATTT
1 AAATATATTTATATTT
*
881291 --TTATATTTATATTT
1 AAATATATTTATATTT
*
881305 AAATATATTT-TATTA
1 AAATATATTTATATTT
881320 AAAT
1 AAAT
881324 GTAAATATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
12 1 0.02
13 8 0.17
14 8 0.17
15 8 0.17
16 13 0.28
17 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATATATTTATATTT
Found at i:884320 original size:18 final size:20
Alignment explanation
Indices: 884297--884334 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
884287 CAAAATAAAA
884297 TTATTTT-AATAA-TTATTT
1 TTATTTTAAATAATTTATTT
884315 TTATTTTAAATAATTTATTT
1 TTATTTTAAATAATTTATTT
884335 AGAAAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTTAAATAATTTATTT
Found at i:885422 original size:2 final size:2
Alignment explanation
Indices: 885415--885446 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
885405 ATCCTAATTA
885415 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
885447 GGCATGATTA
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:886121 original size:14 final size:14
Alignment explanation
Indices: 886102--886132 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
886092 TTTTATTTTT
*
886102 TTAATATATAAATA
1 TTAATATAAAAATA
886116 TTAATATAAAAATA
1 TTAATATAAAAATA
886130 TTA
1 TTA
886133 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAATATAAAAATA
Found at i:889144 original size:3 final size:3
Alignment explanation
Indices: 889136--889179 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
889126 AATTTTAATA
*
889136 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
889180 AGGAATGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:889991 original size:23 final size:24
Alignment explanation
Indices: 889959--890012 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
889949 CTGCCTTCAG
889959 ATAATATTAAATATTATATGAAAA-
1 ATAATATTAAATATTATAT-AAAAT
889983 ATAAT-TTAAATATTATATAAAAT
1 ATAATATTAAATATTATATAAAAT
890006 ATAATAT
1 ATAATAT
890013 AATATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.14
23 18 0.64
24 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAATATTAAATATTATATAAAAT
Found at i:890007 original size:12 final size:12
Alignment explanation
Indices: 889959--890029 Score: 55
Period size: 12 Copynumber: 6.3 Consensus size: 12
889949 CTGCCTTCAG
*
889959 ATAATATTAAAT
1 ATAATATAAAAT
*
889971 ATTATATGAAAA-
1 ATAATAT-AAAAT
*
889983 ATAAT-TTAAAT
1 ATAATATAAAAT
*
889994 ATTATATAAAAT
1 ATAATATAAAAT
890006 ATAATAT--AAT
1 ATAATATAAAAT
890016 ATAA-A-AAAAT
1 ATAATATAAAAT
890026 ATAA
1 ATAA
890030 ATATGATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
9 1 0.02
10 17 0.36
11 5 0.11
12 21 0.45
13 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:890017 original size:17 final size:15
Alignment explanation
Indices: 889990--890029 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
889980 AAAATAATTT
*
889990 AAATATTATATAAAA
1 AAATATAATATAAAA
890005 TATAATATAATATAAAA
1 -A-AATATAATATAAAA
890022 AAATATAA
1 AAATATAA
890030 ATATGATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 2 0.09
17 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATAATATAAAA
Found at i:890098 original size:27 final size:26
Alignment explanation
Indices: 890066--890118 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
890056 AAATTTTATA
*
890066 TTATATAAAT-TAATAATTTATTAAAAT
1 TTATATAAATATAA-AA-TAATTAAAAT
890093 TTATATAAATATAAAATAATTAAAAT
1 TTATATAAATATAAAATAATTAAAAT
890119 ATAATTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 12 0.50
28 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
TTATATAAATATAAAATAATTAAAAT
Found at i:890159 original size:16 final size:16
Alignment explanation
Indices: 890135--890169 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
890125 ATGAAATAAC
*
890135 AATATACATATAAATA
1 AATACACATATAAATA
*
890151 AATACACATATAATTA
1 AATACACATATAAATA
890167 AAT
1 AAT
890170 CTAATCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
AATACACATATAAATA
Found at i:893436 original size:51 final size:52
Alignment explanation
Indices: 893334--893461 Score: 195
Period size: 51 Copynumber: 2.5 Consensus size: 52
893324 TGAAATATGA
*
893334 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
* * *
893386 AAATTTGCTTGTATGTATCGATACAT-TTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
* *
893437 AAATTTGCCTACATATATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
893462 AAGAACAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
51 44 0.65
52 24 0.35
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
Found at i:893488 original size:13 final size:13
Alignment explanation
Indices: 893470--893528 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
893460 CAAAGAACAG
893470 TGTATCGATACAA
1 TGTATCGATACAA
893483 TGTATCGATAC-A
1 TGTATCGATACAA
893495 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
893504 TGTATCGATACAA
1 TGTATCGATACAA
893517 TGTATCGATACA
1 TGTATCGATACA
893529 TTTGAGTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 4 0.10
13 25 0.64
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:893513 original size:34 final size:34
Alignment explanation
Indices: 893470--893549 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
893460 CAAAGAACAG
893470 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
893504 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
893538 TGTATCGATACA
1 TGTATCGATACA
893550 TTTTCTTGGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (34 bp):
TGTATCGATACAATGTATCGATACATTTGAGTAA
Found at i:893614 original size:32 final size:32
Alignment explanation
Indices: 893573--893803 Score: 435
Period size: 32 Copynumber: 7.2 Consensus size: 32
893563 AGCTTCGTAG
* *
893573 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTGT
893605 CGATACATTGTATCGATACAACACTTATGTGT
1 CGATACATTGTATCGATACAACACTTATGTGT
893637 CGATACATTGTATCGATACAACACTTATGTGT
1 CGATACATTGTATCGATACAACACTTATGTGT
893669 CGATACATTGTATCGATACAACACTTATGTGT
1 CGATACATTGTATCGATACAACACTTATGTGT
893701 CGATACATTGTATCGATACAACACTTATGTGT
1 CGATACATTGTATCGATACAACACTTATGTGT
893733 CGATACATTGTATCGATACAACACTTATGTGT
1 CGATACATTGTATCGATACAACACTTATGTGT
*
893765 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTGT
893797 CGATACA
1 CGATACA
893804 AATCGTTGAA
Statistics
Matches: 196, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 196 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTGT
Found at i:894712 original size:39 final size:39
Alignment explanation
Indices: 894640--894716 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
894630 GTGATAAAGA
*
894640 TGCCAATATGCTGATTCACAGCCAACGATATTGGACTTG
1 TGCCAATATGCTGATTCACAGCCAACGACATTGGACTTG
* * *
894679 TGCCAATGTGCTGATTCA-AGGCCAGCGGCATTGGACTT
1 TGCCAATATGCTGATTCACA-GCCAACGACATTGGACTT
894717 AAAGACAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (39 bp):
TGCCAATATGCTGATTCACAGCCAACGACATTGGACTTG
Found at i:894872 original size:29 final size:29
Alignment explanation
Indices: 894787--894904 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 29
894777 CACTAACTTG
* *
894787 TGTGGGCTTTTGAAAGGGTTG-CA-TCAACT
1 TGTGGGC-TTTGAAAGGGGTGCCACT-GACT
* *
894816 TGTGTGCCTTTG-AA-GGTTGCCACTGACT
1 TGTG-GGCTTTGAAAGGGGTGCCACTGACT
894844 TGTGGGCTTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
* * *
894873 TGTGGGC-TT-AAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
894900 TGTGG
1 TGTGG
894905 ACTTAAAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
27 31 0.40
28 15 0.19
29 29 0.38
30 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGGGTGCCACTGACT
Found at i:894909 original size:27 final size:27
Alignment explanation
Indices: 894828--894914 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
894818 TGTGCCTTTG
* * *
894828 AAGGTTGCCACTGACTTGTGGGCTTTGAA
1 AAGGGTGCCACGGACTTGTGGAC-TT-AA
* * *
894857 AGGGGTGCCACTGACTTGTGGGCTTAA
1 AAGGGTGCCACGGACTTGTGGACTTAA
*
894884 AAGGGTGCCACGGAGTTGTGGACTTAA
1 AAGGGTGCCACGGACTTGTGGACTTAA
894911 AAGG
1 AAGG
894915 AAAAAGAGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 29 0.56
28 2 0.04
29 21 0.40
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (27 bp):
AAGGGTGCCACGGACTTGTGGACTTAA
Found at i:894920 original size:34 final size:34
Alignment explanation
Indices: 894882--895387 Score: 739
Period size: 34 Copynumber: 14.8 Consensus size: 34
894872 TTGTGGGCTT
* *
894882 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
894916 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
894951 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
894985 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * ** *
895019 AAAAG-GTGCCACAGACTCGTGGATTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
895052 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
* * *
895087 AAAAGAGTACCACGGAATTGTAGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
895121 AAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
895155 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * * *
895189 AAAA-AGTGCCACGGACTCGTGGACTTAGAAGAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG-GA
895223 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
* *
895258 AAAAGAGTGCTACTGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
895292 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
895326 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGA
895361 AAAACG-GTGCCACGGAGTTGTGGGCTT
1 AAAA-GAGTGCCACGGAGTTGTGGGCTT
895388 CGAAAAAGGG
Statistics
Matches: 426, Mismatches: 38, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
33 50 0.12
34 225 0.53
35 150 0.35
36 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.33, T:0.18
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:894993 original size:69 final size:69
Alignment explanation
Indices: 894882--895387 Score: 745
Period size: 69 Copynumber: 7.4 Consensus size: 69
894872 TTGTGGGCTT
* *
894882 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
894947 GGAA
66 GGAA
894951 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
895016 GG-A
66 GGAA
* * * ** *
895019 AAAAG-GTGCCACAGACTCGTGGATTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
895083 GGAA
66 GGAA
* * * *
895087 AAAAGAGTACCACGGAATTGTAGGCTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
895152 GG-A
66 GGAA
* * * *
895155 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA-AGTGCCACGGACTCGTGGACTTAGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
*
895219 GAAA
66 GGAA
* *
895223 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAGAGTGCTACTGAGTTGTGGGCTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-AAAAAGAGTGCCACGGAGTTGTGGGCTTAAA
895288 AGG-A
65 AGGAA
* *
895292 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAA
*
895357 AAGAA
65 AGGAA
*
895362 AAACG-GTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
895388 CGAAAAAGGG
Statistics
Matches: 391, Mismatches: 39, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
67 77 0.20
68 106 0.27
69 182 0.47
70 26 0.07
ACGTcount: A:0.37, C:0.12, G:0.33, T:0.18
Consensus pattern (69 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
GGAA
Found at i:896849 original size:10 final size:10
Alignment explanation
Indices: 896827--896918 Score: 82
Period size: 10 Copynumber: 9.1 Consensus size: 10
896817 ATCCGGACCC
896827 TTTTTGTTATT
1 TTTTTGTT-TT
896838 TTTTTGTTTT
1 TTTTTGTTTT
*
896848 TTTCT-TTTT
1 TTTTTGTTTT
*
896857 TTTTTCTTTCT
1 TTTTTGTTT-T
896868 TTTTT-TCTTT
1 TTTTTGT-TTT
*
896878 TGTTTGTTTT
1 TTTTTGTTTT
*
896888 GTTTTGTTTT
1 TTTTTGTTTT
*
896898 GTTTTGTTTT
1 TTTTTGTTTT
896908 GTTTTT-TTTT
1 -TTTTTGTTTT
896918 T
1 T
896919 GTGGAGGACG
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
9 9 0.13
10 40 0.57
11 21 0.30
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.85
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:896857 original size:15 final size:15
Alignment explanation
Indices: 896828--896917 Score: 87
Period size: 15 Copynumber: 5.9 Consensus size: 15
896818 TCCGGACCCT
896828 TTTTGTTATTTTTTTG
1 TTTTGTT-TTTTTTTG
896844 TTTT-TTTCTTTTTT-
1 TTTTGTTT-TTTTTTG
* *
896858 TTTTCTTTCTTTTTTTC
1 TTTT-GTT-TTTTTTTG
*
896875 TTTTG-TTTGTTTTG
1 TTTTGTTTTTTTTTG
*
896889 TTTTGTTTTGTTTTG
1 TTTTGTTTTTTTTTG
896904 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTT
896918 TGTGGAGGAC
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
14 16 0.25
15 31 0.48
16 12 0.19
17 5 0.08
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.84
Consensus pattern (15 bp):
TTTTGTTTTTTTTTG
Found at i:896888 original size:5 final size:5
Alignment explanation
Indices: 896870--896916 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
896860 TTCTTTCTTT
*
896870 TTTTC TTTTG -TTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT- TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
896917 TTGTGGAGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
4 8 0.20
5 32 0.80
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:896935 original size:1 final size:1
Alignment explanation
Indices: 896836--896918 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
896826 CTTTTTGTTA
* * * * * * * * * *
896836 TTTTTTTGTTTTTTTCTTTTTTTTTTCTTTCTTTTTTTCTTTTGTTTGTTTTGTTTTGTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
896901 TTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTT
896919 GTGGAGGACG
Statistics
Matches: 58, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:906203 original size:21 final size:21
Alignment explanation
Indices: 906179--906220 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
906169 TAGTAAGGAC
906179 TAAGTCTTGTTGATTAAAGGT
1 TAAGTCTTGTTGATTAAAGGT
906200 TAAGTCTTGTTGATTAAAGGT
1 TAAGTCTTGTTGATTAAAGGT
906221 GAAGCATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.43
Consensus pattern (21 bp):
TAAGTCTTGTTGATTAAAGGT
Found at i:910871 original size:52 final size:52
Alignment explanation
Indices: 910788--910916 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
910778 CGAAATATGA
910788 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
* * * *
910840 AAATTTACCTGTATGTAGCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
910892 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
910917 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
Found at i:910927 original size:52 final size:52
Alignment explanation
Indices: 910788--910936 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 52
910778 CGAAATATGA
*
910788 AAATTTGCCTGCATGTATCGATACATCTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATATCATAGTGTATCGATACATCTGGGC
* * * *
910840 AAATTTACCTGTATGTAGCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATATCATAGTGTATCGATACATCTGGGC
**
910892 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATATCAT-AGTGTATCGATACA
910937 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATATCATAGTGTATCGATACATCTGGGC
Found at i:910943 original size:13 final size:13
Alignment explanation
Indices: 910925--910949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
910915 CAAAGATCAG
910925 TGTATCGATACAA
1 TGTATCGATACAA
910938 TGTATCGATACA
1 TGTATCGATACA
910950 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:911057 original size:18 final size:18
Alignment explanation
Indices: 911004--911065 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
910994 CGATACATTA
*
911004 TATCGATACGAAACTTATG
1 TATCGATACAAAAC-TATG
911023 TATCGATAC---A-T-TG
1 TATCGATACAAAACTATG
911036 TATCGATACAAAACTATG
1 TATCGATACAAAACTATG
911054 TATCGATACAAA
1 TATCGATACAAA
911066 TCGTTGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
17 1 0.03
18 14 0.37
19 9 0.24
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (18 bp):
TATCGATACAAAACTATG
Found at i:911057 original size:31 final size:32
Alignment explanation
Indices: 910994--911063 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
910984 AGCTTCGTAG
*
910994 CGATACATTATATCGATACGAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
*
911026 CGATACATTGTATCGATACAAAAC-TATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
911057 CGATACA
1 CGATACA
911064 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 14 0.39
32 22 0.61
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:912166 original size:24 final size:23
Alignment explanation
Indices: 912125--912170 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
912115 CTTGGCTATC
*
912125 AAGTTTTTTTTTTTAATATATAA
1 AAGTTTTTTTTTTCAATATATAA
912148 AAGTTTTCTTTTTTCAATATATA
1 AAGTTTT-TTTTTTCAATATATA
912171 GCAAAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
AAGTTTTTTTTTTCAATATATAA
Found at i:912429 original size:35 final size:35
Alignment explanation
Indices: 912390--912504 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
912380 GTTTTTGGTA
912390 AATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTT
1 AATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTT
** * * *
912425 AATTTAATGGTGAAAGCTT-TTTTATATATTTGTTTTTGGT
1 AATTTTGTTGTG-AAG-TTATTTTCTGT-TTT-TTTTT--T
912465 AAATTTTGTTGTGAAGTTATTTTCTG-TTTTTTTTT
1 -AATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTT
912500 AATTT
1 AATTT
912505 AATGGTGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
34 5 0.08
35 10 0.16
36 9 0.15
37 10 0.16
38 8 0.13
39 2 0.03
40 9 0.15
41 9 0.15
ACGTcount: A:0.20, C:0.03, G:0.15, T:0.63
Consensus pattern (35 bp):
AATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTT
Found at i:912479 original size:41 final size:40
Alignment explanation
Indices: 912366--912487 Score: 123
Period size: 40 Copynumber: 3.1 Consensus size: 40
912356 TAAGTATTAT
912366 TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTG-AAG
1 TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAAG
* * ** *
912405 TTATTTTCTGT-TTT-TTTTT--T-AATTTAATGGTGAAAG
1 TT-TTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAAG
912441 CTTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTG-AAG
1 -TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAAG
912481 TTATTTT
1 TT-TTTT
912488 CTGTTTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
35 9 0.14
36 10 0.16
37 5 0.08
38 10 0.16
39 7 0.11
40 14 0.22
41 9 0.14
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.62
Consensus pattern (40 bp):
TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAAG
Found at i:912511 original size:75 final size:76
Alignment explanation
Indices: 912366--912518 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
912356 TAAGTATTAT
912366 TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTTAATTTA
1 TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTTAATTTA
912431 ATGGTGAAAGC
66 ATGGTGAAAGC
912442 TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAGTTATTTTCTG-TTTTTTTTTAATTTA
1 TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTTAATTTA
912506 ATGGTGAAAGC
66 ATGGTGAAAGC
912517 TT
1 TT
912519 ATCAAGTAAC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 28 0.36
76 49 0.64
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (76 bp):
TTTTTTATATATTTGTTTTTGGTAAATTTTGTTGTGAAGTTATTTTCTGTTTTTTTTTTAATTTA
ATGGTGAAAGC
Found at i:913314 original size:13 final size:13
Alignment explanation
Indices: 913296--913331 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
913286 ATTTATAGTG
*
913296 TATCGATACAGTA
1 TATCGATACAATA
*
913309 TATCGATACAATG
1 TATCGATACAATA
913322 TATCGATACA
1 TATCGATACA
913332 TGAATAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:916309 original size:166 final size:165
Alignment explanation
Indices: 916123--916692 Score: 645
Period size: 166 Copynumber: 3.5 Consensus size: 165
916113 TTAAAACATC
*
916123 AAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGCTTTT-AAAAATTAATTCATTTTC
1 AAAATTCATCAAACATTATTATTTATTTCATATTAATTCA-CTTTTCAAAAATTAATTCATTTTC
*
916187 ATGAGTTTTTAAGTTTTTCTTAAAATTTCCTTTTTCTTCGAAATACGGTATTTTCTACTCCGTAA
65 ATGAGTTTTTGA-TTTTTCTTAAAATTTCCTTTTTCTTCGAAATACGGTATTTTCTACTCCGTAA
* * * *
916252 ATTTTTTCGATGAGATTTTTTTTGGTTTTCAATTTTT
129 ATTTTTTCAAAGAGATTTTTCTTGGTTTTAAATTTTT
* * * * *
916289 AAAATTCATCAAACATTATTATTTATTTCATATTAATTTATTTTTCAACAATTCATTCTTTTTCA
1 AAAATTCATCAAACATTATTATTTATTTCATATTAATTCACTTTTCAAAAATTAATTCATTTTCA
* ** * * *
916354 TGAGTTTTTGATTTTCTTCCTCGATATTTTTCC-TTTTC-T-AAAATATGGTATTTTTTACTCCG
66 TGAGTTTTTGA-TTT-TT-CT-TA-AAATTTCCTTTTTCTTCGAAATACGGTATTTTCTACTCCG
* *
916416 TAAATTTTTT-TAAGAGGATTTTTCTTGGTTTTTAATTTTT
126 TAAATTTTTTCAAAGA-GATTTTTCTTGGTTTTAAATTTTT
* *
916456 AAAA-T--T----C---ATTATTTATTTCATATTAATTC-CTTTTTCAAAAAGTCATTCATTTTC
1 AAAATTCATCAAACATTATTATTTATTTCATATTAATTCAC-TTTTCAAAAATTAATTCATTTTC
* * *
916510 ATGAGTTTTTGATTTTTCTTTGAAA-TTCTCTTTTTTTTCGAAATACGGTGTTTTCTACTCCGTA
65 ATGAGTTTTTGATTTTTC-TTAAAATTTC-CTTTTTCTTCGAAATACGGTATTTTCTACTCCGTA
*
916574 AATTTTTTCAAAGGGATTTTTCTTGGTTTTAAATTTTT
128 AATTTTTTCAAAGAGATTTTTCTTGGTTTTAAATTTTT
* * *
916612 AAAATTCATCAAACATCATTATTTGA-TTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTC
1 AAAATTCATCAAACATTATTATTT-ATTTCATATTAATTCACTTTTCAAAAATTAATTCATTTTC
*
916676 ATGAGTTTTGGATTTTT
65 ATGAGTTTTTGATTTTT
916693 TTGTTGAAAT
Statistics
Matches: 339, Mismatches: 40, Indels: 50
0.79 0.09 0.12
Matches are distributed among these distances:
152 3 0.01
153 2 0.01
154 5 0.01
155 4 0.01
156 59 0.17
157 57 0.17
159 1 0.00
160 1 0.00
163 1 0.00
164 1 0.00
165 4 0.01
166 127 0.37
167 59 0.17
168 3 0.01
169 6 0.02
170 6 0.02
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.53
Consensus pattern (165 bp):
AAAATTCATCAAACATTATTATTTATTTCATATTAATTCACTTTTCAAAAATTAATTCATTTTCA
TGAGTTTTTGATTTTTCTTAAAATTTCCTTTTTCTTCGAAATACGGTATTTTCTACTCCGTAAAT
TTTTTCAAAGAGATTTTTCTTGGTTTTAAATTTTT
Found at i:916739 original size:166 final size:162
Alignment explanation
Indices: 916123--916859 Score: 623
Period size: 166 Copynumber: 4.5 Consensus size: 162
916113 TTAAAACATC
*
916123 AAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGCTTTT-AAAAATTAATTCATTTTC
1 AAAATTCATCAAACATTATTATTTA-TTCATATTAATTCAG-TTTTAAAAAATTAATTCATTTTC
* ** * *
916187 ATGAGTTTTTAAGTTTTTCTT-AAAATTTCCTTTTTCTTCGAAATA-CGGTATTTTCTACTCCGT
64 ATGAGTTTTGATTTTTTTCTTGAAATTTTCC-TTTT-TTC-AAAAACCGGTATTTT-TACTCCGT
* * * *
916250 AAATTTTTTCGATGAGATTTTTTTTGGTTTTCAATTTTT
125 AAATTTTTTC-AAGGGATTTTTCTTGGTTTTAAATTTTT
* * * * * *
916289 AAAATTCATCAAACATTATTATTTATTTCATATTAATTTATTTTTCAACAATTCATTCTTTTTCA
1 AAAATTCATCAAACATTATTATTTA-TTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
* * * * *
916354 TGAGTTTTTGATTTTCTTCCTCGATATTTTTCCTTTTCT-AAAATA-TGGTATTTTTTACTCCGT
65 TGAG-TTTTGATTTT-TTTCTTGA-AATTTTCCTTTTTTCAAAA-ACCGGTA-TTTTTACTCCGT
* *
916417 AAATTTTTTTAAGAGGATTTTTCTTGGTTTTTAATTTTT
125 AAATTTTTTCAAG-GGATTTTTCTTGGTTTTAAATTTTT
* ** * * *
916456 AAAA-T--T----CATTATT-TAT-TTCATATTAATTCCTTTTTCAAAAAGTCATTCATTTTCAT
1 AAAATTCATCAAACATTATTATTTATTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCAT
* * * * *
916512 GAGTTTTTGATTTTTCT-TTGAAATTCTCTTTTTTTTCGAAATA-CGGTGTTTTCTACTCCGTAA
66 GAG-TTTTGATTTTTTTCTTGAAATTTTC-CTTTTTTC-AAAAACCGGTATTTT-TACTCCGTAA
916575 ATTTTTTCAAAGGGATTTTTCTTGGTTTTAAATTTTT
127 ATTTTTTC-AAGGGATTTTTCTTGGTTTTAAATTTTT
*
916612 AAAATTCATCAAACATCATTATTTGATTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
1 AAAATTCATCAAACATTATTATTT-ATTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
* *
916677 TGAGTTTTGGATTTTTTTGTTGAAATTTTCCTTTTTTCAAGAAACCGAGT-TTTTTTCTCCGTAA
65 TGAGTTTT-GATTTTTTTCTTGAAATTTTCCTTTTTTCAA-AAACCG-GTATTTTTACTCCGTAA
* * * *
916741 TTTTTTTC-GGGGAGATTTTCTTTGGTTTAAAATTTTT
127 ATTTTTTCAAGGGA-TTTTTC-TTGGTTTTAAATTTTT
* * * * * * * * *
916778 AAAATGT-ATCTAATATTGTCATTGAACTCACATTAATTCAGTTTTGAAAAATTTAATTTA-TTT
1 AAAAT-TCATCAAACATTATTATT-TATTCATATTAATTCAGTTTT-AAAAAATTAATTCATTTT
*
916841 CATGAATTTTGATTTTTTT
63 CATGAGTTTTGATTTTTTT
916860 TGTATATATT
Statistics
Matches: 472, Mismatches: 66, Indels: 67
0.78 0.11 0.11
Matches are distributed among these distances:
154 5 0.01
155 12 0.03
156 50 0.11
157 56 0.12
159 3 0.01
160 7 0.01
163 6 0.01
164 7 0.01
165 24 0.05
166 196 0.42
167 84 0.18
168 11 0.02
169 5 0.01
170 6 0.01
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (162 bp):
AAAATTCATCAAACATTATTATTTATTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCAT
GAGTTTTGATTTTTTTCTTGAAATTTTCCTTTTTTCAAAAACCGGTATTTTTACTCCGTAAATTT
TTTCAAGGGATTTTTCTTGGTTTTAAATTTTT
Found at i:917281 original size:20 final size:19
Alignment explanation
Indices: 917255--917300 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
917245 GGTGGGATTC
917255 GGAAAAAAGAAAGAAAAA-A
1 GGAAAAAA-AAAGAAAAATA
*
917274 GAGAAAAAATAAGAAAAATA
1 G-GAAAAAAAAAGAAAAATA
917294 GGAAAAA
1 GGAAAAA
917301 TAATTGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (19 bp):
GGAAAAAAAAAGAAAAATA
Found at i:917290 original size:18 final size:18
Alignment explanation
Indices: 917269--917303 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
917259 AAAAGAAAGA
917269 AAAAAGAGAAAAAATAAG
1 AAAAAGAGAAAAAATAAG
* *
917287 AAAAATAGGAAAAATAA
1 AAAAAGAGAAAAAATAA
917304 TTGGATTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (18 bp):
AAAAAGAGAAAAAATAAG
Found at i:919892 original size:10 final size:10
Alignment explanation
Indices: 919872--919902 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
919862 CTCCCAAAAG
919872 AAACTACTTCC
1 AAAC-ACTTCC
919883 AAACACTTCC
1 AAACACTTCC
919893 AAACACTTCC
1 AAACACTTCC
919903 TCCTTGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (10 bp):
AAACACTTCC
Found at i:927833 original size:27 final size:27
Alignment explanation
Indices: 927797--928183 Score: 461
Period size: 27 Copynumber: 14.3 Consensus size: 27
927787 TGGCATTCCT
*
927797 TTTTAAGTCCACAACTCCGTGACAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
927824 TTTTATGTCCATAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * * *
927851 TTTTAAGTCCACAACTCCATAGTAACT
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
927878 TTTTAATTCCACAACTCCATGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
927905 TTTTAAATCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * *
927932 TTTTAAGTCCACAACTCCGCGGTAACT
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
927959 TTTTAAGTCCACAACTCCGTGACAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
927986 TTTTAAGTCCACAACTCTGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
928013 TTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* ** *
928040 TTTTAAGTCCACAGCTCTATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
928067 TTTTAAGTCCACAGCTCCGTGAC-ACTC
1 TTTTAAGTCCACAACTCCGTGGCAAC-C
* *
928094 TTTTAAGTCCACAACTCCGTTGCAACA
1 TTTTAAGTCCACAACTCCGTGGCAACC
** * *
928121 TTTTAAGTCCACAACTCTATGGCATCA
1 TTTTAAGTCCACAACTCCGTGGCAACC
** * *
928148 TTTTAAGTCCACAACTTTGTGGCATCT
1 TTTTAAGTCCACAACTCCGTGGCAACC
928175 TTTTAAGTC
1 TTTTAAGTC
928184 ATAAGTCAGT
Statistics
Matches: 315, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 312 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCAACC
Found at i:928214 original size:81 final size:80
Alignment explanation
Indices: 927824--928299 Score: 289
Period size: 81 Copynumber: 5.8 Consensus size: 80
927814 CGTGACAACC
* * * * * * * * * **
927824 TTTTATGTCCATAACTCCGTGGCAACCTTTTAAGTCCACAACTCCA-TAGTAACTTTTTAATTCC
1 TTTTAAGTCCACAACTCTGTGGC-ACTTTTTAAGTCCACAACT-CAGTGGCATCATTTAAAGCCC
* * *
927888 ACAACTCCATGGCAACC
64 ACAACTCTATGGCATCA
* * * * * * * * * *
927905 TTTTAAATCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGCGGTAACTTTTTAAGTCCA
1 TTTTAAGTCCACAACTCTGTGGC-ACTTTTTAAGTCCACAACTCAGTGGCATCATTTAAAGCCCA
** * * *
927970 CAACTCCGTGACAACC
65 CAACTCTATGGCATCA
* * * * *
927986 TTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCA
1 TTTTAAGTCCACAACTCTGTGGC-ACTTTTTAAGTCCACAACTCAGTGGCATCATTTAAAGCCCA
* *
928051 CAGCTCTATGGCATCC
65 CAACTCTATGGCATCA
* * * * * * * *
928067 TTTTAAGTCCACAGCTCCGTGACACTCTTTTAAGTCCACAACTCCGTTGCAACATTTTAAGTCCA
1 TTTTAAGTCCACAACTCTGTGGCACT-TTTTAAGTCCACAACTCAGTGGCATCATTTAAAGCCCA
928132 CAACTCTATGGCATCA
65 CAACTCTATGGCATCA
* * *
928148 TTTTAAGTCCACAACTTTGTGGCATCTTTTTAAGT-CATAAGTCAGTGGCATCATTTCAAAGCCC
1 TTTTAAGTCCACAACTCTGTGGCA-CTTTTTAAGTCCACAACTCAGTGGCATCATTT-AAAGCCC
*
928212 ACAAGTC-AGTGGCA-CA
64 ACAACTCTA-TGGCATCA
* * * * * *
928228 TTTTCCAAGCCCACAAGT-TAGTGGCACCTTTTCCAAG-CTCATAAGTCAGTGGCATCTTTTCAA
1 TTTT--AAGTCCACAACTCT-GTGGCA-CTTTT-TAAGTC-CACAACTCAGTGGCATCATTT-AA
928291 AGCCCACAA
59 AGCCCACAA
928300 GTTAGTGGCG
Statistics
Matches: 336, Mismatches: 48, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
80 26 0.08
81 252 0.75
82 23 0.07
83 3 0.01
84 32 0.10
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (80 bp):
TTTTAAGTCCACAACTCTGTGGCACTTTTTAAGTCCACAACTCAGTGGCATCATTTAAAGCCCAC
AACTCTATGGCATCA
Found at i:928221 original size:28 final size:28
Alignment explanation
Indices: 928186--929454 Score: 1345
Period size: 28 Copynumber: 45.1 Consensus size: 28
928176 TTTAAGTCAT
*
928186 AAGTCAGTGGCATCATTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
928214 AAGTCAGTGGCA-CATTTTCCAAGCCCAC
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* * * * *
928242 AAGTTAGTGGCACCTTTTCCAAGCTCAT
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
928270 AAGTCAGTGGCATCTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
928298 AAGTTAGTGGCGTTTTTTTC-AAGCCCAC
1 AAGTCAGTGGC-ATCTTTTCAAAGCCCAC
* * *
928326 AAGTCAGTGGGACCTTTTCCAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
928354 AAGTCAGTTGAACCTTTTTC-AAGCCCAC
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* * * * * * *
928382 AAGTTAATGGAACCTTTTTAAAGGCCAA
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
928410 AAGTCAGTGGCA-CATTTTCAAAGCCTAA
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* *
928438 AAGTCAGTGGCACCTTTTCAAAACCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * * *
928466 AAGTCACTAGCACCTTTTCAAAGTCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
928494 AAGTCAGTGGCATCTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
928522 AAGTCAGTGGCATCTCTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
928550 AAGTCAGTGGCCT-TCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCT-TTTCAAAGCCCAC
* * *
928578 AAGTTAGTGGCATCCTTTCAAAGCCCAT
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
928606 AAGTCAGTGGCATCCTTTT-AAAGCCCAC
1 AAGTCAGTGGCAT-CTTTTCAAAGCCCAC
* * * *
928634 AAGTTAGTGGCACCATTTCCAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
928662 AAGTCAGTGGCACCTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
928690 AAGTCAGTGGCACCTTTTCCAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
928718 AAGTTAGTGGCATCATTTT-AAAGCTCAT
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* *
928746 AAGTCAGTGGTATCATTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
928774 AAGTCAGTGGCATCTTTTTAAAGCCCAA
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
928802 AAGTCAGTGGCACCTTTTCCAAGCCCAA
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * * *
928830 AAGTCAGTGGCACCTTTTCCAAGCCGAT
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
928858 AAGTTAGTGGCATCTTTTCAAAGCCCAT
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * * *
928886 AAGTTAATGGTAACTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
928914 AAGTCAGTGGCATCTTTTCAAAGCCTAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
928942 AAGTCAGTGACACCTTTTCAAAACCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
928970 AAGTTAGTGGTATCTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
928998 AAGTCAGTGACATCTTTTCCAAGACCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
929026 AAGTTAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
929054 AAGTCAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
929082 AAGTCAGTGGCATCCTTTCAAAGCCTAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
929110 AAGTCAATGGCATCATTTCAAAGCTCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* *
929138 AAGTCAGTGGTA-CTATTTCAAAACCCAC
1 AAGTCAGTGGCATCT-TTTCAAAGCCCAC
* **
929166 AAGTCAGTGGCAT-TATTTTAAAATCCAC
1 AAGTCAGTGGCATCT-TTTCAAAGCCCAC
* * *
929194 AAATCAGTGGCATCCTTTCAAAGCCCAT
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
929222 AAGTCAGTGGCA-CTATTTCAAAACCCAC
1 AAGTCAGTGGCATCT-TTTCAAAGCCCAC
*
929250 AAGTCAGTGGCATCTTTTCAAAGTCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * *
929278 AAGTCACTGGCATCCTTTT-ATAGCTCAC
1 AAGTCAGTGGCAT-CTTTTCAAAGCCCAC
* * *
929306 AAGTCAATGGCATCCTTTCAAAGCTCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
*
929334 AAGTCAGTGGCATCATTTCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCAAAGCCCAC
* * * *
929362 AAGTTAGTGGCACCATTTTGAAAACCCAC
1 AAGTCAGTGGCATC-TTTTCAAAGCCCAC
* * * *
929391 AAGTTAATGGCATACCCTTTCAAAACCCAC
1 AAGTCAGTGGCAT--CTTTTCAAAGCCCAC
*
929421 ACGAGTCGGTGGCAACTCTTTTCAAAGCCCAC
1 A--AGTCAGTGGC-A-TCTTTTCAAAGCCCAC
929453 AA
1 AA
929455 AAGTTAGCGG
Statistics
Matches: 1051, Mismatches: 162, Indels: 54
0.83 0.13 0.04
Matches are distributed among these distances:
27 25 0.02
28 938 0.89
29 50 0.05
30 14 0.01
31 1 0.00
32 21 0.02
33 1 0.00
34 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGTCAGTGGCATCTTTTCAAAGCCCAC
Found at i:930434 original size:20 final size:20
Alignment explanation
Indices: 930409--930483 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
930399 AAGTACCCAT
930409 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
930429 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
930449 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
930469 ATGTATCGATACATT
1 ATGTATCGATACATT
930484 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:935279 original size:19 final size:19
Alignment explanation
Indices: 935241--935280 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
935231 CAAAAATGAA
935241 AACAACAAAACCATATAAAC
1 AACAACAAAACCA-ATAAAC
935261 AACAACAAAACTC-ATAAAC
1 AACAACAAAAC-CAATAAAC
935280 A
1 A
935281 CATACTTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 11 0.58
21 1 0.05
ACGTcount: A:0.65, C:0.25, G:0.00, T:0.10
Consensus pattern (19 bp):
AACAACAAAACCAATAAAC
Found at i:936191 original size:13 final size:13
Alignment explanation
Indices: 936173--936197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
936163 AAATAGTAAT
936173 TGTATCGATACAA
1 TGTATCGATACAA
936186 TGTATCGATACA
1 TGTATCGATACA
936198 TACCTAAAAT
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:938662 original size:51 final size:51
Alignment explanation
Indices: 938565--938690 Score: 132
Period size: 51 Copynumber: 2.5 Consensus size: 51
938555 TCTAACCCTG
** * *
938565 TTTTATTTTT-AAACACCAATTTTTCACTATCGGAGATATTCCAACCTCAA
1 TTTTATTTTTAAAACATTAATTTTCCACCATCGGAGATATTCCAACCTCAA
* *
938615 TTTTATTTTTAAAACATTAATTTTCCACCATCAGG-GATACTT-TAACCTCAT
1 TTTTATTTTTAAAACATTAATTTTCCACCATC-GGAGATA-TTCCAACCTCAA
* *
938666 TTTTATTTCTAAAATATTAAATTTT
1 TTTTATTTTTAAAACATT-AATTTT
938691 TCATTGAGGA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 10 0.16
51 44 0.69
52 10 0.16
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (51 bp):
TTTTATTTTTAAAACATTAATTTTCCACCATCGGAGATATTCCAACCTCAA
Found at i:944799 original size:30 final size:30
Alignment explanation
Indices: 944733--944799 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
944723 AGTAAAGTAA
* *
944733 CCTTCTTCAAAGTCCACGACTTAGTGGCATC
1 CCTT-TTCAAAGTCCACGACTCAGTGGCACC
* *
944764 TCTTTTCAAAGTCTACGACTCCA-TGGCACC
1 CCTTTTCAAAGTCCACGACT-CAGTGGCACC
944794 CCTTTT
1 CCTTTT
944800 ATCCTTTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (30 bp):
CCTTTTCAAAGTCCACGACTCAGTGGCACC
Found at i:944880 original size:62 final size:60
Alignment explanation
Indices: 944802--944949 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 60
944792 CCCCTTTTAT
* *
944802 CCTTTTAGTCCTCAAAGAGCAGGACACTTTTTTCTTTTTAAAGCCCACATAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACAC--TTTCCTTTTTAAAGCCCACACAAGTTGATGGCA
* * * * ** * *
944864 CCTTTTAATCCCCAAAGAGCAAGACGCTTTCCTTTTTAAAGCTTACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTTTCCTTTTTAAAGCCCACACAAGTTGATGGCA
*
944924 CCTTTTAGGTCTTCAAAGAGCAGGAC
1 CCTTTTA-GTCCTCAAAGAGCAGGAC
944950 GCACTGTATT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
60 34 0.48
61 14 0.20
62 23 0.32
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (60 bp):
CCTTTTAGTCCTCAAAGAGCAGGACACTTTCCTTTTTAAAGCCCACACAAGTTGATGGCA
Found at i:945042 original size:39 final size:39
Alignment explanation
Indices: 944936--945047 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 39
944926 TTTTAGGTCT
* *
944936 TCAAAGAGCAGGACGCACTGTATTTCCTTTTTTCTTTTATCC
1 TCAAAGAGCAAGACGCACTTTA-TT--TTTTTTCTTTTATCC
* * * *
944978 TTAAAGAGC-AGTATGTACTTAATTTTTTTTCTTTTATCC
1 TCAAAGAGCAAG-ACGCACTTTATTTTTTTTCTTTTATCC
945017 TCAAAGAGCAAGACGCACTTTATTTTCTTTT
1 TCAAAGAGCAAGACGCACTTTATTTT-TTTT
945048 TTCCCTTTTG
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
39 34 0.60
40 6 0.11
41 3 0.05
42 14 0.25
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (39 bp):
TCAAAGAGCAAGACGCACTTTATTTTTTTTCTTTTATCC
Found at i:945048 original size:44 final size:43
Alignment explanation
Indices: 944936--945115 Score: 124
Period size: 44 Copynumber: 4.3 Consensus size: 43
944926 TTTTAGGTCT
* * *
944936 TCAAAGAGCAGGACGCACTGTATTTC-CTTTTTTCTTTTATCC
1 TCAAAGAGCAAGACGCACTTTATTTCTTTTTTTTCTTTTATCC
* * * *
944978 TTAAAGAGC-AGTATGTAC-TTA---ATTTTTTTTCTTTTATCC
1 TCAAAGAGCAAG-ACGCACTTTATTTCTTTTTTTTCTTTTATCC
** * *
945017 TCAAAGAGCAAGACGCACTTTATTTTCTTTTTTCCCTTTTGTTC
1 TCAAAGAGCAAGACGCACTTTA-TTTCTTTTTTTTCTTTTATCC
* * * * *
945061 TCAAAGAACAAGATGCACTTCATTTC-CTTTTTTCTTTTGTCCC
1 TCAAAGAGCAAGACGCACTTTATTTCTTTTTTTTCTTTTAT-CC
*
945104 TGAAA-AGCAAGA
1 TCAAAGAGCAAGA
945116 TGTACTCTTT
Statistics
Matches: 105, Mismatches: 24, Indels: 18
0.71 0.16 0.12
Matches are distributed among these distances:
39 27 0.26
40 5 0.05
41 3 0.03
42 29 0.28
43 9 0.09
44 32 0.30
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (43 bp):
TCAAAGAGCAAGACGCACTTTATTTCTTTTTTTTCTTTTATCC
Found at i:945234 original size:41 final size:43
Alignment explanation
Indices: 945155--945246 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
945145 GCATGACACT
* *
945155 TTTTTTTTTTTATCCTCAAGGAGCAAGACCTATTTCATTTT-C
1 TTTTTTCTTTTATCCTCAAGGAGCAAGACCTATCTCATTTTCC
* *
945197 TTTTTTCTTTTATCCTCGAA-GAGCAGGACGTA-CTCATTTTCC
1 TTTTTTCTTTTATCCTC-AAGGAGCAAGACCTATCTCATTTTCC
*
945239 TTTGTTCT
1 TTTTTTCT
945247 CAAAGAGCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
41 7 0.16
42 34 0.79
43 2 0.05
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.49
Consensus pattern (43 bp):
TTTTTTCTTTTATCCTCAAGGAGCAAGACCTATCTCATTTTCC
Found at i:946035 original size:21 final size:20
Alignment explanation
Indices: 946009--946063 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
945999 CATAAGTAAA
**
946009 TGTATCGATACATTTATTGTT
1 TGTATCGATACATTT-TTCAT
946030 TGTATCGATACATTTTTCAT
1 TGTATCGATACATTTTTCAT
*
946050 TATATCGATACATT
1 TGTATCGATACATT
946064 CTGGGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:948744 original size:157 final size:158
Alignment explanation
Indices: 948505--948876 Score: 442
Period size: 157 Copynumber: 2.4 Consensus size: 158
948495 TTTCCGAGAA
* ** * *
948505 GATACTCCAA-CCTCGGTTTTATTTCTAAAAGACTTATTTTTCATCATCAAAGATACTTCAACCC
1 GATACTCCAACCCT-GGTTTTATTTCTAAAACACCAATTTTTCACCATCGAAGATACTTCAACCC
* * * *
948569 CATTATTTTTGAGTGGATACTCTAACCCCGATTTTTTTTCTAAAACACTGATTTTCTACCATCGA
65 CATTATTTTCGAGGGGATACTCAAACCCCGATTTTATTTCTAAAACACTGATTTTCTACCATCGA
948634 AAATACTCCAACCCCGTTATTTTCAA-GG
130 AAATACTCCAACCCCGTTATTTTCAAGGG
* * * *
948662 GATACTCCAACCCTGGTTTTATTTCTAAAACACCGACTTTTCACCATCGAGGATACTTCAACCCT
1 GATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCACCATCGAAGATACTTCAACCCC
* *** * * *
948727 GTTATTTTCGAGGGGATACTCAAACTTTGGTTTTATTTCTAAAACACTGATTTTCTACTATCGGA
66 ATTATTTTCGAGGGGATACTCAAACCCCGATTTTATTTCTAAAACACTGATTTTCTACCATCGAA
* * * **
948792 GATACTCTAATCTTGTTATTTTCAAGGG
131 AATACTCCAACCCCGTTATTTTCAAGGG
** * * * *
948820 GATACTTTAACCCCGATTTTATTTTTAAAACACCAATTTTTCACCACCGAAGATACT
1 GATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCACCATCGAAGATACT
948877 CTAACCTCAT
Statistics
Matches: 180, Mismatches: 33, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
157 127 0.71
158 53 0.29
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (158 bp):
GATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCACCATCGAAGATACTTCAACCCC
ATTATTTTCGAGGGGATACTCAAACCCCGATTTTATTTCTAAAACACTGATTTTCTACCATCGAA
AATACTCCAACCCCGTTATTTTCAAGGG
Found at i:948877 original size:79 final size:79
Alignment explanation
Indices: 948442--948882 Score: 379
Period size: 79 Copynumber: 5.6 Consensus size: 79
948432 TCTTTAATGT
* * * * ** * * * **
948442 TTTTATTTTTAAAATATCAATTTTTCACCATCGGGGATACTCTAATCTCGTTATTTCCGAGAAGA
1 TTTTATTTCTAAAACACCGATTTTTCACCATCGAAGATACTCTAACCCCGTTATTTTCGAGGGGA
*
948507 TACTCCAACCTCGG
66 TACTCCAACCCCGG
* ** * * * * *
948521 TTTTATTTCTAAAAGACTTATTTTTCATCATCAAAGATACT-TCAACCCCATTATTTTTGAGTGG
1 TTTTATTTCTAAAACACCGATTTTTCACCATCGAAGATACTCT-AACCCCGTTATTTTCGAGGGG
* *
948585 ATACTCTAACCCCGA
65 ATACTCCAACCCCGG
* * * * *
948600 TTTTTTTTCTAAAACACTGA-TTTTCTACCATCGAAAATACTCCAACCCCGTTATTTTC-AAGGG
1 TTTTATTTCTAAAACACCGATTTTTC-ACCATCGAAGATACTCTAACCCCGTTATTTTCGAGGGG
*
948663 ATACTCCAACCCTGG
65 ATACTCCAACCCCGG
* * *
948678 TTTTATTTCTAAAACACCGACTTTTCACCATCGAGGATACT-TCAACCCTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAACACCGATTTTTCACCATCGAAGATACTCT-AACCCCGTTATTTTCGAGGGG
* ***
948742 ATACTCAAACTTTGG
65 ATACTCCAACCCCGG
* * * * ** *
948757 TTTTATTTCTAAAACACTGA-TTTTCTACTATCGGAGATACTCTAATCTTGTTATTTTCAAGGGG
1 TTTTATTTCTAAAACACCGATTTTTC-ACCATCGAAGATACTCTAACCCCGTTATTTTCGAGGGG
** *
948821 ATACTTTAACCCCGA
65 ATACTCCAACCCCGG
* * *
948836 TTTTATTTTTAAAACACCAATTTTTCACCACCGAAGATACTCTAACC
1 TTTTATTTCTAAAACACCGATTTTTCACCATCGAAGATACTCTAACC
948883 TCATTTTTAT
Statistics
Matches: 290, Mismatches: 63, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
78 71 0.24
79 213 0.73
80 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCGATTTTTCACCATCGAAGATACTCTAACCCCGTTATTTTCGAGGGGA
TACTCCAACCCCGG
Found at i:950241 original size:19 final size:19
Alignment explanation
Indices: 950217--950253 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
950207 ATTATATTTT
950217 TATTATTATATAATAAATA
1 TATTATTATATAATAAATA
*
950236 TATTATTTTATAATAAAT
1 TATTATTATATAATAAAT
950254 TAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATTATATAATAAATA
Found at i:951383 original size:33 final size:32
Alignment explanation
Indices: 951340--951401 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
951330 GGATATGCGT
*
951340 CTCGACATGTTGTGAAAATACTAGGTTAATTTTG
1 CTCGACATGTTGAGAAAATA-TAGG-TAATTTTG
951374 CTCGA-ATGTTGAGAAAATATAGGTAATT
1 CTCGACATGTTGAGAAAATATAGGTAATT
951402 AGATGTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.19
32 4 0.15
33 13 0.48
34 5 0.19
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (32 bp):
CTCGACATGTTGAGAAAATATAGGTAATTTTG
Found at i:951746 original size:20 final size:21
Alignment explanation
Indices: 951712--951752 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
951702 AATAATTGAA
951712 TTTTATTATACTAATAAATAT
1 TTTTATTATACTAATAAATAT
* *
951733 TTTTTTTATA-TAATTAATAT
1 TTTTATTATACTAATAAATAT
951753 AAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATTATACTAATAAATAT
Found at i:951970 original size:21 final size:21
Alignment explanation
Indices: 951946--951985 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
951936 TAATCACATA
* *
951946 ATTATAATATTTTATTTTATT
1 ATTATAATAATTAATTTTATT
951967 ATTATAATAATTAATTTTA
1 ATTATAATAATTAATTTTA
951986 CCATCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATAATAATTAATTTTATT
Found at i:952338 original size:94 final size:94
Alignment explanation
Indices: 952222--952427 Score: 270
Period size: 94 Copynumber: 2.2 Consensus size: 94
952212 TATTGGTTGT
* * *
952222 CATTCATGTTATTATCTTCACTTGAAATTAAGGTAGAGACTTCAAGATTGATCATGTCACAAATT
1 CATTTATGTTATCATCTTCACTTGAAATTAAGGTAGAGACTTCAAGATTGATCACGTCACAAATT
952287 AAATC-AGGTATTAGTATCTTACCACTTGC
66 AAA-CAAGGTATTAGTATCTTACCACTTGC
* * *
952316 CATTTATGTTATCATCTTCACTTGAAATTATGTTAGAGACTTCGAGATTGATCACGTCACAAATT
1 CATTTATGTTATCATCTTCACTTGAAATTAAGGTAGAGACTTCAAGATTGATCACGTCACAAATT
* * * * ** * *
952381 ATACAAGGTTTTATTATTTTATTAGTTGT
66 AAACAAGGTATTAGTATCTTACCACTTGC
952410 CATTTATGTTATCATCTT
1 CATTTATGTTATCATCTT
952428 TTTAAATTAT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 1 0.01
94 96 0.99
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (94 bp):
CATTTATGTTATCATCTTCACTTGAAATTAAGGTAGAGACTTCAAGATTGATCACGTCACAAATT
AAACAAGGTATTAGTATCTTACCACTTGC
Found at i:952756 original size:16 final size:16
Alignment explanation
Indices: 952726--952905 Score: 65
Period size: 16 Copynumber: 11.8 Consensus size: 16
952716 ATATAATAAT
952726 TTATATATTTATATTATA
1 TTATATA-TT-TATTATA
952744 TTATATATTTATTATAAA
1 TTATATATTTATTAT--A
952762 TTA-AT-TTTATT-TA
1 TTATATATTTATTATA
**
952775 AAATAT-TTTA-TAT-
1 TTATATATTTATTATA
952788 TTATATAATTTTAATT-TA
1 TTATAT-A-TTT-ATTATA
952806 TTA-ATAATTTA-TATA
1 TTATAT-ATTTATTATA
* * **
952821 CTATAAATTTCAAAATA
1 TTATATATTT-ATTATA
952838 TT-TATA--TATT-TA
1 TTATATATTTATTATA
952850 -TATATATTTATTA-A
1 TTATATATTTATTATA
* *
952864 TAATATTTTTATTA-A
1 TTATATATTTATTATA
952879 -TAT-TATTTATTTATA
1 TTATATATTTA-TTATA
952894 TTATAT-TTTATT
1 TTATATATTTATT
952906 TTAATTATTT
Statistics
Matches: 124, Mismatches: 15, Indels: 49
0.66 0.08 0.26
Matches are distributed among these distances:
11 1 0.01
12 6 0.05
13 13 0.10
14 19 0.15
15 25 0.20
16 30 0.24
17 15 0.12
18 15 0.12
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATATTTATTATA
Found at i:952757 original size:11 final size:12
Alignment explanation
Indices: 952729--952943 Score: 50
Period size: 11 Copynumber: 18.2 Consensus size: 12
952719 TAATAATTTA
952729 TATATT-TATAT
1 TATATTATATAT
952740 TATATTATATAT
1 TATATTATATAT
*
952752 T-TATTATAAAT
1 TATATTATATAT
952763 TA-ATT-T-TAT
1 TATATTATATAT
** *
952772 T-TAAAATATTT
1 TATATTATATAT
952783 TATATT-TATAT
1 TATATTATATAT
* * *
952794 AATTTTAATTTAT
1 TATATT-ATATAT
952807 TAATAATTTATATACT
1 T-AT-A-TTATATA-T
* * *
952823 ATAAATT-TCAAAA
1 -TATATTAT-ATAT
952836 TAT-TTATATAT
1 TATATTATATAT
952847 T-TA-TATATAT
1 TATATTATATAT
952857 T-TATTAATAATATT
1 TATATT-AT-ATA-T
*
952871 TTTATTA-ATAT
1 TATATTATATAT
952882 TAT-TTATTTATAT
1 TATATTA--TATAT
* *
952895 TATATTTTATTT
1 TATATTATATAT
* *
952907 TA-ATTATTTTT
1 TATATTATATAT
952918 TAT-TGTATATAT
1 TATAT-TATATAT
952930 TAGTATTAT-TAT
1 TA-TATTATATAT
952942 TA
1 TA
952944 GGTTATTAGA
Statistics
Matches: 148, Mismatches: 27, Indels: 57
0.64 0.12 0.25
Matches are distributed among these distances:
9 4 0.03
10 16 0.11
11 49 0.33
12 34 0.23
13 19 0.13
14 12 0.08
15 9 0.06
16 4 0.03
17 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (12 bp):
TATATTATATAT
Found at i:952829 original size:26 final size:26
Alignment explanation
Indices: 952786--952867 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
952776 AATATTTTAT
* *
952786 ATTTATATAATTTTAATTTATTAATA
1 ATTTATATAATATAAATTTATTAATA
* *
952812 ATTTATATACTATAAATTTCA-AAAT-
1 ATTTATATAATATAAATTT-ATTAATA
*
952837 ATTTATATATTTATATATATTTATTAATA
1 ATTTATATA---ATATAAATTTATTAATA
952866 AT
1 AT
952868 ATTTTTATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
25 9 0.21
26 19 0.44
27 2 0.05
28 11 0.26
29 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTATATAATATAAATTTATTAATA
Found at i:952830 original size:32 final size:33
Alignment explanation
Indices: 952763--952853 Score: 82
Period size: 32 Copynumber: 2.8 Consensus size: 33
952753 TATTATAAAT
* * *
952763 TAATTTT-ATTTA-AAATATTTTATAT-TTATA
1 TAATTTTAATTTATTAATAATTTATATACTATA
952793 TAATTTTAATTTATTAATAATTTATATACTATA
1 TAATTTTAATTTATTAATAATTTATATACTATA
* ** *
952826 -AATTTCAAAATATTTATATATTTATATA
1 TAATTTTAATTTATTAATA-ATTTATATA
952854 TATTTATTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
30 7 0.14
31 5 0.10
32 25 0.50
33 13 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (33 bp):
TAATTTTAATTTATTAATAATTTATATACTATA
Found at i:952889 original size:19 final size:20
Alignment explanation
Indices: 952835--952906 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
952825 AAATTTCAAA
*
952835 ATAT-TTATATATTTATATAT
1 ATATATTATTTATTTATAT-T
* * *
952855 ATTTATTAATAATATTTTTATT
1 ATATATT-AT-TTATTTATATT
952877 A-ATATTATTTATTTATATT
1 ATATATTATTTATTTATATT
*
952896 ATATTTTATTT
1 ATATATTATTT
952907 TAATTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 10 0.24
20 13 0.31
21 6 0.14
22 4 0.10
23 9 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATATTATTTATTTATATT
Found at i:952906 original size:16 final size:16
Alignment explanation
Indices: 952726--952927 Score: 76
Period size: 15 Copynumber: 13.1 Consensus size: 16
952716 ATATAATAAT
952726 TTATATATTTATATTATA
1 TTATAT-TTTAT-TTATA
*
952744 TTATATATTTATTATAAA
1 TTATAT-TTTATT-TATA
*
952762 TTA-ATTTTATTTAAA
1 TTATATTTTATTTATA
*
952777 ATAT-TTTATATTTATA
1 TTATATTT-TATTTATA
952793 -TA-ATTTTAATTTAT-
1 TTATATTTT-ATTTATA
* * *
952807 TAATAATTTATATACTA
1 TTATATTTTATTTA-TA
* * **
952824 -TAAATTTCA-AAATA
1 TTATATTTTATTTATA
*
952838 TT-TA-TATATTTATA
1 TTATATTTTATTTATA
*
952852 -TATA-TTTATTAATA
1 TTATATTTTATTTATA
* *
952866 ATAT-TTTTATTAATA
1 TTATATTTTATTTATA
952881 -T-TA-TTTATTTATA
1 TTATATTTTATTTATA
952894 TTATATTTTATTT-TAA
1 TTATATTTTATTTAT-A
*
952910 TTATTTTTTATTGTATA
1 TTATATTTTATT-TATA
952927 T
1 T
952928 ATTAGTATTA
Statistics
Matches: 143, Mismatches: 20, Indels: 43
0.69 0.10 0.21
Matches are distributed among these distances:
13 13 0.09
14 19 0.13
15 44 0.31
16 42 0.29
17 6 0.04
18 19 0.13
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTTTATTTATA
Found at i:952930 original size:16 final size:16
Alignment explanation
Indices: 952844--952927 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
952834 AATATTTATA
*
952844 TATTTATA-TA-TATT
1 TATTTATATTATTTTT
* *
952858 TATTAATAATA-TTTT
1 TATTTATATTATTTTT
*
952873 TA-TTA-A-TATTATT
1 TATTTATATTATTTTT
*
952886 TATTTATATTATATTT
1 TATTTATATTATTTTT
952902 TATTT-TAATTATTTTT
1 TATTTAT-ATTATTTTT
952918 TATTGTATAT
1 TATT-TATAT
952928 ATTAGTATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 12 0.22
15 9 0.16
16 22 0.40
17 3 0.05
18 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (16 bp):
TATTTATATTATTTTT
Found at i:952940 original size:28 final size:28
Alignment explanation
Indices: 952839--952942 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 28
952829 TTCAAAATAT
*
952839 TTATATATT-TA-TATATATTTATTAATA
1 TTATATATTATATTAT-TATTTATTTATA
* * *
952866 ATAT-TTTTATTAATATTATTTATTTATA
1 TTATATATTA-TATTATTATTTATTTATA
* *
952894 TTATATTTTATTTTAATTATTT-TTTAT-
1 TTATATATTATATT-ATTATTTATTTATA
952921 TGTATATATTAGTATTATTATT
1 T-TATATATTA-TATTATTATT
952943 AGGTTATTAG
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
26 3 0.05
27 4 0.06
28 37 0.60
29 18 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTATATATTATATTATTATTTATTTATA
Found at i:954284 original size:2 final size:2
Alignment explanation
Indices: 954277--954315 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
954267 TGAATGAGTA
954277 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
954316 AACACACACA
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:955020 original size:32 final size:32
Alignment explanation
Indices: 954980--955043 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
954970 AGGTGGTAGC
954980 TAGTAGGTTTGGGGTTCAAATCCTAGCATTTG
1 TAGTAGGTTTGGGGTTCAAATCCTAGCATTTG
955012 TAGTAGGTTTGGGGTTCAAATCCTAGCATTTG
1 TAGTAGGTTTGGGGTTCAAATCCTAGCATTTG
955044 CAATCCTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (32 bp):
TAGTAGGTTTGGGGTTCAAATCCTAGCATTTG
Found at i:956695 original size:2 final size:2
Alignment explanation
Indices: 956688--956719 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
956678 AGTGTCTTTC
956688 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
956720 TGTACCTGTT
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:964477 original size:18 final size:18
Alignment explanation
Indices: 964454--964489 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
964444 TTATCGCGGC
964454 TGCTTTCCCTCCTTTCTG
1 TGCTTTCCCTCCTTTCTG
964472 TGCTTTCCCTCCTTTCTG
1 TGCTTTCCCTCCTTTCTG
964490 AATGCCTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.39, G:0.11, T:0.50
Consensus pattern (18 bp):
TGCTTTCCCTCCTTTCTG
Found at i:965735 original size:10 final size:10
Alignment explanation
Indices: 965720--965749 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
965710 TCATTATAAT
965720 TATTTTATTC
1 TATTTTATTC
965730 TATTTTAATTC
1 TATTTT-ATTC
965741 TATTTTATT
1 TATTTTATT
965750 TTCATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTATTC
Found at i:968083 original size:35 final size:36
Alignment explanation
Indices: 968037--968107 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
968027 TAAGATAGAA
*
968037 TCTCCTTATC-TTTTCACAAG-CTAAGATAGAACCTT
1 TCTCCCTATCTTTTTCA-AAGACTAAGATAGAACCTT
*
968072 TCTCCCTATCTTTTTTTAAAGACTAAGATAGAACCT
1 TCTCCCTATC-TTTTTCAAAGACTAAGATAGAACCT
968108 CTCAATCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 9 0.29
36 3 0.10
37 19 0.61
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (36 bp):
TCTCCCTATCTTTTTCAAAGACTAAGATAGAACCTT
Found at i:968607 original size:52 final size:49
Alignment explanation
Indices: 968529--968626 Score: 142
Period size: 52 Copynumber: 1.9 Consensus size: 49
968519 TTTGAAATTC
*
968529 TAGCCGTTGGGCTCAATGTATCGATACAATTCATAATGTATCGATACAAATA
1 TAGCCATTGGGCTCAATGTATCGATACAATT--T-ATGTATCGATACAAATA
**
968581 TAGCCATTGGGCTTGATGTATCGATACAATTTATGTATCGATACAA
1 TAGCCATTGGGCTCAATGTATCGATACAATTTATGTATCGATACAA
968627 TGCACTTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 14 0.33
50 1 0.02
52 28 0.65
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (49 bp):
TAGCCATTGGGCTCAATGTATCGATACAATTTATGTATCGATACAAATA
Found at i:968704 original size:19 final size:20
Alignment explanation
Indices: 968676--968726 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
968666 CAGTTTATGG
968676 TGTATCGATACAAAG-AACA
1 TGTATCGATACAAAGCAACA
* **
968695 TGTGTCGATACTGAGCAACA
1 TGTATCGATACAAAGCAACA
968715 TGTATCGATACA
1 TGTATCGATACA
968727 TCTAGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:972502 original size:21 final size:21
Alignment explanation
Indices: 972484--972524 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
972474 TTCATTTTTT
* *
972484 AACTCATTTATTTTGTTTTCC
1 AACTCATTTACTTTCTTTTCC
972505 AACTCATTTACTTTCTTTTC
1 AACTCATTTACTTTCTTTTC
972525 AAAAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (21 bp):
AACTCATTTACTTTCTTTTCC
Found at i:972723 original size:3 final size:3
Alignment explanation
Indices: 972715--972749 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
972705 GTTGACTACC
972715 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
972750 GGATGTAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:974159 original size:16 final size:16
Alignment explanation
Indices: 974138--974170 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
974128 GAACCTCTTT
974138 ATCTTTTCACAAGCTA
1 ATCTTTTCACAAGCTA
974154 ATCTTTTCACAAGCTA
1 ATCTTTTCACAAGCTA
974170 A
1 A
974171 GATAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (16 bp):
ATCTTTTCACAAGCTA
Found at i:982984 original size:111 final size:106
Alignment explanation
Indices: 982845--983049 Score: 268
Period size: 111 Copynumber: 1.9 Consensus size: 106
982835 GACCTAAATA
**
982845 TTTCTTTTCTTTTTTTTTAAGAAATATTTAATTTTTATAAA-TTTCAATTTGAAAGAAAACGAAG
1 TTTCTTTTCTTTTTTTTTAAGAAATATTTAATTTTTATAAACCCT-AATTTGAAAGAAAACG-AG
*
982909 GAAAAAAAATCAAAACAAAATATAAATATTTTTTTCCCCAACC
64 GAAAAAAAATCAAAACAAAAAATAAATATTTTTTTCCCCAACC
* * **
982952 TTTCTTTTCTTTTTGCTTTCTCTAGAAATATTTACTTTTTATAAACCCTAATTTGAAAGAAATTG
1 TTTCTTTTCTTTTT--TTT-T-AAGAAATATTTAATTTTTATAAACCCTAATTTGAAAGAAAACG
* *
983017 AGGAAAAAAAATCCAAACAAAAAATACATATTT
62 AGGAAAAAAAATCAAAACAAAAAATAAATATTT
983050 CACTTTTAAC
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
107 14 0.17
109 3 0.04
110 31 0.37
111 35 0.42
112 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.40
Consensus pattern (106 bp):
TTTCTTTTCTTTTTTTTTAAGAAATATTTAATTTTTATAAACCCTAATTTGAAAGAAAACGAGGA
AAAAAAATCAAAACAAAAAATAAATATTTTTTTCCCCAACC
Found at i:983207 original size:27 final size:27
Alignment explanation
Indices: 983177--983231 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
983167 AGATAAAACG
*
983177 AAAAGCATCAAGTTCGAAATATATTAA
1 AAAAGCATCAAGTTCGAAAAATATTAA
983204 AAAAGCATCAAGTTCGAAAAATATTAA
1 AAAAGCATCAAGTTCGAAAAATATTAA
983231 A
1 A
983232 TGGTTAACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (27 bp):
AAAAGCATCAAGTTCGAAAAATATTAA
Found at i:987961 original size:16 final size:15
Alignment explanation
Indices: 987942--988025 Score: 96
Period size: 16 Copynumber: 5.3 Consensus size: 15
987932 GTTAAGATCA
987942 AAATATTTTAAAATTT
1 AAATATTTT-AAATTT
987958 AAATTATTTTAAATTT
1 AAA-TATTTTAAATTT
*
987974 AAATTATTTTGAATTT
1 AAA-TATTTTAAATTT
987990 AAATAATTTTAAATTT
1 AAAT-ATTTTAAATTT
* * *
988006 AAATTTTTTTAATTC
1 AAATATTTTAAATTT
988021 AAATA
1 AAATA
988026 ATAACTATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
15 13 0.22
16 41 0.68
17 6 0.10
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (15 bp):
AAATATTTTAAATTT
Found at i:987990 original size:32 final size:31
Alignment explanation
Indices: 987953--988027 Score: 114
Period size: 32 Copynumber: 2.4 Consensus size: 31
987943 AATATTTTAA
*
987953 AATTTAAATTATTTTAAATTTAAATTATTTTG
1 AATTTAAATAATTTTAAATTTAAATT-TTTTG
*
987985 AATTTAAATAATTTTAAATTTAAATTTTTTT
1 AATTTAAATAATTTTAAATTTAAATTTTTTG
*
988016 AATTCAAATAAT
1 AATTTAAATAAT
988028 AACTATTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 15 0.38
32 25 0.62
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (31 bp):
AATTTAAATAATTTTAAATTTAAATTTTTTG
Found at i:988115 original size:22 final size:23
Alignment explanation
Indices: 988082--988134 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
988072 AGTAGTCAAA
988082 ATATATTTATTTATTATATCATT
1 ATATATTTATTTATTATATCATT
988105 ATAT-TTTATTTATTATATCA-T
1 ATATATTTATTTATTATATCATT
*
988126 ACATATTTA
1 ATATATTTA
988135 AAAAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATATTTATTTATTATATCATT
Found at i:988468 original size:31 final size:33
Alignment explanation
Indices: 988416--988483 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
988406 GCTTAGGTTC
*
988416 AAATTATCTTTGATATAAATTT-TTACGAGTTT
1 AAATTATCTTTGATATAAATTTGTTACGAATTT
* * *
988448 AAATTAT-TTTGATTTTAATTTGTTATGAATTT
1 AAATTATCTTTGATATAAATTTGTTACGAATTT
988480 AAAT
1 AAAT
988484 AGATATGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (33 bp):
AAATTATCTTTGATATAAATTTGTTACGAATTT
Found at i:989548 original size:17 final size:18
Alignment explanation
Indices: 989527--989572 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
989517 ATGATTTTAT
989527 TATTTTTA-TATTTTTAAA
1 TATTTTTATTA-TTTTAAA
989545 -A-TTTTATTATTTTAAA
1 TATTTTTATTATTTTAAA
*
989561 TATTTTTTTTAT
1 TATTTTTATTAT
989573 ATTTTAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 12 0.50
17 4 0.17
18 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTATTATTTTAAA
Found at i:991865 original size:13 final size:13
Alignment explanation
Indices: 991847--991872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
991837 CAATTTGGGA
991847 TGTATCGATACAT
1 TGTATCGATACAT
991860 TGTATCGATACAT
1 TGTATCGATACAT
991873 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:991869 original size:33 final size:32
Alignment explanation
Indices: 991827--991890 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
991817 CCCGTGTTAA
991827 TGTATCGATACAAT-TTGGGATGTATCGATACAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATACAT
*
991860 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
991891 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:991979 original size:13 final size:13
Alignment explanation
Indices: 991961--991985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
991951 ACATTTGGTC
991961 ATGTATCGATACA
1 ATGTATCGATACA
991974 ATGTATCGATAC
1 ATGTATCGATAC
991986 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:992018 original size:20 final size:19
Alignment explanation
Indices: 991995--992033 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
991985 CTGTGCATTA
991995 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
992015 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
992034 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:992600 original size:16 final size:16
Alignment explanation
Indices: 992579--992610 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
992569 CCTTAATCAA
992579 GCAATTTAACAATTTC
1 GCAATTTAACAATTTC
992595 GCAATTTAACAATTTC
1 GCAATTTAACAATTTC
992611 TTTTAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
GCAATTTAACAATTTC
Found at i:994020 original size:20 final size:22
Alignment explanation
Indices: 993981--994025 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
993971 GTTGTGAGTA
*
993981 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
994003 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
994023 TGG
1 TGG
994026 TGAGTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.04, C:0.29, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:994485 original size:13 final size:13
Alignment explanation
Indices: 994467--994504 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
994457 ATAAACCCTT
*
994467 TGTATCGATACAC
1 TGTATCGATACAA
994480 TGTATCGATACAA
1 TGTATCGATACAA
*
994493 TGTATCAATACA
1 TGTATCGATACA
994505 GAGAATGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:994720 original size:8 final size:8
Alignment explanation
Indices: 994702--994732 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
994692 TTTTCAACAT
994702 CAAACATCA
1 CAAA-ATCA
994711 CAAAATCA
1 CAAAATCA
994719 CAAAATCA
1 CAAAATCA
994727 CAAAAT
1 CAAAAT
994733 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:1000665 original size:20 final size:21
Alignment explanation
Indices: 1000640--1000692 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1000630 TTACAAGCCA
1000640 ATGTATCGATACAAT-TTGGG
1 ATGTATCGATACAATCTTGGG
*
1000660 ATGTATCGATAC-ATCTTGTG
1 ATGTATCGATACAATCTTGGG
1000680 -TGTATCGATACAA
1 ATGTATCGATACAA
1000693 ACAGTTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACAATCTTGGG
Found at i:1000780 original size:20 final size:19
Alignment explanation
Indices: 1000733--1000808 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 19
1000723 GCCAATCACC
*
1000733 TGTATCGATACATTCTTTGTA
1 TGTATCGATACA-T-TTGGTA
*
1000754 AGTATCGATACATTTGGTCA
1 TGTATCGATACATTTGGT-A
*
1000774 TGTATCGATACATTTGAAG-G
1 TGTATCGATACATTTG--GTA
1000794 TGTATCGATACATTT
1 TGTATCGATACATTT
1000809 AAGGGTTTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.08
20 32 0.67
21 11 0.23
22 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTGGTA
Found at i:1004690 original size:134 final size:134
Alignment explanation
Indices: 1004522--1004782 Score: 513
Period size: 134 Copynumber: 1.9 Consensus size: 134
1004512 CATGAATTGT
*
1004522 ATCGATACATTGTCTCAAATGGCTATAAACAGTTATAATTTCAAATGTATGTATCGATACATTAT
1 ATCGATACATTATCTCAAATGGCTATAAACAGTTATAATTTCAAATGTATGTATCGATACATTAT
1004587 GAATTGTATCAATACATAGCAACGGGAATGCATGGAAACAAGCACCAAAAAAGTCAACAATGGGA
66 GAATTGTATCAATACATAGCAACGGGAATGCATGGAAACAAGCACCAAAAAAGTCAACAATGGGA
1004652 ATGC
131 ATGC
1004656 ATCGATACATTATCTCAAATGGCTATAAACAGTTATAATTTCAAATGTATGTATCGATACATTAT
1 ATCGATACATTATCTCAAATGGCTATAAACAGTTATAATTTCAAATGTATGTATCGATACATTAT
1004721 GAATTGTATCAATACATAGCAACGGGAATGCATGGAAACAAGCACCAAAAAAGTCAACAATG
66 GAATTGTATCAATACATAGCAACGGGAATGCATGGAAACAAGCACCAAAAAAGTCAACAATG
1004783 ACTACAAACA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 126 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (134 bp):
ATCGATACATTATCTCAAATGGCTATAAACAGTTATAATTTCAAATGTATGTATCGATACATTAT
GAATTGTATCAATACATAGCAACGGGAATGCATGGAAACAAGCACCAAAAAAGTCAACAATGGGA
ATGC
Found at i:1007090 original size:6 final size:6
Alignment explanation
Indices: 1007079--1007103 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1007069 ATTTGGCGCT
1007079 GGAATA GGAATA GGAATA GGAATA G
1 GGAATA GGAATA GGAATA GGAATA G
1007104 TCTTTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GGAATA
Found at i:1012748 original size:30 final size:30
Alignment explanation
Indices: 1012714--1012770 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1012704 GAGGAAATAT
1012714 GTATATAAAC-GCATCTCATGAGCTGCAAAG
1 GTATATAAACTG-ATCTCATGAGCTGCAAAG
*
1012744 GTATATACACTGATCTCATGAGCTGCA
1 GTATATAAACTGATCTCATGAGCTGCA
1012771 GAGTTTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (30 bp):
GTATATAAACTGATCTCATGAGCTGCAAAG
Found at i:1014848 original size:31 final size:31
Alignment explanation
Indices: 1014813--1014876 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
1014803 GATTGTCCAC
*
1014813 AAAGCCCAATTTAAGGATAGAAATAAGTTAG
1 AAAGCCCAATTTAAGGATAGAAACAAGTTAG
* **
1014844 AAAGCTCGGTTTAAGGATAGAAACAAGTTAG
1 AAAGCCCAATTTAAGGATAGAAACAAGTTAG
1014875 AA
1 AA
1014877 TGCTTAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGCCCAATTTAAGGATAGAAACAAGTTAG
Found at i:1019311 original size:16 final size:16
Alignment explanation
Indices: 1019275--1019322 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
1019265 TTATTTAGAT
* *
1019275 AATTAATATTAAATAA
1 AATTATTATTAATTAA
*
1019291 GATTATTATTAATTAA
1 AATTATTATTAATTAA
*
1019307 AATTATT-TTATTTAA
1 AATTATTATTAATTAA
1019322 A
1 A
1019323 TATGAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTATTATTAATTAA
Found at i:1021167 original size:19 final size:18
Alignment explanation
Indices: 1021143--1021181 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1021133 AGGATCCGAA
*
1021143 TTAATTGAGCTTATTTTTT
1 TTAATTGAGATT-TTTTTT
*
1021162 TTAATTTAGATTTTTTTT
1 TTAATTGAGATTTTTTTT
1021180 TT
1 TT
1021182 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (18 bp):
TTAATTGAGATTTTTTTT
Found at i:1026175 original size:23 final size:24
Alignment explanation
Indices: 1026141--1026185 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
1026131 GTTACGGATC
1026141 AAATTATATTAATTT-ATTTTAAA
1 AAATTATATTAATTTAATTTTAAA
1026164 AAATTA-ATTTAATTTAATTTTA
1 AAATTATA-TTAATTTAATTTTA
1026186 CTATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 13 0.65
24 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAATTATATTAATTTAATTTTAAA
Found at i:1026885 original size:15 final size:15
Alignment explanation
Indices: 1026865--1026900 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1026855 TTTTTATAAA
*
1026865 AAATTAATTGCTATT
1 AAATTAATTACTATT
1026880 AAATTAATTACTATT
1 AAATTAATTACTATT
*
1026895 GAATTA
1 AAATTA
1026901 TTATAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATTAATTACTATT
Found at i:1031620 original size:27 final size:29
Alignment explanation
Indices: 1031555--1031626 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 29
1031545 ATTCTAGGAT
1031555 ATAAGAAATTTT-AAAAATAAAAATAATTA
1 ATAA-AAATTTTAAAAAATAAAAATAATTA
*
1031584 ATAAAAATTTTAAAAAAT-AAAA-AA-TC
1 ATAAAAATTTTAAAAAATAAAAATAATTA
1031610 ATAAAACATTTTAAAAA
1 ATAAAA-ATTTTAAAAA
1031627 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 7 0.17
27 12 0.30
28 11 0.28
29 10 0.25
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (29 bp):
ATAAAAATTTTAAAAAATAAAAATAATTA
Found at i:1031634 original size:8 final size:9
Alignment explanation
Indices: 1031585--1031635 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
1031575 AAATAATTAA
1031585 TAAAAATTT
1 TAAAAATTT
*
1031594 TAAAAA-AT
1 TAAAAATTT
* **
1031602 AAAAAATCA
1 TAAAAATTT
1031611 TAAAACATTT
1 TAAAA-ATTT
1031621 TAAAAATTT
1 TAAAAATTT
1031630 TAAAAA
1 TAAAAA
1031636 ATAAATTAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
8 6 0.18
9 20 0.61
10 7 0.21
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATTT
Found at i:1032085 original size:18 final size:17
Alignment explanation
Indices: 1032058--1032094 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
1032048 TTTAGTGACT
1032058 TTGGTCAAGAAATGGCA
1 TTGGTCAAGAAATGGCA
1032075 TTGGATCAAGAAATGGCA
1 TTGG-TCAAGAAATGGCA
1032093 TT
1 TT
1032095 AGGTTCGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (17 bp):
TTGGTCAAGAAATGGCA
Found at i:1032686 original size:29 final size:29
Alignment explanation
Indices: 1032644--1032745 Score: 152
Period size: 29 Copynumber: 3.5 Consensus size: 29
1032634 TTAGACTATA
*
1032644 AAAAATTTTAAAAAATAAAAATAAGTAAG
1 AAAAATTTAAAAAAATAAAAATAAGTAAG
1032673 AAAAATTTAAAAAAATAAAAATAAGTAAG
1 AAAAATTTAAAAAAATAAAAATAAGTAAG
* *
1032702 AAAAATTTTAAAAAATAAAAA-ATATTAAG
1 AAAAATTTAAAAAAATAAAAATA-AGTAAG
*
1032731 AAAAATTAAAAAAAA
1 AAAAATTTAAAAAAA
1032746 AGAGAAATCA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 1 0.01
29 66 0.99
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (29 bp):
AAAAATTTAAAAAAATAAAAATAAGTAAG
Found at i:1034417 original size:24 final size:25
Alignment explanation
Indices: 1034369--1034417 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1034359 AATTTTTTAA
** *
1034369 AAAAATATAAAAATAAATTATTATT
1 AAAAATATAAAAATAAAAAAATATT
1034394 AAAAATAT-AAAATAAAAAAATATT
1 AAAAATATAAAAATAAAAAAATATT
1034418 TATTAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAATATAAAAATAAAAAAATATT
Found at i:1034988 original size:16 final size:16
Alignment explanation
Indices: 1034963--1034999 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1034953 ATTTTTATCA
*
1034963 TAAATTTAAAAATA-T
1 TAAATTTTAAAATACT
1034978 TAAATTTTAAAATACT
1 TAAATTTTAAAATACT
1034994 TAAATT
1 TAAATT
1035000 AATTGATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTTTAAAATACT
Found at i:1038538 original size:22 final size:22
Alignment explanation
Indices: 1038498--1038539 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1038488 TAATAAAAAT
*
1038498 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAAGATTTATA
*
1038520 TATTTTTATATTTAGATTTA
1 TATTTTTATATTAAGATTTA
1038540 AATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTTTTATATTAAGATTTATA
Found at i:1039125 original size:3 final size:3
Alignment explanation
Indices: 1039117--1039151 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1039107 ATATCTACAT
1039117 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1039152 TCAAGCCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1039325 original size:16 final size:18
Alignment explanation
Indices: 1039304--1039337 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1039294 AAATATAATA
1039304 ATTAATT-TAT-TAAAAT
1 ATTAATTATATATAAAAT
1039320 ATTAATTATATATAAAAT
1 ATTAATTATATATAAAAT
1039338 TATACAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATTATATATAAAAT
Found at i:1040482 original size:20 final size:20
Alignment explanation
Indices: 1040457--1040501 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1040447 TCACTATTTA
*
1040457 TTATATTAATAAATATTATT
1 TTATATTAATAAATATAATT
* *
1040477 TTATATTATTATATATAATT
1 TTATATTAATAAATATAATT
1040497 TTATA
1 TTATA
1040502 AATAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATATTAATAAATATAATT
Found at i:1040500 original size:12 final size:13
Alignment explanation
Indices: 1040454--1040547 Score: 61
Period size: 12 Copynumber: 7.2 Consensus size: 13
1040444 ATTTCACTAT
1040454 TTATTATATTAATAA
1 TTATTATA-T-ATAA
* *
1040469 ATATTAT-TTTATA
1 TTATTATATATA-A
1040482 TTATTATATATAA
1 TTATTATATATAA
*
1040495 TT-TTATAAATAA
1 TTATTATATATAA
* * *
1040507 AT-TTAAATAAAA
1 TTATTATATATAA
1040519 TTATTATAT-TAA
1 TTATTATATATAA
*
1040531 TTATTAAATAATAA
1 TTATTATAT-ATAA
1040545 TTA
1 TTA
1040548 AAATTAAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
12 30 0.49
13 16 0.26
14 9 0.15
15 6 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTATTATATATAA
Found at i:1041198 original size:45 final size:45
Alignment explanation
Indices: 1041109--1041196 Score: 106
Period size: 44 Copynumber: 1.9 Consensus size: 45
1041099 AAATTATTAT
* * * *
1041109 TTAATAATAAAAATAATATTTTTATTTAAATTAATTATAAAAATA
1 TTAATAATAAAAATAATATTTTGATATAAATAAATAATAAAAATA
*
1041154 TTAAT-ATAAAATTAATATTTTGATAATATAATAAATAATAAAA
1 TTAATAATAAAAATAATATTTTGAT-ATA-AATAAATAATAAAA
1041197 TAAATTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 17 0.47
45 7 0.19
46 12 0.33
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (45 bp):
TTAATAATAAAAATAATATTTTGATATAAATAAATAATAAAAATA
Found at i:1041493 original size:46 final size:45
Alignment explanation
Indices: 1041426--1041519 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
1041416 ACGCAACAAT
* *
1041426 TGTCATTAATAAGTATAAGAAAATCAATAGAAACATGAATTTTTTA
1 TGTCATTAATAAGTAAAAGAAAATCAACAGAAACATGAA-TTTTTA
* ** *
1041472 TGTCATTAATAAGTAAAAGAAAGTTGACGGAAACATGAATTTTTA
1 TGTCATTAATAAGTAAAAGAAAATCAACAGAAACATGAATTTTTA
1041517 TGT
1 TGT
1041520 GATCATCGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 9 0.21
46 33 0.79
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (45 bp):
TGTCATTAATAAGTAAAAGAAAATCAACAGAAACATGAATTTTTA
Found at i:1043113 original size:2 final size:2
Alignment explanation
Indices: 1043106--1043135 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1043096 ACAATTTCCC
1043106 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
1043136 GTTTTTATTT
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:1044225 original size:17 final size:17
Alignment explanation
Indices: 1044205--1044238 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1044195 AAAATTAAAT
1044205 TAATTTTACATATTTTA
1 TAATTTTACATATTTTA
**
1044222 TAATTTTTTATATTTTA
1 TAATTTTACATATTTTA
1044239 ATATTTTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATTTTACATATTTTA
Found at i:1044502 original size:18 final size:18
Alignment explanation
Indices: 1044479--1044513 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1044469 GTTCCTTCCT
* *
1044479 TGTGTGTTTATTTATATG
1 TGTGTGTATATATATATG
1044497 TGTGTGTATATATATAT
1 TGTGTGTATATATATAT
1044514 ATATATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (18 bp):
TGTGTGTATATATATATG
Found at i:1044508 original size:2 final size:2
Alignment explanation
Indices: 1044503--1044531 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1044493 TATGTGTGTG
1044503 TA TA 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 T
1044532 TCTTTTCTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.