Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 66 of 290
Found at i:21801096 original size:46 final size:44
Alignment explanation
Indices: 21801046--21801211 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 44
21801036 TGAGCATCCG
21801046 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG-CC
* * * * *
21801091 AAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 -AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-GCC
* * *
21801134 -ACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG-CC
* *
21801178 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21801212 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 24 0.24
42 2 0.02
43 9 0.09
44 7 0.07
45 2 0.02
46 54 0.55
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCC
Found at i:21803979 original size:34 final size:35
Alignment explanation
Indices: 21803936--21804022 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
21803926 TAATTTAATT
* * *
21803936 AATTTAATTTTTTATAAAATTATAA-AATATGTAAA
1 AATTAAATTTTTTA-AAAATCAAAATAATATGTAAA
* * *
21803971 TA-TAAATTTTTTAAAAGTCAAAATAATATTTAAA
1 AATTAAATTTTTTAAAAATCAAAATAATATGTAAA
21804005 AATTAAATTTTTTAAAAA
1 AATTAAATTTTTTAAAAA
21804023 AGGAGTTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
33 7 0.17
34 20 0.48
35 15 0.36
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (35 bp):
AATTAAATTTTTTAAAAATCAAAATAATATGTAAA
Found at i:21804276 original size:41 final size:39
Alignment explanation
Indices: 21804199--21804307 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 39
21804189 ATATTTGAAA
* *
21804199 ATTT-AATTTTTTTAT-TTTTTA-AAA-TTTAAATATAT
1 ATTTAAATTTTTTTATAATTTTAGAAATTTTAAAGATAT
* *
21804234 ATTTAAATTTTTCTATATTATTTT-GAATTTTTAAAGATTAT
1 ATTTAAATTTTT-T-TATAATTTTAGAAATTTTAAAGA-TAT
*
21804275 ATTTATATTTTTTTATAATTTTAGAAATTTTAA
1 ATTTAAATTTTTTTATAATTTTAGAAATTTTAA
21804308 TTTTTAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
35 4 0.07
36 7 0.12
37 1 0.02
38 3 0.05
39 14 0.23
40 17 0.28
41 14 0.23
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.61
Consensus pattern (39 bp):
ATTTAAATTTTTTTATAATTTTAGAAATTTTAAAGATAT
Found at i:21808188 original size:22 final size:22
Alignment explanation
Indices: 21808140--21808189 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
21808130 TAAAGAGACC
* *
21808140 AAAACAGATTAGTAAATCAACG
1 AAAATAGATTAGAAAATCAACG
*
21808162 AAAATAGATTAGAAAATCAATG
1 AAAATAGATTAGAAAATCAACG
21808184 AAAATA
1 AAAATA
21808190 AGGAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AAAATAGATTAGAAAATCAACG
Found at i:21818605 original size:61 final size:61
Alignment explanation
Indices: 21818487--21818610 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
21818477 AAAATTAAAA
*
21818487 ATTAAAAACATATATATATATAAAAAGTTCATAAAATTAAAAAAAAAATGAAATGAAGCAT
1 ATTAAAAAAATATATATATATAAAAAGTTCATAAAATTAAAAAAAAAATGAAATGAAGCAT
21818548 ATTAAAAAAATATATATATATAAAAAGTTCATAAAATTAAAAAAAAAATGAAATGAAGCAT
1 ATTAAAAAAATATATATATATAAAAAGTTCATAAAATTAAAAAAAAAATGAAATGAAGCAT
21818609 AT
1 AT
21818611 GTGAATTGTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (61 bp):
ATTAAAAAAATATATATATATAAAAAGTTCATAAAATTAAAAAAAAAATGAAATGAAGCAT
Found at i:21819113 original size:4 final size:4
Alignment explanation
Indices: 21819104--21819149 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
21819094 AATGAAAAGC
21819104 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
21819150 GGTAGGTAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:21819154 original size:4 final size:4
Alignment explanation
Indices: 21819147--21819181 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
21819137 ATGTATGTAT
*
21819147 GTAG GTAG GTAG GTAG CTAG GTAG GTAG GTAG GTA
1 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTA
21819182 TGCATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.46, T:0.26
Consensus pattern (4 bp):
GTAG
Found at i:21820373 original size:25 final size:24
Alignment explanation
Indices: 21820345--21820398 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
21820335 TAATAAATAA
*
21820345 AAATACCCATATTAATGGTATCATT
1 AAATACCCATATTAATGG-ATCATC
***
21820370 AAATGGTCATATTAATGGATCATC
1 AAATACCCATATTAATGGATCATC
21820394 AAATA
1 AAATA
21820399 ACTAGAAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (24 bp):
AAATACCCATATTAATGGATCATC
Found at i:21820970 original size:27 final size:28
Alignment explanation
Indices: 21820920--21821014 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 28
21820910 AGCTGAGTTC
* * *
21820920 GCCAGTTGGATT-GCAAACTAGGGGTTT
1 GCCAGTTGGTTTGGCAAGCTGGGGGTTT
*
21820947 GCCAGTTGGTTTGGCAAG-TTGGGGTTT
1 GCCAGTTGGTTTGGCAAGCTGGGGGTTT
*** ** * *
21820974 AAAAGCAGGTTTGGCGAGCTGGGGGTTC
1 GCCAGTTGGTTTGGCAAGCTGGGGGTTT
21821002 GCCAGTTGGTTTG
1 GCCAGTTGGTTTG
21821015 CGAACTGTTG
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
27 31 0.62
28 19 0.38
ACGTcount: A:0.17, C:0.14, G:0.39, T:0.31
Consensus pattern (28 bp):
GCCAGTTGGTTTGGCAAGCTGGGGGTTT
Found at i:21833572 original size:49 final size:49
Alignment explanation
Indices: 21833500--21833687 Score: 227
Period size: 49 Copynumber: 3.8 Consensus size: 49
21833490 TGAGGTCACG
* *
21833500 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTTGCA
* * * *
21833549 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGAT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAATTG-GTTGCA
* * * *
21833598 CGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTTGCA
*
21833649 TGTGTAGTACTAAGTGTAGGCTACTACGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
21833688 TCTTCGGCTA
Statistics
Matches: 115, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
49 72 0.63
50 8 0.07
51 35 0.30
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTTGCA
Found at i:21833670 original size:100 final size:100
Alignment explanation
Indices: 21833495--21833682 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
21833485 TATTGTGAGG
* * *
21833495 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
21833560 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAGGCTACTACGCGTACCCAAAAACTGTGA
*
21833595 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
21833660 AAGTGTAGGCTACTACGCGTACC
66 AAGTGCAGGCTACTACGCGTACC
21833683 AGATATCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCAAAAACTGTGA
Found at i:21835398 original size:24 final size:24
Alignment explanation
Indices: 21835371--21835416 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
21835361 TTGCTTGATC
21835371 TTATATTCTAAGATTTATCTTTTG
1 TTATATTCTAAGATTTATCTTTTG
21835395 TTATATTCTAAGATTTATCTTT
1 TTATATTCTAAGATTTATCTTT
21835417 CTAATCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.59
Consensus pattern (24 bp):
TTATATTCTAAGATTTATCTTTTG
Found at i:21842864 original size:37 final size:37
Alignment explanation
Indices: 21842814--21842916 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
21842804 GGAAATATAT
21842814 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGGATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGGATG
***
21842851 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGGATG
*
21842888 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
21842917 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.22
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGAGGATG
Found at i:21844101 original size:54 final size:53
Alignment explanation
Indices: 21844013--21844116 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
21844003 GATTGAATTA
* *
21844013 TAAGGGTATAAGTGATGCAATTTTGAAAGAGTGTTACGACTATAAATGTGATC
1 TAAGGGTACAAGGGATGCAATTTTGAAAGAGTGTTACGACTATAAATGTGATC
* * *
21844066 TNAAGGGTACAAGGGATGCACTTTTGAAAGTGTGTTACGGCTATAAATGTG
1 T-AAGGGTACAAGGGATGCAATTTTGAAAGAGTGTTACGACTATAAATGTG
21844117 CTCTTTGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (53 bp):
TAAGGGTACAAGGGATGCAATTTTGAAAGAGTGTTACGACTATAAATGTGATC
Found at i:21844300 original size:40 final size:40
Alignment explanation
Indices: 21844246--21844480 Score: 339
Period size: 40 Copynumber: 5.9 Consensus size: 40
21844236 ATTGAGAGTT
* *
21844246 ATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * *
21844286 TTATGTCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * *
21844326 TTATGTCCGGGCTAAGTCTCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
21844366 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGGGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
21844406 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
21844446 ATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
1 ATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
21844481 GGAATTATGA
Statistics
Matches: 179, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.07
40 166 0.93
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:21844597 original size:29 final size:29
Alignment explanation
Indices: 21844488--21844620 Score: 128
Period size: 29 Copynumber: 4.7 Consensus size: 29
21844478 GCTGGAATTA
* ** *
21844488 TGAGGCACTGTGTGTGAAAGTTCTTCAAT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
* * **
21844517 CGA-GCGCTATGTGTGCGAGATT-GGTAAT
1 TGAGGCACTATGTGTGCGAG-TTCTTTAAT
21844545 TGAGGCACTATGTGTGCGAGTTCTTTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
*
21844574 TGAGGCACTATGTGTGCGAGTTCTATAAT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
* * *
21844603 CGA-GCGCTATGCGTGCGA
1 TGAGGCACTATGTGTGCGA
21844621 AATCAGTCAA
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
28 32 0.38
29 53 0.62
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.32
Consensus pattern (29 bp):
TGAGGCACTATGTGTGCGAGTTCTTTAAT
Found at i:21846785 original size:98 final size:98
Alignment explanation
Indices: 21846677--21846873 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
21846667 AAGATGATGT
*
21846677 AATGGTTATTTCGGTTTATGTGAAGTAAATATAGATGATGGTTATAAGTTGTTTTATGATTTGAT
1 AATGGTTATTTCGGTTTATGTGAAGTAAATATAGATGATGGTTATAAGCTGTTTTATGATTTGAT
21846742 AATGGTGATTAAATCTTGTAGTTAAGTGTTTAG
66 AATGGTGATTAAATCTTGTAGTTAAGTGTTTAG
21846775 AATGGTTATTTCGGTTTATGTGAAGTAAATATAGATGATGGTTATAAGCTGTTTTATGATTTGAT
1 AATGGTTATTTCGGTTTATGTGAAGTAAATATAGATGATGGTTATAAGCTGTTTTATGATTTGAT
21846840 AATGGTGATTAAATCTTGTAGTTAAGTGTTTAG
66 AATGGTGATTAAATCTTGTAGTTAAGTGTTTAG
21846873 A
1 A
21846874 TATATATATA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (98 bp):
AATGGTTATTTCGGTTTATGTGAAGTAAATATAGATGATGGTTATAAGCTGTTTTATGATTTGAT
AATGGTGATTAAATCTTGTAGTTAAGTGTTTAG
Found at i:21847251 original size:99 final size:97
Alignment explanation
Indices: 21847080--21847277 Score: 369
Period size: 99 Copynumber: 2.0 Consensus size: 97
21847070 TGAAAAATGT
21847080 AGGTGAACATGACAAGTGTATTCGGCTTAGGGCATAAAGGATATGAAAATATGGTATTTATTTTT
1 AGGTGAACATGACAAGTGTATTCGGCTTAGGGCATAAAGGATATGAAAATATGGTATTTATTTTT
21847145 GATTGTGTGTGTATGACCATGGATAATTGGCTGC
66 GA-T-TGTGTGTATGACCATGGATAATTGGCTGC
*
21847179 AGGTGAACATGACAAGTGTATTCGGCTTAGGGCATAAAGGATATGAAAATTTGGTATTTATTTTT
1 AGGTGAACATGACAAGTGTATTCGGCTTAGGGCATAAAGGATATGAAAATATGGTATTTATTTTT
21847244 GATTGTGTGTATGACCATGGATAATTGGCTGC
66 GATTGTGTGTATGACCATGGATAATTGGCTGC
21847276 AG
1 AG
21847278 AAATATTATG
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
97 31 0.32
98 1 0.01
99 66 0.67
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.34
Consensus pattern (97 bp):
AGGTGAACATGACAAGTGTATTCGGCTTAGGGCATAAAGGATATGAAAATATGGTATTTATTTTT
GATTGTGTGTATGACCATGGATAATTGGCTGC
Found at i:21847957 original size:83 final size:83
Alignment explanation
Indices: 21847818--21847983 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
21847808 AAAAGAGACT
21847818 GTGTAAGCAAAGAAATTTCCTATAAAGATATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACT
1 GTGTAAGCAAAGAAATTTCCTATAAAGATATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACT
21847883 CCGAAATCCCCTGTTCTG
66 CCGAAATCCCCTGTTCTG
21847901 GTGTAAGCAAAGAAATTTCCTATAAAGATATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACT
1 GTGTAAGCAAAGAAATTTCCTATAAAGATATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACT
21847966 CCGAAATCCCCTGTTCTG
66 CCGAAATCCCCTGTTCTG
21847984 TTTTTAGAAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (83 bp):
GTGTAAGCAAAGAAATTTCCTATAAAGATATATTTAAAGTTGTGTGAGACAGTGTCAGAATGACT
CCGAAATCCCCTGTTCTG
Found at i:21848706 original size:37 final size:37
Alignment explanation
Indices: 21848656--21848758 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
21848646 GGAAATATAT
*
21848656 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
21848693 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
21848730 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
21848759 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:21858428 original size:13 final size:13
Alignment explanation
Indices: 21858397--21858425 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21858387 AAAACAGAGT
21858397 AATTAAATCCAAA
1 AATTAAATCCAAA
21858410 AATTAAAT-CAAA
1 AATTAAATCCAAA
21858422 AATT
1 AATT
21858426 TAAGTGGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATCCAAA
Found at i:21861270 original size:40 final size:39
Alignment explanation
Indices: 21861181--21861475 Score: 172
Period size: 40 Copynumber: 7.6 Consensus size: 39
21861171 TTGAATGATG
*
21861181 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
21861220 TCCGGACTAAGGTCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAA-GTCCGAAGGCATTTGTGCGAGATACTAAA
* ** *
21861260 TCCGGGCTAAGCCCGAAAACATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
*
21861299 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-AA
* * ** * *
21861340 -CCAGGCTATGTCCCGAAGGCATTTGAACGAG----GAGA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATACTAAA
* ** *
21861375 ----GGCTAAGCCCGAAAACATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
*
21861410 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-AA
* *
21861451 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
21861476 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 37, Indels: 39
0.72 0.13 0.14
Matches are distributed among these distances:
31 15 0.08
32 6 0.03
35 3 0.02
36 1 0.01
39 57 0.29
40 102 0.51
41 14 0.07
42 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:21861393 original size:111 final size:111
Alignment explanation
Indices: 21861264--21861484 Score: 442
Period size: 111 Copynumber: 2.0 Consensus size: 111
21861254 ACTAATTCCG
21861264 GGCTAAGCCCGAAAACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GGCTAAGCCCGAAAACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
21861329 AATTACTATAACCAGGCTATGTCCCGAAGGCATTTGAACGAGGAGA
66 AATTACTATAACCAGGCTATGTCCCGAAGGCATTTGAACGAGGAGA
21861375 GGCTAAGCCCGAAAACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GGCTAAGCCCGAAAACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
21861440 AATTACTATAACCAGGCTATGTCCCGAAGGCATTTGAACGAGGAG
66 AATTACTATAACCAGGCTATGTCCCGAAGGCATTTGAACGAGGAG
21861485 CTATATCCGG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (111 bp):
GGCTAAGCCCGAAAACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
AATTACTATAACCAGGCTATGTCCCGAAGGCATTTGAACGAGGAGA
Found at i:21863105 original size:28 final size:28
Alignment explanation
Indices: 21863073--21863129 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
21863063 ACATATTTAA
*
21863073 TTCACAATTTAGTCCCTCAAA-A-CTCATT
1 TTCACAAATTAG-CCC-CAAATAGCTCATT
21863101 TTCACAAATTAGCCCCAAATAGCTCATT
1 TTCACAAATTAGCCCCAAATAGCTCATT
21863129 T
1 T
21863130 CATAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 18 0.69
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.33
Consensus pattern (28 bp):
TTCACAAATTAGCCCCAAATAGCTCATT
Found at i:21866141 original size:18 final size:18
Alignment explanation
Indices: 21866118--21866170 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
21866108 TAGAAAGAAA
21866118 TATTTGATTTCTTTTTCC
1 TATTTGATTTCTTTTTCC
* *
21866136 TATTTGTTTTCCTTTT-C
1 TATTTGATTTCTTTTTCC
21866153 TA-TTGAGTTTTCTTTTTC
1 TATTTGA--TTTCTTTTTC
21866171 TTTTTTCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 3 0.11
17 3 0.11
18 22 0.79
ACGTcount: A:0.09, C:0.15, G:0.08, T:0.68
Consensus pattern (18 bp):
TATTTGATTTCTTTTTCC
Found at i:21866171 original size:18 final size:17
Alignment explanation
Indices: 21866125--21866171 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
21866115 AAATATTTGA
*
21866125 TTTCTTTTTCCTATTTGT
1 TTTCTTTTT-CTATTAGT
*
21866143 TTTCCTTTTCTATTGAGT
1 TTTCTTTTTCTATT-AGT
21866161 TTTCTTTTTCT
1 TTTCTTTTTCT
21866172 TTTTTCAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTCTTTTTCTATTAGT
Found at i:21867170 original size:220 final size:219
Alignment explanation
Indices: 21866851--21867642 Score: 1140
Period size: 220 Copynumber: 3.6 Consensus size: 219
21866841 CATGTTGATA
* * * ** ** * * *
21866851 TCTTTGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCTGCAATCTTTGATCTGCTCTCTGAC
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGAC
** * * * * * * *
21866915 AATACAGAGACACCAAATTATCTTAGATTTGCTTCAACATAAACGCGTGAAAG-CTAAATCTGCT
65 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACAC-TGAAGGTC-AAATCTGCT
* * * * *
21866979 ATGTCTTCGATTTGCTCCTTGTAAACACGAGGATGCCAAATCATCTTGGATCTACTTTGATGTGA
128 ATGCCTTCGATTTGTTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCCACTTTGATGTGA
21867044 AAACATCCAAAGGTTAGATCTGCTATG
193 AAACATCCAAAGGTTAGATCTGCTATG
21867071 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
*
21867136 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTCAGATCTGCTAT
66 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACA-CTGAAGGTCAAATCTGCTAT
* *
21867201 GCCTTCGATTTGTTCCTTGTAAACGCAAAGATGCCAAATCATCTTGGATCCGCTTTGATGTGAAA
130 GCCTTCGATTTGTTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCCACTTTGATGTGAAA
21867266 ACATCCAAAGGTTAGATCTGCTATG
195 ACATCCAAAGGTTAGATCTGCTATG
21867291 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
* * *
21867356 ATACAGTGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACATTTGAAGGTCAAATCTGCTAT
66 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACA-CTGAAGGTCAAATCTGCTAT
* *
21867421 GCCTTCGATTTGTTCCTTGTAAACATAAAGATGCCAGATCATCTTGGATCCACTTTGATGTGAAA
130 GCCTTCGATTTGTTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCCACTTTGATGTGAAA
21867486 ACATCCAAAGGTTAGATCTGCTATG
195 ACATCCAAAGGTTAGATCTGCTATG
* * * *
21867511 TCTTCGATATGCTCTCCGTCGAATATGGAGATGCCGAATCTGCTTCTTCGATTTGTTCTCTAACA
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
* * * *
21867576 ATATAGAGATGCCAAATCATCTTGGATTTGCTTCAGTGTAAACATCTGAAGG-CTAGATCTGCTA
66 ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACA-CTGAAGGTC-AAATCTGCTA
21867640 TGC
129 TGC
21867643 TTTAGCCTGT
Statistics
Matches: 524, Mismatches: 44, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
219 1 0.00
220 502 0.96
221 21 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (219 bp):
TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
ATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACACTGAAGGTCAAATCTGCTATG
CCTTCGATTTGTTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCCACTTTGATGTGAAAA
CATCCAAAGGTTAGATCTGCTATG
Found at i:21875371 original size:14 final size:16
Alignment explanation
Indices: 21875341--21875372 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
21875331 GATGCGATGT
21875341 AATGCTATGAGATGCA
1 AATGCTATGAGATGCA
21875357 AATGC-ATGA-ATGCA
1 AATGCTATGAGATGCA
21875371 AA
1 AA
21875373 AAGGACATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (16 bp):
AATGCTATGAGATGCA
Found at i:21883328 original size:40 final size:40
Alignment explanation
Indices: 21883284--21883545 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
21883274 GCTCCTCGTT
* *
21883284 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
21883324 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21883364 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21883403 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21883442 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
21883481 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
21883522 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21883546 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:21885481 original size:27 final size:26
Alignment explanation
Indices: 21885407--21885503 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 26
21885397 AGTTAGTATT
*
21885407 ATACTGGTGGCTCTGCCACA-ATTATTG
1 ATACTGGTGGCTTTGCCACATA-TA-TG
* *
21885434 TTACCGGTGGCTTTGCCACATATATAG
1 ATACTGGTGGCTTTGCCACATATAT-G
*
21885461 ATACTGGTGGCTTTGCCACATGTACTG
1 ATACTGGTGGCTTTGCCACATATA-TG
* *
21885488 TTACTGGTAGCTTTGC
1 ATACTGGTGGCTTTGC
21885504 TGCAATATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 56 0.95
28 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTGGTGGCTTTGCCACATATATG
Found at i:21887930 original size:27 final size:27
Alignment explanation
Indices: 21887867--21887932 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
21887857 CTGCAACAAT
* *
21887867 TACTGTTACCAGTGGCTTTACCACATA
1 TACTGTTACTAGTCGCTTTACCACATA
* * *
21887894 TACTGATACTGGTCGCTTTGCCACATA
1 TACTGTTACTAGTCGCTTTACCACATA
21887921 TACTGTTACTAG
1 TACTGTTACTAG
21887933 CAGCTTTGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
TACTGTTACTAGTCGCTTTACCACATA
Found at i:21887938 original size:27 final size:26
Alignment explanation
Indices: 21887867--21887941 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
21887857 CTGCAACAAT
* * *
21887867 TACTGTTACCAGTGGCTTTACCACATA
1 TACTGTTACTAG-CGCTTTGCCACATA
* *
21887894 TACTGATACTGGTCGCTTTGCCACATA
1 TACTGTTACTAG-CGCTTTGCCACATA
21887921 TACTGTTACTAGCAGCTTTGC
1 TACTGTTACTAGC-GCTTTGC
21887942 TACGATATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (26 bp):
TACTGTTACTAGCGCTTTGCCACATA
Found at i:21888075 original size:28 final size:28
Alignment explanation
Indices: 21888030--21888084 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
21888020 TTTGTACTGT
*
21888030 ACTGATTCTGTATTGGGCTTAGGCCCAC
1 ACTGATTCTGTATTGGGCTAAGGCCCAC
*
21888058 ACTGTTTCTGT-TTAGGGCTAAGGCCCA
1 ACTGATTCTGTATT-GGGCTAAGGCCCA
21888085 GACAGCACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (28 bp):
ACTGATTCTGTATTGGGCTAAGGCCCAC
Found at i:21895190 original size:21 final size:21
Alignment explanation
Indices: 21895164--21895205 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21895154 GCCCACGTGG
21895164 ATTAAAATTCATGAAAGATGA
1 ATTAAAATTCATGAAAGATGA
21895185 ATTAAAATTCATGAAAGATGA
1 ATTAAAATTCATGAAAGATGA
21895206 TAAATATTGG
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:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (21 bp):
ATTAAAATTCATGAAAGATGA
Found at i:21895686 original size:27 final size:26
Alignment explanation
Indices: 21895612--21895708 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 26
21895602 AGTTAGTATT
*
21895612 ATACTGGTGGCTCTGCCACA-ATTATTG
1 ATACTGGTGGCTTTGCCACATA-TA-TG
* *
21895639 TTACCGGTGGCTTTGCCACATATATAG
1 ATACTGGTGGCTTTGCCACATATAT-G
*
21895666 ATACTGGTGGCTTTGCCACATGTACTG
1 ATACTGGTGGCTTTGCCACATATA-TG
* *
21895693 TTACTGGTAGCTTTGC
1 ATACTGGTGGCTTTGC
21895709 TGCAATATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 56 0.95
28 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTGGTGGCTTTGCCACATATATG
Found at i:21898168 original size:27 final size:27
Alignment explanation
Indices: 21898105--21898170 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
21898095 CTGCAACAAT
* *
21898105 TACTGTTACCAGTGGCTTTACCACATA
1 TACTGTTACTAGTCGCTTTACCACATA
* * *
21898132 TACTGATACTGGTCGCTTTGCCACATA
1 TACTGTTACTAGTCGCTTTACCACATA
21898159 TACTGTTACTAG
1 TACTGTTACTAG
21898171 CAGCTTTGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
TACTGTTACTAGTCGCTTTACCACATA
Found at i:21898176 original size:27 final size:26
Alignment explanation
Indices: 21898105--21898179 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
21898095 CTGCAACAAT
* * *
21898105 TACTGTTACCAGTGGCTTTACCACATA
1 TACTGTTACTAG-CGCTTTGCCACATA
* *
21898132 TACTGATACTGGTCGCTTTGCCACATA
1 TACTGTTACTAG-CGCTTTGCCACATA
21898159 TACTGTTACTAGCAGCTTTGC
1 TACTGTTACTAGC-GCTTTGC
21898180 TACGATATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (26 bp):
TACTGTTACTAGCGCTTTGCCACATA
Found at i:21898313 original size:28 final size:28
Alignment explanation
Indices: 21898268--21898322 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
21898258 TTTGTACTGT
*
21898268 ACTGATTCTGTATTGGGCTTAGGCCCAC
1 ACTGATTCTGTATTGGGCTAAGGCCCAC
*
21898296 ACTGTTTCTGT-TTAGGGCTAAGGCCCA
1 ACTGATTCTGTATT-GGGCTAAGGCCCA
21898323 GACAGCACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (28 bp):
ACTGATTCTGTATTGGGCTAAGGCCCAC
Found at i:21905903 original size:27 final size:26
Alignment explanation
Indices: 21905829--21905925 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 26
21905819 AGTTAGTATT
*
21905829 ATACTGGTGGCTCTGCCACA-ATTATTG
1 ATACTGGTGGCTTTGCCACATA-TA-TG
* *
21905856 TTACCGGTGGCTTTGCCACATATATAG
1 ATACTGGTGGCTTTGCCACATATAT-G
*
21905883 ATACTGGTGGCTTTGCCACATGTACTG
1 ATACTGGTGGCTTTGCCACATATA-TG
* *
21905910 TTACTGGTAGCTTTGC
1 ATACTGGTGGCTTTGC
21905926 TGCAATATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 56 0.95
28 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTGGTGGCTTTGCCACATATATG
Found at i:21919711 original size:91 final size:93
Alignment explanation
Indices: 21919546--21919715 Score: 290
Period size: 91 Copynumber: 1.8 Consensus size: 93
21919536 ATGCTGATGC
21919546 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
21919611 CTTACACTAGCACATCTCATAGCCAATG
66 CTTACACTAGCACATCTCATAGCCAATG
* * * *
21919639 CATGTCCCAGACATGGTCTTACACTGTCTCTCATA-ATGTG-GCCGATGCATGTCCTAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
21919702 CTTACACTAGCACA
66 CTTACACTAGCACA
21919716 CACACATCGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 36 0.49
92 4 0.05
93 33 0.45
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACATCTCATAGCCAATG
Found at i:21919730 original size:93 final size:94
Alignment explanation
Indices: 21919546--21919736 Score: 280
Period size: 93 Copynumber: 2.0 Consensus size: 94
21919536 ATGCTGATGC
21919546 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
* *
21919611 CTTACACTAGCACATCTCATAGCCAATG-
66 CTTACACTAGCACAACACATAGCCAATGT
* * * *
21919639 CATGTCCCAGACATGGTCTTACACTGTCTCTCATA-ATGTG-GCCGATGCATGTCCTAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
*
21919702 CTTACACTAGCACACACACATCGCCCAATGT
66 CTTACACTAGCACA-ACACATAG-CCAATGT
21919733 CATG
1 CATG
21919737 GAATGAATAT
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
91 36 0.41
92 9 0.10
93 39 0.44
94 4 0.05
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACAACACATAGCCAATGT
Found at i:21922294 original size:29 final size:29
Alignment explanation
Indices: 21922255--21922333 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
21922245 CTTAATAATC
*
21922255 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
21922285 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
21922314 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21922334 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:21924594 original size:18 final size:18
Alignment explanation
Indices: 21924571--21924620 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
21924561 GGCCCTTTCT
21924571 AGTAACAGTAAACAGTGC
1 AGTAACAGTAAACAGTGC
*
21924589 AGTAACAGTAAACAGTGT
1 AGTAACAGTAAACAGTGC
* *
21924607 AGAAATAGTAAACA
1 AGTAACAGTAAACA
21924621 ATATGCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (18 bp):
AGTAACAGTAAACAGTGC
Found at i:21924970 original size:27 final size:27
Alignment explanation
Indices: 21924930--21925172 Score: 299
Period size: 27 Copynumber: 9.0 Consensus size: 27
21924920 AACATACATT
* * *
21924930 ACATAGGGGCAAAACAGTCATCTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
21924957 ATATAAGGGCAAAATAGTCATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
* *
21924984 ACATAAGGGCAAAACAATCATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
* * *
21925011 ACATAAGGGAAAAATAATCATTCTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
21925038 ACATAAGGGCAAAATAGTCATTTAACC
1 ACATAAGGGCAAAATAGTCATTTTACC
* *
21925065 ACATAAGGGCAAAATAATCATTTTATC
1 ACATAAGGGCAAAATAGTCATTTTACC
* * *
21925092 ACATAGGGGCAAAACAGTTATTTTATCC
1 ACATAAGGGCAAAATAGTCATTTTA-CC
* * *
21925120 -TATAAAGGCAAAATAGTCATTTTATC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
21925146 ACATAGGGGCAAAATAGTCATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
21925173 TTATGAGGGT
Statistics
Matches: 182, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 180 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (27 bp):
ACATAAGGGCAAAATAGTCATTTTACC
Found at i:21925192 original size:27 final size:27
Alignment explanation
Indices: 21925162--21925219 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
21925152 GGGCAAAATA
*
21925162 GTCATTTTACCTTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
21925189 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
21925216 GTCA
1 GTCA
21925220 CCATTTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:21925203 original size:81 final size:81
Alignment explanation
Indices: 21924940--21925203 Score: 270
Period size: 81 Copynumber: 3.3 Consensus size: 81
21924930 ACATAGGGGC
* * *
21924940 AAAA-CAGTCATCTTACCATATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAATCA
1 AAAATCAGTCATTTTACCCTATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAATCA
* *
21925004 TTTTACCACATAAGGG
66 TTTTACCATATGAGGG
* * *
21925020 AAAAAT-AATCATTCTACCAC-ATAAGGGCAAAATAGTCATTTAACCACATAAGGGCAAAATAAT
1 -AAAATCAGTCATTTTACC-CTATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAAT
21925083 CATTTTATCACATA-G-GGG
64 CATTTTA-C-CATATGAGGG
* * * * * *
21925101 CAAAA-CAGTTATTTTATCCTATAAAGGCAAAATAGTCATTTTATCACATAGGGGCAAAATAGTC
1 -AAAATCAGTCATTTTACCCTATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAATC
*
21925165 ATTTTACCTTATGAGGG
65 ATTTTACCATATGAGGG
* ** *
21925182 TATTTCGGTCATTTTACCCTAT
1 AAAATCAGTCATTTTACCCTAT
21925204 GGGGGTATTT
Statistics
Matches: 149, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
79 3 0.02
80 4 0.03
81 138 0.93
82 1 0.01
83 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (81 bp):
AAAATCAGTCATTTTACCCTATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAATCA
TTTTACCATATGAGGG
Found at i:21926692 original size:77 final size:77
Alignment explanation
Indices: 21926565--21926718 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
21926555 AGTTTAGGGG
21926565 CAAAAGTGTAATTTTTCCAAAGTTCGTATTAAATGCTGTTTTGATGAATGTATGTATTGAATAAG
1 CAAAAGTGTAATTTTTCCAAAGTTCGTATTAAATGCTGTTTTGATGAATGTATGTATTGAATAAG
21926630 ATTAATTTGGCA
66 ATTAATTTGGCA
* *
21926642 CAAAAGTGTAATTTTTCCAAAGTTTGTATTAAATGCTGTTTTGATGAATGTCTGTATTGAATAAG
1 CAAAAGTGTAATTTTTCCAAAGTTCGTATTAAATGCTGTTTTGATGAATGTATGTATTGAATAAG
21926707 ATTAATTTGGCA
66 ATTAATTTGGCA
21926719 TTATAGATCA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (77 bp):
CAAAAGTGTAATTTTTCCAAAGTTCGTATTAAATGCTGTTTTGATGAATGTATGTATTGAATAAG
ATTAATTTGGCA
Found at i:21927138 original size:46 final size:46
Alignment explanation
Indices: 21927088--21927260 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
21927078 TGGTTGAGCA
21927088 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
21927134 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21927179 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
21927227 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21927261 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 57 0.56
47 27 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21927222 original size:93 final size:93
Alignment explanation
Indices: 21927085--21927255 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
21927075 GGATGGTTGA
*
21927085 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCCGAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCT-CGAACTCGTTGAG
21927149 TTGAGTCCAAGTTCGTGAAATGTAACTAG
65 TTGAGTCCAAGTTCGTGAAATGTAACTAG
* *
21927178 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCTCGAACTCGTTGAGT
*
21927243 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
21927256 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCTCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:21934696 original size:46 final size:46
Alignment explanation
Indices: 21934647--21934818 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
21934637 GGTTGAGCAT
* *
21934647 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
21934693 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--C
*
21934740 CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
21934786 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21934819 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:21937143 original size:58 final size:56
Alignment explanation
Indices: 21937018--21937157 Score: 156
Period size: 58 Copynumber: 2.5 Consensus size: 56
21937008 ATGTATACTA
* * ** * *
21937018 CAGGATTACCAGTCTAGGCTAAATCCTTTTATGACATATGCTCTAAGGAGCTTTAT
1 CAGGATTACCCGTCTAGGCTAAATCCATCCATAACATATGCTCGAAGGAGCTTTAT
* *
21937074 CTGGATTACCCGTCTGGGCTAAATCCAATCCATAACATATGCTCGAGAGGA-CTTATAT
1 CAGGATTACCCGTCTAGGCTAAATCC-ATCCATAACATATGCTCGA-AGGAGCTT-TAT
* *
21937132 CAGGATTACCCGTCCAGTCTAAATCC
1 CAGGATTACCCGTCTAGGCTAAATCC
21937158 TTTCTATAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 23 0.33
57 17 0.25
58 29 0.42
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (56 bp):
CAGGATTACCCGTCTAGGCTAAATCCATCCATAACATATGCTCGAAGGAGCTTTAT
Found at i:21952064 original size:79 final size:81
Alignment explanation
Indices: 21951962--21952145 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
21951952 GCTCCTCGTT
* *
21951962 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
21952024 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
21952042 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
21952106 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
21952122 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21952146 CATCATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 14 0.15
79 57 0.63
80 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:21952079 original size:39 final size:40
Alignment explanation
Indices: 21951962--21952145 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
21951952 GCTCCTCGTT
*
21951962 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
21952002 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
21952042 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * *
21952081 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
21952122 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21952146 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 50 0.40
40 65 0.52
41 8 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:21960289 original size:39 final size:40
Alignment explanation
Indices: 21960135--21960359 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
21960125 GCTCCTCGTT
* *
21960135 CAAATGCCTTCGGGACATAGCCCGG-GTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
21960175 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21960215 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
21960255 CAAATGCCTTCGGG-CTTATCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
21960294 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
21960335 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21960360 CATCATTCAA
Statistics
Matches: 163, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 38 0.23
40 110 0.67
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:21960319 original size:119 final size:120
Alignment explanation
Indices: 21960135--21960359 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
21960125 GCTCCTCGTT
*
21960135 CAAATGCCTTCGGGACATAGCCCGGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
21960200 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
21960255 CAAATGCCTTCGGG-CTTATCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
21960316 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
21960360 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 6 0.07
119 64 0.70
120 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:21963385 original size:136 final size:135
Alignment explanation
Indices: 21963141--21963390 Score: 303
Period size: 136 Copynumber: 1.8 Consensus size: 135
21963131 TTTTTTAGTT
21963141 TAATAAAAAGGATGATAATTATTAATATAAAATTATATCTATTATAATATATATTAATTATTATC
1 TAATAAAAAGGATGATAATTATTAATATAAAATTATATCTATTATAATATATATTAATTATTATC
* * * *
21963206 AACTTTATATAGAGTTAGGATTAGTGTTAATTTAATC-ATATTTTATTTCATAAGTTTTTTCAAA
66 AACTTTACATAAAATTAGGATTAGTGTTAATATAATCAAT-TTTTATTTCATAAGTTTTTTCAAA
21963270 TAATAA
130 TAATAA
* * * *
21963276 TAATAATAA-GATGATAA-TATTTAATATATAATTGTATCTATTATAATTTATATATTAATTTTT
1 TAATAAAAAGGATGATAATTA-TTAATATAAAATTATATCTATTATAA--TATATATTAATTATT
* * *
21963339 ATCAA-TTTAGCATAAAATTAGGATTTGTTTTAATCATATTTC-ATTTTTATTT
63 ATCAACTTTA-CATAAAATTAGGATTAGTGTTAAT-ATA-ATCAATTTTTATTT
21963391 AAATAAATTA
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
133 2 0.02
134 32 0.33
135 12 0.12
136 38 0.39
137 10 0.10
138 4 0.04
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (135 bp):
TAATAAAAAGGATGATAATTATTAATATAAAATTATATCTATTATAATATATATTAATTATTATC
AACTTTACATAAAATTAGGATTAGTGTTAATATAATCAATTTTTATTTCATAAGTTTTTTCAAAT
AATAA
Found at i:21967587 original size:13 final size:13
Alignment explanation
Indices: 21967569--21967597 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21967559 GATTTCTCCC
21967569 TTTGAGAAAGGTT
1 TTTGAGAAAGGTT
21967582 TTTGAGAAAGGTT
1 TTTGAGAAAGGTT
21967595 TTT
1 TTT
21967598 TTCTTCAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (13 bp):
TTTGAGAAAGGTT
Found at i:21973019 original size:27 final size:27
Alignment explanation
Indices: 21972989--21973118 Score: 197
Period size: 27 Copynumber: 4.8 Consensus size: 27
21972979 AAATTATCGA
*
21972989 AATGCCCCTGTAGGGTAAAATGACCAT
1 AATGCCCCTGTAGGGTAAAATGACCGT
*
21973016 AATGCCCCTGTAGGGTAAAATAACCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
21973043 AATGCCCCTGTAGGGTAAAATGACCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
* *
21973070 AATGTCCCTATAGGGTAAAATGACCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
* * *
21973097 AATGCCCTTGTATGGAAAAATG
1 AATGCCCCTGTAGGGTAAAATG
21973119 TCAATTATGC
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
AATGCCCCTGTAGGGTAAAATGACCGT
Found at i:21973303 original size:27 final size:27
Alignment explanation
Indices: 21973261--21973313 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
21973251 GGAAGTTTTG
*
21973261 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGATGGCTATGCCACAATTACTGA
* *
21973288 TACTGATGGCTTTGCCACATTTACTG
1 TACTGATGGCTATGCCACAATTACTG
21973314 TTTCTAGCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
TACTGATGGCTATGCCACAATTACTGA
Found at i:21974363 original size:27 final size:27
Alignment explanation
Indices: 21974333--21974447 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
21974323 ACCCCGATTT
* *
21974333 GTAAAATTATCGAAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
* *
21974360 GTAAAATGATTGTAATGCCCATGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
21974387 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
* * *
21974414 GTAAAATAATCGTAATACCCCTG-ATG
1 GTAAAATGATCGTAATGCCCCTGTAGG
21974440 GTAAAATG
1 GTAAAATG
21974448 TCAATTATGC
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
26 9 0.12
27 67 0.88
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (27 bp):
GTAAAATGATCGTAATGCCCCTGTAGG
Found at i:21974676 original size:27 final size:27
Alignment explanation
Indices: 21974590--21974676 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
21974580 GGAAGTTCTA
** *
21974590 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGACTATACCACATTTACTGT
* * *
21974617 TACTGGTGACTATGCCACAATTACTGA
1 TACTGGTGACTATACCACATTTACTGT
* *
21974644 TACTGGTGGCTTTACCACATTTACTGT
1 TACTGGTGACTATACCACATTTACTGT
*
21974671 TTCTGG
1 TACTGG
21974677 CAGCTATGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
TACTGGTGACTATACCACATTTACTGT
Found at i:21975748 original size:54 final size:53
Alignment explanation
Indices: 21975685--21975788 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 53
21975675 ACCCCAATTT
* * * * *
21975685 GTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACTGTAATGCCCCTGTGGG
1 GTAAAATGACCGTAATG-CCCTATAAGGTAAAATAACCGTAATACCCCTGTGGG
21975739 GTAAAATGACCGTAATGCCCTATAAGGTAAAATAACCGTAATACCCCTGT
1 GTAAAATGACCGTAATGCCCTATAAGGTAAAATAACCGTAATACCCCTGT
21975789 ATGGCAAGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 28 0.62
54 17 0.38
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (53 bp):
GTAAAATGACCGTAATGCCCTATAAGGTAAAATAACCGTAATACCCCTGTGGG
Found at i:21975767 original size:26 final size:27
Alignment explanation
Indices: 21975685--21975789 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
21975675 ACCCCAATTT
21975685 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
21975712 GTAAAATGACTGTAATGCCCCTGTGGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
21975739 GTAAAATGACCGTAATG-CCCTATAAG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
21975765 GTAAAATAACCGTAATACCCCTGTA
1 GTAAAATGACCGTAATGCCCCTGTA
21975790 TGGCAAGATG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 21 0.31
27 47 0.69
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGG
Found at i:21975981 original size:27 final size:27
Alignment explanation
Indices: 21975941--21976013 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
21975931 ATGAAGTTCT
* * *
21975941 ATACTGATGACTATGTCAC-ATTCACTA
1 ATACTGGTGGCTATGCCACAATT-ACTA
* *
21975968 TTATTGGTGGCTATGCCACAATTACTA
1 ATACTGGTGGCTATGCCACAATTACTA
*
21975995 ATACTGGTGG-TTTGCCACA
1 ATACTGGTGGCTATGCCACA
21976014 TTTTCTTGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 8 0.22
27 26 0.70
28 3 0.08
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
ATACTGGTGGCTATGCCACAATTACTA
Found at i:21976282 original size:33 final size:33
Alignment explanation
Indices: 21976205--21976303 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 33
21976195 GCTTAGGCTC
*
21976205 ATACTGTTACTATATAAGGCTAAAGCCCAGACT
1 ATACTGTTACTGTATAAGGCTAAAGCCCAGACT
* * * * *
21976238 ATTCAGTTACTGTATAGGGCTAAGGCCTAGACT
1 ATACTGTTACTGTATAAGGCTAAAGCCCAGACT
* * *
21976271 ATACTGATACTGGATAAGGCCT-AGGCCCAGACT
1 ATACTGTTACTGTATAAGG-CTAAAGCCCAGACT
21976304 GTTACTGCAT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
33 51 0.96
34 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (33 bp):
ATACTGTTACTGTATAAGGCTAAAGCCCAGACT
Found at i:21979750 original size:27 final size:27
Alignment explanation
Indices: 21979663--21979761 Score: 90
Period size: 27 Copynumber: 3.7 Consensus size: 27
21979653 TATCGAAATG
* * * *
21979663 CCCCTGTAGGGTAAAATGAACGCAATC
1 CCCCTATATGGTAAAATGAACGTAATA
* * * * *
21979690 CCCCTATAAGCTTAAATGATCGTAATG
1 CCCCTATATGGTAAAATGAACGTAATA
** *
21979717 CTTCTATATGGTAAAATGACCGTAATA
1 CCCCTATATGGTAAAATGAACGTAATA
21979744 CCCCTATATGGTAAAATG
1 CCCCTATATGGTAAAATG
21979762 TCAATTATGC
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (27 bp):
CCCCTATATGGTAAAATGAACGTAATA
Found at i:21990190 original size:24 final size:24
Alignment explanation
Indices: 21990139--21990191 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
21990129 TAATTCTCTC
** *
21990139 TTAATTTTTAATTTTTTTAATTAG
1 TTAATTTTTAATTCATTGAATTAG
21990163 TTAATTTTTCAATTCATTGAATTA-
1 TTAATTTTT-AATTCATTGAATTAG
21990187 TTAAT
1 TTAAT
21990192 AATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTAATTTTTAATTCATTGAATTAG
Found at i:21992996 original size:235 final size:235
Alignment explanation
Indices: 21992585--21993056 Score: 854
Period size: 235 Copynumber: 2.0 Consensus size: 235
21992575 TAGTAGAGAG
* *
21992585 AAATTGCTACGATCAACATATGAAGACATAAATTAAGCTCAATGATTGCCGCTTAGTCTTGAATA
1 AAATTGCTACGATCAACAAATGAAGACATAAATTAAGCTCAATGATTGCAGCTTAGTCTTGAATA
*
21992650 AAGGAATAAAAATCAAATTTGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
66 AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
* *
21992715 TTTCTATTATAATAAGTAGCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
131 TTGCTATTATAATAAGTACCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
21992780 ATAATTTTAGGGAGAACGTTGTTCTGAAGGAGTTTTTCAA
196 ATAATTTTAGGGAGAACGTTGTTCTGAAGGAGTTTTTCAA
* *
21992820 AAATTGCTACGATCAACAAATGAAGACATAAATTAAGGTCAATGATTGCAGCTTAGTCTTGGATA
1 AAATTGCTACGATCAACAAATGAAGACATAAATTAAGCTCAATGATTGCAGCTTAGTCTTGAATA
* *
21992885 AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTATAAAAGCATTTAGTCTAAAAT
66 AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
21992950 TTGCTATTATAATAAGTACCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
131 TTGCTATTATAATAAGTACCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
*
21993015 ATAATTTTAGGGAGAATGTTGTTCTGAAGGAGTTTTTCAA
196 ATAATTTTAGGGAGAACGTTGTTCTGAAGGAGTTTTTCAA
21993055 AA
1 AA
21993057 GTGTTTTCGA
Statistics
Matches: 227, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
235 227 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (235 bp):
AAATTGCTACGATCAACAAATGAAGACATAAATTAAGCTCAATGATTGCAGCTTAGTCTTGAATA
AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
TTGCTATTATAATAAGTACCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
ATAATTTTAGGGAGAACGTTGTTCTGAAGGAGTTTTTCAA
Found at i:21998913 original size:27 final size:25
Alignment explanation
Indices: 21998868--21998944 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 25
21998858 GAAACCTCAA
* **
21998868 TTTGTAAAATTACTAAAATACACCCGG
1 TTTGTAAAATTAC-GAAATAC-CCAAG
21998895 TTTGTAAAATTATCGAAATATCCCAAG
1 TTTGTAAAATTA-CGAAATA-CCCAAG
21998922 TTTGTAAAATTACCGAAATACCC
1 TTTGTAAAATTA-CGAAATACCC
21998945 CTAAATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
26 3 0.07
27 39 0.89
28 2 0.05
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (25 bp):
TTTGTAAAATTACGAAATACCCAAG
Found at i:21998956 original size:27 final size:28
Alignment explanation
Indices: 21998899--21998972 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 28
21998889 ACCCGGTTTG
* * * *
21998899 TAAAATTATCGAAATATCCC-AAGTTTG
1 TAAAATTACCGAAATACCCCTAAGATTA
21998926 TAAAATTACCGAAATACCCCTAA-ATTA
1 TAAAATTACCGAAATACCCCTAAGATTA
* *
21998953 T-AAATTTCCAAAATACCCCT
1 TAAAATTACCGAAATACCCCT
21998973 GTAGTGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 17 0.43
27 21 0.52
28 2 0.05
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCCTAAGATTA
Found at i:21998994 original size:27 final size:26
Alignment explanation
Indices: 21998924--21999030 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 26
21998914 ATCCCAAGTT
* *
21998924 TGTAAAATTACCGAAATACCCCT-AAA
1 TGTAAAATTACC-AAATACCCCTGTAG
*
21998950 T-TATAAATTTCCAAAATACCCCTGTAG
1 TGTA-AAATTACC-AAATACCCCTGTAG
* *
21998977 TGTAAAATTACCACAATACCTCTCTAG
1 TGTAAAATTACCA-AATACCCCTGTAG
* *
21999004 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTA-CCAAATACCCCTGTAG
21999031 GGAANNNNNN
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
25 2 0.03
26 19 0.29
27 40 0.62
28 4 0.06
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
TGTAAAATTACCAAATACCCCTGTAG
Found at i:21999232 original size:27 final size:27
Alignment explanation
Indices: 21999197--21999327 Score: 108
Period size: 27 Copynumber: 4.9 Consensus size: 27
21999187 GCTTCCCAAG
21999197 TTTGTAAAATTACTGAAATACCCTCGA
1 TTTGTAAAATTACTGAAATACCCTCGA
* *
21999224 TTTGGAAAATTA-TCGAAATACCC-CCA
1 TTTGTAAAATTACT-GAAATACCCTCGA
** *
21999250 GTTTGTAAAATTACCAAAATACCCT-TA
1 -TTTGTAAAATTACTGAAATACCCTCGA
* * * *
21999277 TAGTGTAAAATTATTGAAATGCCCTTG-
1 T-TTGTAAAATTACTGAAATACCCTCGA
*
21999304 TAGTGTAAAATTACTGAAATACCC
1 T-TTGTAAAATTACTGAAATACCC
21999328 CTGTAGGAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 4 0.05
27 80 0.95
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCTCGA
Found at i:21999259 original size:54 final size:53
Alignment explanation
Indices: 21999195--21999327 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 53
21999185 ATGCTTCCCA
*
21999195 AGTTTGTAAAATTACTGAAATACCCTCGAT-TTGGAAAATTATCGAAATACCCCC
1 AGTTTGTAAAATTACTGAAATACCCT-GATAGTGGAAAATTATCGAAAT-CCCCC
** * * * * *
21999249 AGTTTGTAAAATTACCAAAATACCCTTATAGTGTAAAATTATTGAAATGCCCT
1 AGTTTGTAAAATTACTGAAATACCCTGATAGTGGAAAATTATCGAAATCCCCC
* *
21999302 TGTAGTGTAAAATTACTGAAATACCC
1 AGT-TTGTAAAATTACTGAAATACCC
21999328 CTGTAGGAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 7 0.11
54 58 0.89
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (53 bp):
AGTTTGTAAAATTACTGAAATACCCTGATAGTGGAAAATTATCGAAATCCCCC
Found at i:21999341 original size:27 final size:27
Alignment explanation
Indices: 21999256--21999339 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
21999246 CCCAGTTTGT
** * * *
21999256 AAAATTACCAAAATACCCTTATAGTGT
1 AAAATTACTGAAATACCCCTGTAGTGA
* * * *
21999283 AAAATTATTGAAATGCCCTTGTAGTGT
1 AAAATTACTGAAATACCCCTGTAGTGA
21999310 AAAATTACTGAAATACCCCTGTAG-GA
1 AAAATTACTGAAATACCCCTGTAGTGA
21999336 AAAA
1 AAAA
21999340 ATAACTGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGTGA
Found at i:21999748 original size:22 final size:23
Alignment explanation
Indices: 21999723--21999769 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
21999713 CCAACCTAAA
*
21999723 TATGGCTTTGTGCT-ATCTTATT
1 TATGGCTTTGTGCTAATCATATT
21999745 TATGGCTTTGTGCTAATCATATT
1 TATGGCTTTGTGCTAATCATATT
21999768 TA
1 TA
21999770 CCTGTGGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.51
Consensus pattern (23 bp):
TATGGCTTTGTGCTAATCATATT
Found at i:21999882 original size:32 final size:32
Alignment explanation
Indices: 21999834--21999896 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
21999824 CTCACGGTTG
*
21999834 TGTGTCGATCATATTACAGGTACTGATGGCTT
1 TGTGTCGATCAAATTACAGGTACTGATGGCTT
* * *
21999866 TGTGTCGGTCAAATTACCGTTACTGATGGCT
1 TGTGTCGATCAAATTACAGGTACTGATGGCT
21999897 ATAAGCCATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (32 bp):
TGTGTCGATCAAATTACAGGTACTGATGGCTT
Found at i:22003716 original size:27 final size:26
Alignment explanation
Indices: 22003653--22003890 Score: 233
Period size: 27 Copynumber: 8.9 Consensus size: 26
22003643 TAGACTCCAA
*
22003653 TTTGTAAAATTACCAAAATACCCCTG
1 TTTGTAAAATTACCAAAATACCCCAG
* *
22003679 TTTGTAAAATTATCGAAATACTCCCAG
1 TTTGTAAAATTACCAAAATAC-CCCAG
*
22003706 TTTGTAAAATTACTAAAATACCCCCAG
1 TTTGTAAAATTACCAAAATA-CCCCAG
*
22003733 TTTGTAAAATTACCAAAATACCTCTAG
1 TTTGTAAAATTACCAAAATACC-CCAG
* * ** **
22003760 TATATAAAATTACTGAAATACCCTTG
1 TTTGTAAAATTACCAAAATACCCCAG
* * * *
22003786 TAGTGTAAAATTACCTAAATACCCTTAA
1 T-TTGTAAAATTACCAAAATACCC-CAG
*
22003814 TTTGTAAAATTACTAAAATACCCCTAG
1 TTTGTAAAATTACCAAAATACCCC-AG
**
22003841 TTTGTAAAATTACCAAAATACCCTTG
1 TTTGTAAAATTACCAAAATACCCCAG
* *
22003867 TAGTATAAAATTACCAAAATACCC
1 T-TTGTAAAATTACCAAAATACCC
22003891 TTGTAGTGTA
Statistics
Matches: 176, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
26 27 0.15
27 146 0.83
28 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (26 bp):
TTTGTAAAATTACCAAAATACCCCAG
Found at i:22003891 original size:27 final size:27
Alignment explanation
Indices: 22003655--22003919 Score: 218
Period size: 27 Copynumber: 9.9 Consensus size: 27
22003645 GACTCCAATT
* *
22003655 TGTAAAATTACCAAAATACCCCTGT-T
1 TGTAAAATTACCAAAATACCCTTGTAG
* * ** *
22003681 TGTAAAATTATCGAAATACTCCCAGT-T
1 TGTAAAATTACCAAAATAC-CCTTGTAG
* ** *
22003708 TGTAAAATTACTAAAATACCCCCAGT-T
1 TGTAAAATTACCAAAATA-CCCTTGTAG
*
22003735 TGTAAAATTACCAAAATACCTCTAGTA-
1 TGTAAAATTACCAAAATACC-CTTGTAG
* **
22003762 TATAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* * *
22003789 TGTAAAATTACCTAAATACCCTT-AATT
1 TGTAAAATTACCAAAATACCCTTGTA-G
* * *
22003816 TGTAAAATTACTAAAATACCCCTAGT-T
1 TGTAAAATTACCAAAATA-CCCTTGTAG
22003843 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
*
22003870 TATAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* **
22003897 TGTAAAATTTCTGAAATACCCTT
1 TGTAAAATTACCAAAATACCCTT
22003920 ATAGGGCAAA
Statistics
Matches: 201, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
26 31 0.15
27 165 0.82
28 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:22003891 original size:81 final size:81
Alignment explanation
Indices: 22003651--22003892 Score: 317
Period size: 81 Copynumber: 3.0 Consensus size: 81
22003641 TTTAGACTCC
* ** *
22003651 AATTTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTATCGAAATACTCCCAGT-TTGTAAA
1 AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATAC-CCTTGTAGTGTAAA
* **
22003714 ATTACTAAAATACCCCC
65 ATTACCAAAATACCCTT
* * * * *
22003731 AGTTTGTAAAATTACCAAAATACCTCTAGTATATAAAATTACTGAAATACCCTTGTAGTGTAAAA
1 AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAA
*
22003796 TTACCTAAATACCCTT
66 TTACCAAAATACCCTT
* * *
22003812 AATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGTAGTATAAAA
1 AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAA
22003877 TTACCAAAATACCCTT
66 TTACCAAAATACCCTT
22003893 GTAGTGTAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 29 0.21
81 109 0.79
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.32
Consensus pattern (81 bp):
AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAA
TTACCAAAATACCCTT
Found at i:22003901 original size:54 final size:53
Alignment explanation
Indices: 22003657--22003919 Score: 244
Period size: 54 Copynumber: 4.9 Consensus size: 53
22003647 CTCCAATTTG
* * * * ** *
22003657 TAAAATTACCAAAATACCCCTGTTTGTAAAATTATCGAAATACTCCCAGT-TTG
1 TAAAATTACTAAAATACCCTTGTTTGTAAAATTACCAAAATAC-CCTTGTATTA
** *
22003710 TAAAATTACTAAAATACCCCCAGTTTGTAAAATTACCAAAATACCTCTAGTA-TA
1 TAAAATTACTAAAATA-CCCTTGTTTGTAAAATTACCAAAATACC-CTTGTATTA
* * * * *
22003764 TAAAATTACTGAAATACCCTTGTAGTGTAAAATTACCTAAATACCCTT-AATTTG
1 TAAAATTACTAAAATACCCTTGT-TTGTAAAATTACCAAAATACCCTTGTA-TTA
* *
22003818 TAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGTAGTA
1 TAAAATTACTAAAATA-CCCTTGTTTGTAAAATTACCAAAATACCCTTGTATTA
* * * **
22003872 TAAAATTACCAAAATACCCTTGTAGTGTAAAATTTCTGAAATACCCTT
1 TAAAATTACTAAAATACCCTTGT-TTGTAAAATTACCAAAATACCCTT
22003920 ATAGGGCAAA
Statistics
Matches: 174, Mismatches: 27, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.01
53 29 0.17
54 137 0.79
55 7 0.04
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
TAAAATTACTAAAATACCCTTGTTTGTAAAATTACCAAAATACCCTTGTATTA
Found at i:22008328 original size:81 final size:81
Alignment explanation
Indices: 22007979--22008302 Score: 621
Period size: 81 Copynumber: 4.0 Consensus size: 81
22007969 TTGATTAAGT
* *
22007979 TTTAATTAAATTTCTTTGGTTTTTGAACTATAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
1 TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
22008044 CTTTGGGATTTTCATG
66 CTTTGGGATTTTCATG
22008060 TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
1 TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
22008125 CTTTGGGATTTTCATG
66 CTTTGGGATTTTCATG
22008141 TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
1 TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
22008206 CTTTGGGATTTTCATG
66 CTTTGGGATTTTCATG
22008222 TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
1 TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
*
22008287 CTTTGGAATTTTCATG
66 CTTTGGGATTTTCATG
22008303 CATGCATAAT
Statistics
Matches: 240, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 240 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.51
Consensus pattern (81 bp):
TTTAATTAAATTTCTTTGGTTTTTGGACTACAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
CTTTGGGATTTTCATG
Found at i:22013158 original size:26 final size:26
Alignment explanation
Indices: 22013119--22013170 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
22013109 CGAGGCTCGT
22013119 ATAATGAAACAGATGCACTTTCTATC
1 ATAATGAAACAGATGCACTTTCTATC
*
22013145 ATAATGAAATAGATGCACTTTCTATC
1 ATAATGAAACAGATGCACTTTCTATC
22013171 TTACCCAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (26 bp):
ATAATGAAACAGATGCACTTTCTATC
Found at i:22033639 original size:38 final size:38
Alignment explanation
Indices: 22033588--22033663 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
22033578 GTCTCTGAGA
22033588 AAGTGATCAAGAGAACCACATCTAAGACACACACCGCT
1 AAGTGATCAAGAGAACCACATCTAAGACACACACCGCT
*
22033626 AAGTGATCAAGAGAACCACATCTAAGACACACCCCGCT
1 AAGTGATCAAGAGAACCACATCTAAGACACACACCGCT
22033664 CTTCATTCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.30, G:0.16, T:0.13
Consensus pattern (38 bp):
AAGTGATCAAGAGAACCACATCTAAGACACACACCGCT
Found at i:22037971 original size:40 final size:40
Alignment explanation
Indices: 22037887--22038107 Score: 211
Period size: 40 Copynumber: 5.5 Consensus size: 40
22037877 TTGAATGCTG
* * *
22037887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
22037926 ATCCGGAATAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22037967 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22038007 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTA-AAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TTACTAAT
**
22038047 TCCGGGTTAAGTCCCGAAGGCA-TTGTATGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22038085 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGTTAAGTCCCGAAGGCA
22038108 CTTGAACGAG
Statistics
Matches: 151, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.03
39 26 0.17
40 109 0.72
41 12 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:22046640 original size:29 final size:28
Alignment explanation
Indices: 22046592--22046663 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
22046582 TCATGAGATT
* *
22046592 GGCACTAAGTGTACGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
*
22046622 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
22046649 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
22046664 ACGGTTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.14
29 31 0.86
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:22046887 original size:174 final size:174
Alignment explanation
Indices: 22046622--22046949 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
22046612 AAATTGTACA
22046622 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
* * *
22046687 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
22046752 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
22046796 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
22046861 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
22046926 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
22046950 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:22054128 original size:29 final size:28
Alignment explanation
Indices: 22054092--22054169 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
22054082 TCATGAGATT
22054092 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
22054122 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
22054149 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
22054170 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:22054387 original size:174 final size:174
Alignment explanation
Indices: 22054122--22054449 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
22054112 AAATTGTACA
22054122 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
22054187 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
22054252 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
22054296 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
22054361 TGTGTGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
*
22054426 TTTTGGACAGTGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
22054450 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:22064735 original size:17 final size:17
Alignment explanation
Indices: 22064705--22064749 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
22064695 ACACATCACC
22064705 GGCACGAA-GCCTGCTA
1 GGCACGAAGGCCTGCTA
22064721 GGCACGAAGGCCTGCTA
1 GGCACGAAGGCCTGCTA
22064738 GGCACGAAGGCC
1 GGCACGAAGGCC
22064750 CAAATACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.24, C:0.31, G:0.36, T:0.09
Consensus pattern (17 bp):
GGCACGAAGGCCTGCTA
Found at i:22064740 original size:60 final size:60
Alignment explanation
Indices: 22064670--22064792 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 60
22064660 CCGGCATTAC
* *
22064670 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAG
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTACGCACGAAG
*
22064730 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTACGTACGAAG
1 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTACGCACGAAG
22064790 GCC
1 GCC
22064793 CGAATACACA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.28, C:0.34, G:0.27, T:0.11
Consensus pattern (60 bp):
GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTACGCACGAAG
Found at i:22064788 original size:43 final size:43
Alignment explanation
Indices: 22064721--22064841 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
22064711 AAGCCTGCTA
*
22064721 GGCACGAAGGCCTGCTAGGCACGAAGGCCCAAATACACATCACC
1 GGCACGAA-GCCTGCTACGCACGAAGGCCCAAATACACATCACC
* *
22064765 GGCACGAAGCCTGCTACGTACGAAGGCCCGAATACACATCACC
1 GGCACGAAGCCTGCTACGCACGAAGGCCCAAATACACATCACC
* * * *
22064808 GGCACGAAGCCTTCTAGGCCCGAAGGCCCGAATA
1 GGCACGAAGCCTGCTACGCACGAAGGCCCAAATA
22064842 TAATATCAGC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 62 0.89
44 8 0.11
ACGTcount: A:0.30, C:0.34, G:0.26, T:0.11
Consensus pattern (43 bp):
GGCACGAAGCCTGCTACGCACGAAGGCCCAAATACACATCACC
Found at i:22064890 original size:38 final size:38
Alignment explanation
Indices: 22064834--22064941 Score: 126
Period size: 38 Copynumber: 2.8 Consensus size: 38
22064824 GGCCCGAAGG
* * * * *
22064834 CCCGAATATAATATCAGCACTAGGCCTACGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
**
22064872 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
** *
22064910 CCCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTACGGG
22064942 TCTTTAAGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:22067762 original size:31 final size:31
Alignment explanation
Indices: 22067719--22067782 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22067709 CCTTTTCATA
22067719 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
22067750 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
22067781 TT
1 TT
22067783 ACTGTAACCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:22068022 original size:24 final size:24
Alignment explanation
Indices: 22067975--22068118 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
22067965 GCTTTATCAT
*
22067975 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
22068000 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
22068025 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
22068048 ATAACTAGGGCATAAACCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22068072 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22068096 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22068119 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
23 22 0.20
24 56 0.51
25 25 0.23
26 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22068195 original size:20 final size:20
Alignment explanation
Indices: 22068172--22068234 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
22068162 GAACATCTCG
22068172 TGTGCATATCATACATAGCA
1 TGTGCATATCATACATAGCA
22068192 TGTGCATATCATACAT-GTCA
1 TGTGCATATCATACATAG-CA
*
22068212 TGTGCATATCATACATATCA
1 TGTGCATATCATACATAGCA
22068232 TGT
1 TGT
22068235 TTTTCAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATAGCA
Found at i:22071045 original size:12 final size:13
Alignment explanation
Indices: 22071009--22071046 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
22070999 AAATATTTGA
22071009 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
22071022 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
22071036 CTTG-TCTTAAT
1 CTTGTTCTTAAT
22071047 ATTTTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:22079379 original size:25 final size:25
Alignment explanation
Indices: 22079350--22079397 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22079340 TTATAATATG
* * *
22079350 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22079375 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22079398 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22079448 original size:9 final size:9
Alignment explanation
Indices: 22079436--22079492 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22079426 TTTGATAAAC
22079436 ATGATATGT
1 ATGATATGT
*
22079445 ATGATATGCAC
1 ATGATATG--T
*
22079456 ATGACATGT
1 ATGATATGT
*
22079465 ATGATATGCAC
1 ATGATATG--T
22079476 ATGATATGT
1 ATGATATGT
22079485 ATGATATG
1 ATGATATG
22079493 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:22079459 original size:20 final size:20
Alignment explanation
Indices: 22079434--22079496 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
22079424 ATTTTGATAA
22079434 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
22079454 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
22079474 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22079494 ACA
1 ACA
22079497 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22079577 original size:24 final size:24
Alignment explanation
Indices: 22079550--22079669 Score: 138
Period size: 24 Copynumber: 5.0 Consensus size: 24
22079540 GAGGAAGTGC
*
22079550 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22079574 AAAAGGGCTTATGCCCCATTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
22079598 -AAAGGGTTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22079621 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
22079646 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
22079670 ATGATAAAAC
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
23 26 0.32
24 28 0.34
25 20 0.24
26 8 0.10
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:22079620 original size:47 final size:47
Alignment explanation
Indices: 22079551--22079648 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
22079541 AGGAAGTGCA
*
22079551 AAAGGGCTTATGCCCTAGTTATT-AAAAGGGCTTATGCCCCATTTATT
1 AAAGGGCTTATGCCCTAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
*
22079598 AAAGGGTTTATGCCCTAGTTATTAAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATT-AAAAAGGGCTTTGCCCCAGTTATT
22079646 AAA
1 AAA
22079649 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 22 0.47
48 15 0.32
49 10 0.21
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (47 bp):
AAAGGGCTTATGCCCTAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:22079897 original size:31 final size:31
Alignment explanation
Indices: 22079862--22079925 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22079852 CGGTTATAGT
22079862 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
22079893 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22079924 AA
1 AA
22079926 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22087532 original size:9 final size:9
Alignment explanation
Indices: 22087520--22087579 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
22087510 TTTTGATAAA
22087520 CATGATATG
1 CATGATATG
22087529 CATGATATG
1 CATGATATG
*
22087538 CACATGACATG
1 --CATGATATG
*
22087549 TATGATATG
1 CATGATATG
22087558 CACATGATATG
1 --CATGATATG
*
22087569 TATGATATG
1 CATGATATG
22087578 CA
1 CA
22087580 CACGAGATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 25 0.61
11 16 0.39
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (9 bp):
CATGATATG
Found at i:22087544 original size:20 final size:20
Alignment explanation
Indices: 22087519--22087581 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
22087509 ATTTTGATAA
*
22087519 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
*
22087539 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
22087559 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22087579 ACA
1 ACA
22087582 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22087664 original size:26 final size:25
Alignment explanation
Indices: 22087635--22087687 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
22087625 GAGGAAGTGC
*
22087635 AAAAGGGCTTATGCCCCAGTTATTAA
1 AAAAAGGCTT-TGCCCCAGTTATTAA
22087661 AAAAAGGCTTTGCCCCAGTTATTAA
1 AAAAAGGCTTTGCCCCAGTTATTAA
22087686 AA
1 AA
22087688 GAGGCCAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (25 bp):
AAAAAGGCTTTGCCCCAGTTATTAA
Found at i:22092233 original size:36 final size:36
Alignment explanation
Indices: 22092186--22092258 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
22092176 TTTAGACTAG
*
22092186 GGAAAGGGCACGGTTGTGGACTAAATCGAACTAATA
1 GGAAAGAGCACGGTTGTGGACTAAATCGAACTAATA
22092222 GGAAAGAGCACGGTTGTGGACTAAATCGAACTAATA
1 GGAAAGAGCACGGTTGTGGACTAAATCGAACTAATA
22092258 G
1 G
22092259 CCGTTTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (36 bp):
GGAAAGAGCACGGTTGTGGACTAAATCGAACTAATA
Found at i:22094901 original size:46 final size:46
Alignment explanation
Indices: 22094807--22095021 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 46
22094797 ATATCTGTGT
* * * *
22094807 CGATGCCATGTCCCAGACATGGTCTTATACTGAC-ACA-TCTCGTA-GC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTCAGTCTCG-AGGC
*
22094853 CGATGCATGTCCCAAACATGTCTTACACTGGCTTAAGTCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTTCAGTCTCGAGGC
* ** * * *
22094899 CGATGCATGTCCCAGAA-ATGTCTTACACTAGCACCCGTCTCAATGC
1 CGATGCATGTCCCA-AACATGTCTTACACTGGCTTCAGTCTCGAGGC
** * *
22094945 TAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA-TAAT-GTGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCAGT-CTCGAGGC
* *
22094993 CGATGCATGTCCTAGACATGTCTTACACT
1 CGATGCATGTCCCAAACATGTCTTACACT
22095022 AGCTCACACA
Statistics
Matches: 134, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 63 0.47
47 25 0.19
48 18 0.13
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTCAGTCTCGAGGC
Found at i:22102277 original size:40 final size:40
Alignment explanation
Indices: 22102177--22102348 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
22102167 GCTCCTCGTT
* * *
22102177 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
22102217 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
22102256 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
22102296 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
22102336 CAAATGCCTTCGG
1 CAAATGCCTTCGG
22102349 ATCTTAGTCT
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:22110687 original size:48 final size:48
Alignment explanation
Indices: 22110628--22110755 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 48
22110618 TATGTGTGCT
* **
22110628 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGAGA-CGAGAGCC
* * * * *
22110676 AGTGTAAGACATGTCTGGGACATGCA-CCG-GTGTTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGAGACGAGAGCC
22110722 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC
22110756 GCGATGGACA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.02
46 34 0.52
47 4 0.06
48 27 0.41
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGAGACGAGAGCC
Found at i:22115067 original size:42 final size:41
Alignment explanation
Indices: 22115008--22115121 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
22114998 AAGCTATTAA
* *
22115008 GATTTCGTATAACACCATATCTGGGATATGACCTCGGTATG
1 GATTTCGTATAAGACCATATCTGGGATATGACCTCGATATG
* ** * * *
22115049 TGATTTTGTATAAGACCATGCCTGGGACATGGCGTCGATATG
1 -GATTTCGTATAAGACCATATCTGGGATATGACCTCGATATG
* * *
22115091 GTATTTCATGTAAGACCATATCGGGGATATG
1 G-ATTTCGTATAAGACCATATCTGGGATATG
22115122 GAACTGAAAC
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
GATTTCGTATAAGACCATATCTGGGATATGACCTCGATATG
Found at i:22118170 original size:5 final size:5
Alignment explanation
Indices: 22118160--22118188 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22118150 TTTTTCTTGC
22118160 AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATT
22118189 ATTATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:22120097 original size:16 final size:16
Alignment explanation
Indices: 22120076--22120115 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
22120066 TGTTGAAAAA
22120076 GCACTAGCTATTTTAG
1 GCACTAGCTATTTTAG
22120092 GCACTAGCTATTTTAG
1 GCACTAGCTATTTTAG
*
22120108 GCGCTAGC
1 GCACTAGC
22120116 ATTAATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (16 bp):
GCACTAGCTATTTTAG
Found at i:22125030 original size:38 final size:38
Alignment explanation
Indices: 22124955--22125029 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
22124945 AGCTATGTTT
22124955 TGTTCTTAATAGTTAGTCTAACTTGTTCTTAAAAAAAA
1 TGTTCTTAATAGTTAGTCTAACTTGTTCTTAAAAAAAA
22124993 TGTTCTTAATAGTTA-TCTAACTTGTTCTTAAAAAAAA
1 TGTTCTTAATAGTTAGTCTAACTTGTTCTTAAAAAAAA
22125030 ACTATGTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 22 0.59
38 15 0.41
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (38 bp):
TGTTCTTAATAGTTAGTCTAACTTGTTCTTAAAAAAAA
Found at i:22125046 original size:36 final size:37
Alignment explanation
Indices: 22124971--22125046 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
22124961 TAATAGTTAG
** * **
22124971 TCTAACTTGTTCTTAAAAAAAATGTTCTTAATAGTTA
1 TCTAACTTGTTCTTAAAAAAAAACTTCGTAATACATA
22125008 TCTAACTTGTTCTTAAAAAAAAACTAT-GT-ATACATA
1 TCTAACTTGTTCTTAAAAAAAAACT-TCGTAATACATA
22125044 TCT
1 TCT
22125047 GTAATTTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
36 8 0.24
37 24 0.73
38 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (37 bp):
TCTAACTTGTTCTTAAAAAAAAACTTCGTAATACATA
Found at i:22129422 original size:27 final size:27
Alignment explanation
Indices: 22129324--22129531 Score: 122
Period size: 27 Copynumber: 7.7 Consensus size: 27
22129314 TTAGTTTACC
* * * **
22129324 AAATTACTAAAATACCCTTGTTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
***
22129351 AAATTACCAAAATA-CCCTCGATCAATA
1 AAATTACCAAAATACCCCT-GATTTGTA
*
22129378 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
22129405 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
* *
22129432 AAATTATCGAAAA-A-CCCTCGATTCGTA
1 AAATTA-CCAAAATACCCCT-GATTTGTA
* * **
22129459 AAA-TACTAAAATACCCTTG-TAGGGTA
1 AAATTACCAAAATACCCCTGAT-TTGTA
* * **
22129485 GAATTACTAAAATACCCCTG-TAGGGTA
1 AAATTACCAAAATACCCCTGAT-TTGTA
* *
22129512 GAATTACCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
22129532 TAGGGTAGAA
Statistics
Matches: 148, Mismatches: 25, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
25 6 0.04
26 16 0.11
27 117 0.79
28 9 0.06
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:22129517 original size:107 final size:107
Alignment explanation
Indices: 22129439--22129735 Score: 294
Period size: 107 Copynumber: 2.8 Consensus size: 107
22129429 GTGAAATTAT
* * *
22129439 CGAAAAACCCTCG-ATTCGTA-AAATACTAAAATACCCTTGTAGGGTAGAATTACTAAAATACCC
1 CGAAAAACCCTCGTA-ACGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTAC-AAAATACCC
*
22129502 CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAACTAC
64 CTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAACTAC
* * * **
22129546 CGAAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAATACCCCT
1 CGAAAAACCCTCGTAACGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACAAAATACCCCT
*** *
22129611 GTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTAC
66 GTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAACTAC
* * ** * * * * * * *
22129653 AGAAATACCC-CTGTAGGGTAGAATTATCGAAATACCCTTCTAGGGTAGAATTATCGAGATACCC
1 CGAAAAACCCTC-GTAACGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTA-CAAAATACCC
* * *
22129717 TTGTGGGGTAAAATTACCA
64 CTGTAGGGTAGAATTACCA
22129736 TTTTGCCCCT
Statistics
Matches: 158, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
107 106 0.67
108 52 0.33
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (107 bp):
CGAAAAACCCTCGTAACGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACAAAATACCCCT
GTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAACTAC
Found at i:22129532 original size:27 final size:27
Alignment explanation
Indices: 22129467--22129734 Score: 358
Period size: 27 Copynumber: 10.0 Consensus size: 27
22129457 TAAAATACTA
* **
22129467 AAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
22129494 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
22129521 AAATACCCCTGTAGGGTAGAACTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
22129548 AAATACCCTTGTAAGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
22129575 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
22129602 -AATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
22129628 AAATACCCCTGTAGGGTAGAATTACAG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
22129655 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
22129682 AAATACCCTTCTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
22129709 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
22129735 ATTTTGCCCC
Statistics
Matches: 215, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.11
27 191 0.89
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:22129606 original size:134 final size:134
Alignment explanation
Indices: 22129468--22129734 Score: 399
Period size: 134 Copynumber: 2.0 Consensus size: 134
22129458 AAAATACTAA
* *
22129468 AATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
1 AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACAGAAATACCCCTGT
* *
22129533 AGGGTAGAACTACCGAAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATT
66 AGGGTAGAACTACCGAAATACCCTTCTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAAAATT
22129598 ACCG
131 ACCG
* *
22129602 AATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCCTGT
1 AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACAGAAATACCCCTGT
* * * * * * * * *
22129667 AGGGTAGAATTATCGAAATACCCTTCTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAAAATT
66 AGGGTAGAACTACCGAAATACCCTTCTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAAAATT
22129732 ACC
131 ACC
22129735 ATTTTGCCCC
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 118 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (134 bp):
AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACAGAAATACCCCTGT
AGGGTAGAACTACCGAAATACCCTTCTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAAAATT
ACCG
Found at i:22131021 original size:55 final size:55
Alignment explanation
Indices: 22130934--22131190 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 55
22130924 ATTAGGGTTT
* *
22130934 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCCAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCCAAGGC
* * * * * **
22130989 AAGGAGATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGCTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGT-TTCCAAGGC
* *
22131044 AAAGG-T-CTCATGTAAGACCATG-CTAATG-CATGGC-ATTGGTGA-G-TTCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGTC-AA-GACATGGCAATTGGTAAGGTTTC-CAAGGC
*
22131097 AAGAATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTT-CAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCCAAGGC
* * *
22131146 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-CGGTAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGT
22131191 ACCCAAGTAT
Statistics
Matches: 166, Mismatches: 23, Indels: 31
0.75 0.10 0.14
Matches are distributed among these distances:
49 38 0.23
50 2 0.01
52 7 0.04
53 35 0.21
54 15 0.09
55 64 0.39
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCCAAGGC
Found at i:22132721 original size:93 final size:93
Alignment explanation
Indices: 22132611--22132781 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
22132601 GCCCATAAGT
* * *
22132611 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
22132676 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
22132704 GAACTCAGACTCAACTCAACGAGTTCGGACATTCACATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
22132769 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22132782 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Done.