Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 38
Found at i:535063 original size:11 final size:12
Alignment explanation
Indices: 535042--535088 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
535032 TCCGGATAAA
535042 AACCGGTTTTTT
1 AACCGGTTTTTT
535054 AACCGGTTTTTTT
1 AACCGG-TTTTTT
535067 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
535081 ATCCGGTT
1 AACCGGTT
535089 AAAAAACCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 13 0.42
13 6 0.19
14 6 0.19
15 6 0.19
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:535072 original size:15 final size:14
Alignment explanation
Indices: 535041--535080 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
535031 TTCCGGATAA
535041 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
535054 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
535067 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
535081 ATCCGGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:567235 original size:15 final size:14
Alignment explanation
Indices: 567164--567224 Score: 77
Period size: 14 Copynumber: 4.1 Consensus size: 14
567154 TTTGCTTAAA
*
567164 AAAATAAAAAAGTG
1 AAAATAAAAAAATG
*
567178 AAAAAAGAGAGAAAATG
1 AAAATA-A-A-AAAATG
567195 AAAATAAAAAAATG
1 AAAATAAAAAAATG
567209 AAAATAAAAAAATG
1 AAAATAAAAAAATG
567223 AA
1 AA
567225 TGTGAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
14 27 0.66
15 2 0.05
16 2 0.05
17 10 0.24
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (14 bp):
AAAATAAAAAAATG
Found at i:567251 original size:14 final size:14
Alignment explanation
Indices: 567180--567251 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
567170 AAAAAGTGAA
567180 AAAAGAGAGAAAATG
1 AAAAGAGA-AAAATG
* *
567195 AAAATAAAAAAATG
1 AAAAGAGAAAAATG
* *
567209 AAAATAAAAAAATG
1 AAAAGAGAAAAATG
* *
567223 -AATGTGAAAAA--
1 AAAAGAGAAAAATG
567234 AAAAGAGAAAAATG
1 AAAAGAGAAAAATG
567248 AAAA
1 AAAA
567252 AATGGAAGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
12 9 0.20
13 7 0.15
14 24 0.52
15 6 0.13
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (14 bp):
AAAAGAGAAAAATG
Found at i:567251 original size:18 final size:17
Alignment explanation
Indices: 567230--567345 Score: 51
Period size: 17 Copynumber: 6.5 Consensus size: 17
567220 ATGAATGTGA
567230 AAAAAAAAGAGAAAAATG
1 AAAAAAAAGAGAAAAA-G
567248 AAAAAATGGAAGA-AAAAATGG
1 AAAAAA---AAGAGAAAAA--G
* *
567269 AAAAAAATGA-AAGAATG
1 AAAAAAAAGAGAA-AAAG
* * *
567286 AGAATAAA-TGAAAAAG
1 AAAAAAAAGAGAAAAAG
*
567302 AAAAGAAAAAAG-AAAAG
1 AAAA-AAAAGAGAAAAAG
*
567319 AAAAAGAAAAAGAAAAAG
1 AAAAA-AAAGAGAAAAAG
567337 AAAATAAAA
1 AAAA-AAAA
567346 TAAAAGGGGG
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
16 7 0.09
17 26 0.34
18 24 0.32
19 3 0.04
20 5 0.07
21 11 0.14
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAAAAAAGAGAAAAAG
Found at i:567262 original size:12 final size:12
Alignment explanation
Indices: 567247--567275 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
567237 AGAGAAAAAT
567247 GAAAAAATGGAA
1 GAAAAAATGGAA
567259 GAAAAAATGGAA
1 GAAAAAATGGAA
567271 -AAAAA
1 GAAAAA
567276 TGAAAGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (12 bp):
GAAAAAATGGAA
Found at i:567304 original size:6 final size:6
Alignment explanation
Indices: 567295--567340 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
567285 GAGAATAAAT
567295 GAAAAA G-AAAA GAAAAA -AGAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GA-AAAA GAAAAA GAAAAA GAAAAA GAAAA
567341 TAAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 6 0.16
6 30 0.81
7 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:567325 original size:23 final size:23
Alignment explanation
Indices: 567295--567345 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
567285 GAGAATAAAT
567295 GAAAAAG-AAAAGAAAAAAGAAAA
1 GAAAAAGAAAAAG-AAAAAGAAAA
567318 GAAAAAGAAAAAGAAAAAGAAAA
1 GAAAAAGAAAAAGAAAAAGAAAA
*
567341 TAAAA
1 GAAAA
567346 TAAAAGGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (23 bp):
GAAAAAGAAAAAGAAAAAGAAAA
Found at i:568688 original size:37 final size:37
Alignment explanation
Indices: 568621--568735 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
568611 TCGAAACAAG
* * * *
568621 TCAATCTTAAGCATTCACGAAAGAGCAGTGAAGCAAT
1 TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
* *
568658 TCAATCTTAAGCCTTCATGGAATAGTAGTGAAGCAAA
1 TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
568695 TC-ATCTATAAGCCTTCACGGAAGAGTAGTGAAGCAGAA
1 TCAATCT-TAAGCCTTCACGGAAGAGTAGTGAAGCA-AA
568733 TCA
1 TCA
568736 TTTTATGAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 4 0.06
37 59 0.88
38 4 0.06
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (37 bp):
TCAATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAA
Found at i:568825 original size:55 final size:55
Alignment explanation
Indices: 568747--569104 Score: 450
Period size: 55 Copynumber: 6.5 Consensus size: 55
568737 TTTATGAAGA
* * * *
568747 TCGAGTCCTATTCTCTTTAAAGGAATAGGGAGTGGACACGTTTGTTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGT
* * *
568802 TCGAGTCGTATACTCTCTGAAGG-ATTGGGAGCGGACACATTTGTTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGT
* * * *
568856 TCGAGTCCTATACTCTATGAAGGAATAGGAAGCAGACACATTTGTTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGT
* *
568911 TCGAGTCCTATACTCTCTGAAAGAATAGGGAGTGGACACGTTTGTTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGT
* * *
568966 TCGAGTCATATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGCTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGT
* * * * ** * **
569021 TTGAGTCTTATACTCCCTGAACGAATAGGGAGCATACATGTTTACTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGT
* *
569076 TCGAGTCTTATACTCAT-TGAAAGAATAGG
1 TCGAGTCCTATACTC-TCTGAAGGAATAGG
569105 AAGAGGACTC
Statistics
Matches: 266, Mismatches: 35, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
54 49 0.18
55 217 0.82
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (55 bp):
TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATTGT
Found at i:569090 original size:165 final size:163
Alignment explanation
Indices: 568747--569104 Score: 509
Period size: 165 Copynumber: 2.2 Consensus size: 163
568737 TTTATGAAGA
* * *
568747 TCGAGTCCTATTCTCTTTAAAGGAATAGGGAGTGGACACGTTTGTTGAAGATTGTTCGAGTCGTA
1 TCGAGTCCTATACTCTTGAAA-GAATAGGGAGTGGACACGTTTGTTGAAGATTGTTCGAGTCATA
* * *
568812 TACTCTCTGAAGGATTGGGAGCGGACACATTTGTTGAAGATTGTTCGAGTCCTATACTCTATGAA
65 TACTCTCTGAAGGATAGGGAGCGGACACATTTGCTGAAGATTGTTCGAGTCCTATACTCCATGAA
* **
568877 GGAATAGGAAGCAGACACATTTGTTGAAGATTGT
130 CGAATAGGAAGCAGACACATTTACTGAAGATTGT
568911 TCGAGTCCTATACTCTCTGAAAGAATAGGGAGTGGACACGTTTGTTGAAGATTGTTCGAGTCATA
1 TCGAGTCCTATACTCT-TGAAAGAATAGGGAGTGGACACGTTTGTTGAAGATTGTTCGAGTCATA
* * * * *
568976 TACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGCTGAAGATTGTTTGAGTCTTATACTCCCTGA
65 TACTCTCTGAAGG-ATAGGGAGCGGACACATTTGCTGAAGATTGTTCGAGTCCTATACTCCATGA
* * **
569041 ACGAATAGGGAGCATACATGTTTACTGAAGATTGT
129 ACGAATAGGAAGCAGACACATTTACTGAAGATTGT
*
569076 TCGAGTCTTATACTCATTGAAAGAATAGG
1 TCGAGTCCTATACTC-TTGAAAGAATAGG
569105 AAGAGGACTC
Statistics
Matches: 172, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
164 70 0.41
165 101 0.59
166 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (163 bp):
TCGAGTCCTATACTCTTGAAAGAATAGGGAGTGGACACGTTTGTTGAAGATTGTTCGAGTCATAT
ACTCTCTGAAGGATAGGGAGCGGACACATTTGCTGAAGATTGTTCGAGTCCTATACTCCATGAAC
GAATAGGAAGCAGACACATTTACTGAAGATTGT
Found at i:572660 original size:29 final size:28
Alignment explanation
Indices: 572589--572660 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
572579 TTTAAAAAAA
** *
572589 TTAATGTGTTCCTTGTATTATGTTTTCTC
1 TTAATGTG-TCCTCATATTATATTTTCTC
* *
572618 TCAAAGTGTCCCTCATATTATATTTTCTC
1 TTAATGTGT-CCTCATATTATATTTTCTC
572647 TTAATGTGATCCTC
1 TTAATGTG-TCCTC
572661 CAACTCATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.50
Consensus pattern (28 bp):
TTAATGTGTCCTCATATTATATTTTCTC
Found at i:572793 original size:31 final size:31
Alignment explanation
Indices: 572755--572829 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
572745 TGTGGTGGAT
572755 AACATGACAGATGAGCTAAATTGACAACTCA
1 AACATGACAGATGAGCTAAATTGACAACTCA
572786 AACATGACAGATGAGCTAAATTGACAACTCA
1 AACATGACAGATGAGCTAAATTGACAACTCA
*
572817 AACATGGCAGATG
1 AACATGACAGATG
572830 GACTGTCACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (31 bp):
AACATGACAGATGAGCTAAATTGACAACTCA
Found at i:573694 original size:17 final size:17
Alignment explanation
Indices: 573664--573708 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
573654 CCGAGGTGTC
573664 ACATTGAC-TTTTCAAA
1 ACATTGACTTTTTCAAA
*
573680 ACATTGACTTTTTCATA
1 ACATTGACTTTTTCAAA
*
573697 ACATTTACTTTT
1 ACATTGACTTTT
573709 ATAAAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (17 bp):
ACATTGACTTTTTCAAA
Found at i:574314 original size:35 final size:35
Alignment explanation
Indices: 574240--574315 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
574230 ATTCATATCT
*
574240 ATATATATAATATATATATATATATATATATATAT
1 ATATATATAATATATATATATATATATATATATAC
574275 ATATATATAATATATATATATATATATATAT-TAAC
1 ATATATATAATATATATATATATATATATATAT-AC
574310 ATATAT
1 ATATAT
574316 TCATGTACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 1 0.03
35 38 0.97
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (35 bp):
ATATATATAATATATATATATATATATATATATAC
Found at i:574315 original size:2 final size:2
Alignment explanation
Indices: 574234--574305 Score: 121
Period size: 2 Copynumber: 37.0 Consensus size: 2
574224 ATTGATATTC
*
574234 AT AT CT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
574275 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
574306 TAACATATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 64 0.97
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:574765 original size:15 final size:13
Alignment explanation
Indices: 574719--574765 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
574709 CATTACACAT
574719 TCACATA-TTCATA
1 TCACATAGTTC-TA
*
574732 TCACATAGTTCTT
1 TCACATAGTTCTA
574745 TCACATAGCTCTCTA
1 TCACATAG-T-TCTA
574760 TCACAT
1 TCACAT
574766 TTCATATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 16 0.55
14 4 0.14
15 9 0.31
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.38
Consensus pattern (13 bp):
TCACATAGTTCTA
Found at i:575443 original size:20 final size:20
Alignment explanation
Indices: 575406--575463 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
575396 TTCCCCTTGA
*
575406 AGTGCATCGATACTTTCTAC
1 AGTGCATCGATACATTCTAC
*
575426 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
575449 ATGTGCATCGATACA
1 A-GTGCATCGATACA
575464 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:575539 original size:64 final size:63
Alignment explanation
Indices: 575451--575612 Score: 166
Period size: 64 Copynumber: 2.5 Consensus size: 63
575441 TCTTTAACAT
* * * *
575451 GTGCATCGATACACTACCCATGCATCGATACACAAA-TCACCTTCGATGTTTTCA-TTTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAACT-ACATTCGATGTTTCCATTTTTAA-GG
575514 G
63 G
* * * *
575515 GTGCATCGATGCACTCCTTATGCATCAATGCACTAACTACATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAACTACATTCGATGTTTCCATTTTTAAGGG
* * *
575579 GTGCATCGATGCACTTCATGTGTATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
575613 CTGAACAATT
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
63 2 0.03
64 69 0.86
65 9 0.11
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAACTACATTCGATGTTTCCATTTTTAAGGG
Found at i:578840 original size:15 final size:13
Alignment explanation
Indices: 578794--578840 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
578784 CATCACACAT
578794 TCACATA-TTCATA
1 TCACATAGTTC-TA
*
578807 TCACATAGTTCTT
1 TCACATAGTTCTA
578820 TCACATAGCTCTCTA
1 TCACATAG-T-TCTA
578835 TCACAT
1 TCACAT
578841 TTCATATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 16 0.55
14 4 0.14
15 9 0.31
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.38
Consensus pattern (13 bp):
TCACATAGTTCTA
Found at i:579528 original size:24 final size:20
Alignment explanation
Indices: 579475--579532 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
579465 TTCCCCTTGA
*
579475 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
579495 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
579518 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
579533 CTACCTATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:580689 original size:20 final size:20
Alignment explanation
Indices: 580647--580689 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
580637 TAAATAAACC
* * *
580647 AAAACAAATAAAGAGATATT
1 AAAACAAATAAACACATAAT
*
580667 AAAATAAATAAACACATAAT
1 AAAACAAATAAACACATAAT
580687 AAA
1 AAA
580690 TATTTATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAACAAATAAACACATAAT
Found at i:581502 original size:91 final size:91
Alignment explanation
Indices: 581347--581528 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
581337 GTAATTGTTC
581347 TTTGTTGATTGATGTCAACTCGACTCCTTACTTCACTTGCCCTTCTTTACCTACGTGTGAAAATC
1 TTTGTTGATTGATGTCAACTCGACTCCTTACTTCACTTGCCCTTCTTTACCTACGTGTGAAAATC
581412 ATCACACGATAAATATTCACTTAGTG
66 ATCACACGATAAATATTCACTTAGTG
581438 TTTGTTGATTGATGTCAACTCGACTCCTTACTTCACTTGCCCTTCTTTACCTACGTGTGAAAATC
1 TTTGTTGATTGATGTCAACTCGACTCCTTACTTCACTTGCCCTTCTTTACCTACGTGTGAAAATC
581503 ATCACACGATAAATATTCACTTAGTG
66 ATCACACGATAAATATTCACTTAGTG
581529 AGGCATTATA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (91 bp):
TTTGTTGATTGATGTCAACTCGACTCCTTACTTCACTTGCCCTTCTTTACCTACGTGTGAAAATC
ATCACACGATAAATATTCACTTAGTG
Found at i:581939 original size:19 final size:19
Alignment explanation
Indices: 581883--581940 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
581873 CACATTTCAG
* *
581883 AATTTATTTTCTGAATCAG
1 AATTTATTTTCAGAATCAT
* *
581902 AACTTATTTCCA-AATTCAT
1 AATTTATTTTCAGAA-TCAT
*
581921 AATTTATTTTCAGACTCAT
1 AATTTATTTTCAGAATCAT
581940 A
1 A
581941 GCTTACTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 2 0.07
19 27 0.90
20 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (19 bp):
AATTTATTTTCAGAATCAT
Found at i:581975 original size:19 final size:19
Alignment explanation
Indices: 581904--581980 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 19
581894 TGAATCAGAA
* *
581904 CTTATTTCCAAATTCATAA
1 CTTATTTTCAAATTCATAG
* * *
581923 TTTATTTTCAGACTCATAG
1 CTTATTTTCAAATTCATAG
* *
581942 CTTACTGTT-AGATTCATAG
1 CTTA-TTTTCAAATTCATAG
581961 CTTATTTTCAAATTCATAG
1 CTTATTTTCAAATTCATAG
581980 C
1 C
581981 CCAATGCATA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
18 3 0.07
19 40 0.87
20 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
CTTATTTTCAAATTCATAG
Found at i:586108 original size:17 final size:18
Alignment explanation
Indices: 586075--586110 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
586065 GTGTCATGTA
*
586075 TATGTGTGTTGATGTATG
1 TATGTGTGTTAATGTATG
586093 TATGTGT-TTAATGTATG
1 TATGTGTGTTAATGTATG
586110 T
1 T
586111 TTTCTCAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (18 bp):
TATGTGTGTTAATGTATG
Found at i:589210 original size:16 final size:16
Alignment explanation
Indices: 589189--589219 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
589179 TTATTATCCT
589189 TATTTTAATGAATGAA
1 TATTTTAATGAATGAA
*
589205 TATTTTAATGCATGA
1 TATTTTAATGAATGA
589220 TTTGGAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (16 bp):
TATTTTAATGAATGAA
Found at i:591495 original size:4 final size:4
Alignment explanation
Indices: 591486--591519 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
591476 ACCAAAGATG
*
591486 AAAT AAAT AAAT AAAT AAAT -AAC AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
591520 ACTCAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 25 0.93
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:593476 original size:51 final size:51
Alignment explanation
Indices: 593410--593529 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
593400 TTTGTATGTG
* * *
593410 CTTCTTTTCCTCTTTATTTGATGGGTTTTGGACTTCAATGACTTTGAGCAC
1 CTTCTTATCCTCTTTATTTGAAGGGTTTAGGACTTCAATGACTTTGAGCAC
* *
593461 CTTCTTATCCTCTTTATTTGAAGGGTTTAGGACTTCATTGGCTTTGAGCAC
1 CTTCTTATCCTCTTTATTTGAAGGGTTTAGGACTTCAATGACTTTGAGCAC
*
593512 CTTCTTGTCCTCTTTATT
1 CTTCTTATCCTCTTTATT
593530 GAAAGAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (51 bp):
CTTCTTATCCTCTTTATTTGAAGGGTTTAGGACTTCAATGACTTTGAGCAC
Found at i:594249 original size:33 final size:33
Alignment explanation
Indices: 594194--594275 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 33
594184 GACTTTATTT
* *
594194 CCTCAAAGATAGGTA-AAGGTATGAACTTGGGTG
1 CCTCAAAGAGAGGTAGTAGGTATG-ACTTGGGTG
** *
594227 CCTCAAAGAGAGGTAGTA-GTATGGGTTTGGTG
1 CCTCAAAGAGAGGTAGTAGGTATGACTTGGGTG
*
594259 CCTCAGAGAGAGGTAGT
1 CCTCAAAGAGAGGTAGT
594276 GTCAAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 22 0.52
33 19 0.45
34 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.24
Consensus pattern (33 bp):
CCTCAAAGAGAGGTAGTAGGTATGACTTGGGTG
Found at i:600536 original size:27 final size:28
Alignment explanation
Indices: 600497--600560 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
600487 GAAAGCACTG
*
600497 AAATACCCTTGAACTGTAAAAT-AACCA
1 AAATACCCCTGAACTGTAAAATGAACCA
* * *
600524 AAATACCCCTGAAGTGTGAAATGACCCA
1 AAATACCCCTGAACTGTAAAATGAACCA
600552 AAATACCCC
1 AAATACCCC
600561 CAAGCCCTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 19 0.59
28 13 0.41
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.19
Consensus pattern (28 bp):
AAATACCCCTGAACTGTAAAATGAACCA
Found at i:601638 original size:32 final size:32
Alignment explanation
Indices: 601597--601684 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
601587 TAAGGTGGCC
*
601597 TTGGGTAGGCTCTAAGGCCCCAAGGTACTTCA
1 TTGGGTAGGCTCTAAGGCCCCAAGGTACTCCA
* * *
601629 TTGGTTAGGCTCTTAA-GCCCTAAGGTACTCCC
1 TTGGGTAGGCTC-TAAGGCCCCAAGGTACTCCA
* *
601661 TTGGGTAGGCTTTCAGGCCCCAAG
1 TTGGGTAGGCTCTAAGGCCCCAAG
601685 ATAATCCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 2 0.04
32 41 0.89
33 3 0.07
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.27
Consensus pattern (32 bp):
TTGGGTAGGCTCTAAGGCCCCAAGGTACTCCA
Found at i:609178 original size:29 final size:30
Alignment explanation
Indices: 609145--609202 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
609135 GTTAGGGGGT
609145 GAATTTGAACTTATAAAATTTC-AATGGTC
1 GAATTTGAACTTATAAAATTTCAAATGGTC
609174 GAATTTGAACTTATAAAATTTCAAATGGT
1 GAATTTGAACTTATAAAATTTCAAATGGT
609203 GAAAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (30 bp):
GAATTTGAACTTATAAAATTTCAAATGGTC
Found at i:610545 original size:6 final size:6
Alignment explanation
Indices: 610534--610560 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
610524 AAAAAATATA
610534 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
610561 CATAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:612243 original size:11 final size:11
Alignment explanation
Indices: 612227--612251 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
612217 ATAATATATG
612227 TAATATCAATT
1 TAATATCAATT
612238 TAATATCAATT
1 TAATATCAATT
612249 TAA
1 TAA
612252 ATTTTGGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATATCAATT
Found at i:613058 original size:23 final size:23
Alignment explanation
Indices: 613023--613070 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
613013 TGTTGTTTAC
*
613023 TTCGTTTACGTTCATTTATTATG
1 TTCGATTACGTTCATTTATTATG
* *
613046 TTCGATTATGTTCATTTGTTATG
1 TTCGATTACGTTCATTTATTATG
613069 TT
1 TT
613071 TGTGCAGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.58
Consensus pattern (23 bp):
TTCGATTACGTTCATTTATTATG
Found at i:613132 original size:14 final size:14
Alignment explanation
Indices: 613115--613155 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
613105 ATTAATGTTT
*
613115 GTTTACGTTCGTTC
1 GTTTATGTTCGTTC
*
613129 GTTTATGTTGGTTC
1 GTTTATGTTCGTTC
*
613143 ATTTATGTTCGTT
1 GTTTATGTTCGTT
613156 TATCATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.10, C:0.12, G:0.22, T:0.56
Consensus pattern (14 bp):
GTTTATGTTCGTTC
Found at i:613596 original size:31 final size:31
Alignment explanation
Indices: 613558--613625 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
613548 TATGGCCAAG
* *
613558 ATACCTAAAGTGAT-ATCATTTATAATGTTAA
1 ATACCTAAAATGATAAT-ATTTATAACGTTAA
* *
613589 ATACCTAAAATGATAATGTTTGTAACGTTAA
1 ATACCTAAAATGATAATATTTATAACGTTAA
613620 ATACCT
1 ATACCT
613626 GGATGAGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (31 bp):
ATACCTAAAATGATAATATTTATAACGTTAA
Found at i:616792 original size:4 final size:4
Alignment explanation
Indices: 616783--616824 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
616773 TTATACAGTG
* *
616783 TATC TATC TATC TATC TACC TATC TATC TACC TATC TATC TA
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TA
616825 CCTGTCTGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (4 bp):
TATC
Found at i:616800 original size:12 final size:12
Alignment explanation
Indices: 616783--616827 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
616773 TTATACAGTG
*
616783 TATCTATCTATC
1 TATCTACCTATC
616795 TATCTACCTATC
1 TATCTACCTATC
616807 TATCTACCTATC
1 TATCTACCTATC
616819 TATCTACCT
1 TATCTACCT
616828 GTCTGTCTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.44
Consensus pattern (12 bp):
TATCTACCTATC
Found at i:616833 original size:4 final size:4
Alignment explanation
Indices: 616826--616858 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
616816 ATCTATCTAC
616826 CTGT CTGT CTGT CTGT C-GT CTGT CTGT CTGT CT
1 CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CT
616859 ATCTATCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.00, C:0.27, G:0.24, T:0.48
Consensus pattern (4 bp):
CTGT
Found at i:616848 original size:15 final size:15
Alignment explanation
Indices: 616828--616857 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
616818 CTATCTACCT
616828 GTCTGTCTGTCTGTC
1 GTCTGTCTGTCTGTC
616843 GTCTGTCTGTCTGTC
1 GTCTGTCTGTCTGTC
616858 TATCTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.27, G:0.27, T:0.47
Consensus pattern (15 bp):
GTCTGTCTGTCTGTC
Found at i:617091 original size:21 final size:21
Alignment explanation
Indices: 617011--617084 Score: 114
Period size: 21 Copynumber: 3.5 Consensus size: 21
617001 AATCCTATTA
*
617011 TAAACCTCAAATCATAAACTC
1 TAAACCTTAAATCATAAACTC
617032 TAAACCTTAAATCATAAACTC
1 TAAACCTTAAATCATAAACTC
617053 TACAA-CTTAAATCATAAACTC
1 TA-AACCTTAAATCATAAACTC
*
617074 TAAACCCTAAA
1 TAAACCTTAAA
617085 GCTTAAATCT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 45 0.92
22 2 0.04
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCTTAAATCATAAACTC
Found at i:617105 original size:28 final size:28
Alignment explanation
Indices: 617025--617112 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
617015 CCTCAAATCA
* * *
617025 TAAACTCTAAACCTTAAA-TCATAAACTC
1 TAAACT-TAAATCATAAACTCATAAACCC
617053 TACAACTTAAATCATAAACTC-TAAACCC
1 TA-AACTTAAATCATAAACTCATAAACCC
* * *
617081 TAAAGCTTAAATCTTATAC-CATAAATCC
1 TAAA-CTTAAATCATAAACTCATAAACCC
617109 TAAA
1 TAAA
617113 TTTCAACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 3 0.06
28 41 0.82
29 6 0.12
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (28 bp):
TAAACTTAAATCATAAACTCATAAACCC
Found at i:618259 original size:2 final size:2
Alignment explanation
Indices: 618252--618285 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
618242 TTCTATAATC
* *
618252 AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
618286 TTCTTCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:622746 original size:24 final size:23
Alignment explanation
Indices: 622713--622763 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
622703 TTATTTTTTA
622713 TATTTAATAAATTTAT-TACTATTT
1 TATTTAAT-AATTT-TGTACTATTT
* *
622737 TATTTCATAATTTTGTATTATTT
1 TATTTAATAATTTTGTACTATTT
622760 TATT
1 TATT
622764 ATTTAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTTAATAATTTTGTACTATTT
Found at i:623775 original size:3 final size:3
Alignment explanation
Indices: 623767--623800 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
623757 TTAATCATGT
*
623767 TTA TTA TTA TTA TTA TTG TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
623801 AATATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:623982 original size:2 final size:2
Alignment explanation
Indices: 623975--624020 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
623965 TTTTAATAAG
623975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
624017 AT AT
1 AT AT
624021 TAATTAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:630295 original size:16 final size:16
Alignment explanation
Indices: 630274--630308 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
630264 ATTTTGAGAA
630274 TTTGAGAGTTTTAAAG
1 TTTGAGAGTTTTAAAG
*
630290 TTTGAGAGTTTTATAG
1 TTTGAGAGTTTTAAAG
630306 TTT
1 TTT
630309 CATAGTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (16 bp):
TTTGAGAGTTTTAAAG
Found at i:630307 original size:24 final size:24
Alignment explanation
Indices: 630266--630354 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
630256 TATGAGTCAT
* *
630266 TTTGAGAATTTGAGAGTTTTAAAG
1 TTTGAGAGTTTGAGAGTTTCAAAG
* * *
630290 TTTGAGAGTTTTATAGTTTCATAG
1 TTTGAGAGTTTGAGAGTTTCAAAG
* *
630314 TTAGAGAGTTTGAGAATTT-AAGAG
1 TTTGAGAGTTTGAGAGTTTCAA-AG
* *
630338 TTTAAGAGATTGAGAGT
1 TTTGAGAGTTTGAGAGT
630355 CAGAGAATTA
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 1 0.02
24 49 0.98
ACGTcount: A:0.33, C:0.01, G:0.26, T:0.40
Consensus pattern (24 bp):
TTTGAGAGTTTGAGAGTTTCAAAG
Found at i:631510 original size:86 final size:88
Alignment explanation
Indices: 631409--631587 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 88
631399 GAAAAAAAAG
* *
631409 TATTGGTACCGAGGAGGAATCGATAACATAAGAGTGTAGTATAGGTAATAT-AGTGAGA-GTACC
1 TATTGGTACCGAGGAGGAATCGATAACATAAGAGTGTAATATAGGTAACATAAGTGAGATGTACC
631472 GATATAAGCAATTCGAACTCCAA
66 GATATAAGCAATTCGAACTCCAA
* * * **
631495 TATTGGTACCGAGGAGGAATCGATAACATAAGAGTGTAATATCGGTAACATAAGTTATATTGTTT
1 TATTGGTACCGAGGAGGAATCGATAACATAAGAGTGTAATATAGGTAACATAAGTGAGA-TGTAC
* *
631560 GGTTATAAGCAATTCGAACTCCAA
65 CGATATAAGCAATTCGAACTCCAA
631584 TATT
1 TATT
631588 CATATAAGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 48 0.59
87 5 0.06
89 28 0.35
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (88 bp):
TATTGGTACCGAGGAGGAATCGATAACATAAGAGTGTAATATAGGTAACATAAGTGAGATGTACC
GATATAAGCAATTCGAACTCCAA
Found at i:632432 original size:21 final size:21
Alignment explanation
Indices: 632294--632438 Score: 130
Period size: 21 Copynumber: 6.8 Consensus size: 21
632284 AGGGTTCTAC
632294 GTGGTCCTTCGAGG-CATATAT
1 GTGGTCCTTCG-GGACATATAT
* * * *
632315 GTGATCATTTGGAACATATAT
1 GTGGTCCTTCGGGACATATAT
** *
632336 ACGGTCCTTCGGGATATATAT
1 GTGGTCCTTCGGGACATATAT
* * *
632357 TTGGTCCTTTGGAACATATAT
1 GTGGTCCTTCGGGACATATAT
* *
632378 GTGGTCCTTAGGGACAAATCTAT
1 GTGGTCCTTCGGGAC--ATATAT
* *
632401 GTGGTCTTTCGAGACATATAT
1 GTGGTCCTTCGGGACATATAT
632422 GTGGTCCTTCGGGACAT
1 GTGGTCCTTCGGGACAT
632439 TTCTATACGG
Statistics
Matches: 95, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
20 1 0.01
21 77 0.81
23 17 0.18
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (21 bp):
GTGGTCCTTCGGGACATATAT
Found at i:635221 original size:6 final size:6
Alignment explanation
Indices: 632751--635219 Score: 4245
Period size: 6 Copynumber: 418.2 Consensus size: 6
632741 ATGAGCTATA
*
632751 TGTATA TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
632799 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
632847 TGTATGG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTAT-G TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
632896 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
632944 TGTATG TGTATG TGTATG TGTATG TGTATG TGTA-- TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
632990 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633038 TGTATG TG--TG TGTATG TGTATG TGTATG TGTATG TGTATG TGTA--
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633082 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633130 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633178 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
*
633226 TGTATG TGTATG TGTATG TGTATG TGTATG TGTAGG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633274 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633322 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633370 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
*
633418 TGTATG TGTATG TGTATG TGTATG TGTATG -GTATG TGTGTG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
*
633465 TGTA-- TGTATG TGTATG TGTATG TGTATG TGTGTG -GTA-- TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633508 TGTATG TGTATG TGTATG TGTA-- TGTATG TGTATG TGTA-- TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633552 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633600 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633648 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTA--
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633694 TGTATG TGTATG TG--TG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633740 TGTATG TGTATG TGTATG TGTATG TGTATG TGTA-G TGTATG TGTATGTG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTA--TG
633789 TGTATG TGTATG TGTATGG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTAT-G TGTATG TGTATG TGTATG TGTATG TGTATG
633838 TGTATG TGTA-- TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633884 TGTATG TGTA-- TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633930 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
633978 TGTATG TGTATG TGTA-- TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634024 TGTATG TGTA-- TGTATG TGTATG TGTATG -GTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634069 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG -GTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634116 TG--TG TGTATG TGTATG TGTATG TG-ATG TGTATG TGTATG -GTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634160 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* * * * * *
634208 TATATG TATGTATA TGTATA TGTATG TATGTATA TGTATA TGTATG TATGTATA
1 TGTATG --TGTATG TGTATG TGTATG --TGTATG TGTATG TGTATG --TGTATG
* * *
634262 TGTATA TGTATG TGTATG -GTATG TGTATG TGTATG TGTATG TATGTG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634309 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634357 TGTATG TGTATG TGTATG TGTATG TGTATGTG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTA--TG TGTATG TGTATG TGTATG
634407 TGTATG TGTATG -GTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634454 TGTATG TGTATG TGTATG TGTATG -GTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634501 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634549 TGTATG TGTATG TGTA-- TGTATG TGTATG TGTATG TGTA-- TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634593 TGTATGTG TGTATG TGTATG TGTATG TGTATG TGTATG TGTA-- TGTATG
1 TGTA--TG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634641 TGTATG TGTATG TGTATG TGTA-- TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634687 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634735 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634783 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TG--TG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634829 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634877 TG--TG TGTATG TGTATG TGTA-- TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634921 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
634969 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
635017 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
635065 TGTATG TGTATG TGTATG TGTATG TGTATG TGTA-- TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
635111 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* * * * * *
635159 TGTATG TGTATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
* *
635207 TATATG TATATG T
1 TGTATG TGTATG T
635220 ATGTATTTAT
Statistics
Matches: 2375, Mismatches: 20, Indels: 136
0.94 0.01 0.05
Matches are distributed among these distances:
4 87 0.04
5 47 0.02
6 2197 0.93
7 12 0.01
8 32 0.01
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:638437 original size:15 final size:14
Alignment explanation
Indices: 638401--638440 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
638391 AACAAATTAT
*
638401 AAGTTATATGATTC
1 AAGTTATGTGATTC
638415 AAGTTATGTGATTAC
1 AAGTTATGTGATT-C
*
638430 ACGTTATGTGA
1 AAGTTATGTGA
638441 GATGAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
AAGTTATGTGATTC
Found at i:638692 original size:21 final size:21
Alignment explanation
Indices: 638666--638806 Score: 120
Period size: 21 Copynumber: 6.6 Consensus size: 21
638656 TCGAGGGTTC
*
638666 TATGTGGTCCTTCGGGGCATA
1 TATGTGGTCCTTCGGGACATA
* * *
638687 TATGTGATCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATA
* ** *
638708 TATGCGGTTTTTCAGGACATA
1 TATGTGGTCCTTCGGGACATA
* * *
638729 TATTTGGTCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATA
* * *
638750 TATGTGGTCATTAGGGACAAATC
1 TATGTGGTCCTTCGGGAC--ATA
* *
638773 TATGTGGTCATTCGAGACATA
1 TATGTGGTCCTTCGGGACATA
638794 TATGTGGTCCTTC
1 TATGTGGTCCTTC
638807 CGAACATTTC
Statistics
Matches: 91, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
21 73 0.80
23 18 0.20
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACATA
Found at i:639137 original size:6 final size:6
Alignment explanation
Indices: 639131--639188 Score: 98
Period size: 6 Copynumber: 9.7 Consensus size: 6
639121 GGTTATATGT
* *
639131 ATGTGT ATGTGC ATGTGC ATGTGC ATGTGT ATGTGC ATGTGC ATGTGC
1 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
639179 ATGTGC ATGT
1 ATGTGC ATGT
639189 ATTTATGCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.17, C:0.12, G:0.33, T:0.38
Consensus pattern (6 bp):
ATGTGC
Found at i:642328 original size:33 final size:33
Alignment explanation
Indices: 642287--642354 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
642277 CTAAACCGTT
642287 AAGTTTTTAACATTGGGTACTAAAATGAAACAA
1 AAGTTTTTAACATTGGGTACTAAAATGAAACAA
* *
642320 AAGTTTTTAACTTTTGGTACTAAAATGAAACAA
1 AAGTTTTTAACATTGGGTACTAAAATGAAACAA
642353 AA
1 AA
642355 ATTGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (33 bp):
AAGTTTTTAACATTGGGTACTAAAATGAAACAA
Found at i:642396 original size:31 final size:32
Alignment explanation
Indices: 642336--642408 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
642326 TTAACTTTTG
*
642336 GTACTAAAATGAAACAAAAATTGAAAATTTAA
1 GTACTAAAATCAAACAAAAATTGAAAATTTAA
*
642368 GTACTAAAA-CAAACTAAAATT-AATAATTTAA
1 GTACTAAAATCAAACAAAAATTGAA-AATTTAA
*
642399 GTATTAAAAT
1 GTACTAAAAT
642409 ACGTAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.06
31 25 0.69
32 9 0.25
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (32 bp):
GTACTAAAATCAAACAAAAATTGAAAATTTAA
Found at i:646526 original size:6 final size:6
Alignment explanation
Indices: 646517--646559 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
646507 TTTTGCATCC
646517 GCATTT GCATCTTT GCATTTT GCATTT GCATTT GCATTT -CATT
1 GCATTT GCA--TTT GCA-TTT GCATTT GCATTT GCATTT GCATT
646560 CATTCAAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
5 4 0.12
6 18 0.53
7 6 0.18
8 6 0.18
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (6 bp):
GCATTT
Found at i:646543 original size:21 final size:19
Alignment explanation
Indices: 646517--646555 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
646507 TTTTGCATCC
646517 GCATTTGCATCTTTGCATTTT
1 GCATTTGCA--TTTGCATTTT
646538 GCATTTGCATTTGCATTT
1 GCATTTGCATTTGCATTT
646556 CATTCATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (19 bp):
GCATTTGCATTTGCATTTT
Found at i:649410 original size:26 final size:26
Alignment explanation
Indices: 649357--649410 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
649347 CTTTCTTAAG
* * *
649357 AAAAACTTTGAAATTGTTTCTCTTGA
1 AAAAACTTTGAAATCGTTTCCCTCGA
649383 AAAAACTTT-AAGATCGTTTCCCTCGA
1 AAAAACTTTGAA-ATCGTTTCCCTCGA
649409 AA
1 AA
649411 TGAATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (26 bp):
AAAAACTTTGAAATCGTTTCCCTCGA
Found at i:649483 original size:66 final size:66
Alignment explanation
Indices: 649388--649778 Score: 455
Period size: 66 Copynumber: 5.9 Consensus size: 66
649378 CTTGAAAAAA
* * * ** * *
649388 CTTTAAGATCGTTTCCCTCGAAATGAATTTTGTCTCTCTCGAGACAATTTCTCTTGAAACACCCA
1 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCA
649453 T
66 T
* * *
649454 CTTTGAGATTGTTTCCCTTGAAACAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA-TCA
1 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCA
649518 T
66 T
* * * * * * *
649519 CTTTGACATTATTTCCTTTGAAACAAATTTTATCCCTTTTGAGACAGATTCTCTTGAAACACCCA
1 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCA
649584 T
66 T
* ** ** * *
649585 ATTTGAGATCATTTCCCTTGAAATGAATTTTATCTCTCTTGAGACTGTTTCTCTTGAAACACCCA
1 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCA
649650 T
66 T
* * * * * *
649651 ATATGAGATAT-TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACACAT
1 CTTTGAGAT-TGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC-C
*
649715 TAT
64 CAT
649718 CTTTGAG-TATGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 CTTTGAGAT-TGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
649779 AATCCCTAAA
Statistics
Matches: 278, Mismatches: 43, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
65 56 0.20
66 168 0.60
67 54 0.19
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.39
Consensus pattern (66 bp):
CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCA
T
Found at i:649575 original size:131 final size:132
Alignment explanation
Indices: 649399--649778 Score: 437
Period size: 131 Copynumber: 2.9 Consensus size: 132
649389 TTTAAGATCG
* ** * * *
649399 TTTCCCTCGAAATGAATTTTGTCTCTCTCGAGACA-ATTTCTCTTGAAACACCCATCTTTGAGAT
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGA-TTCTCTTGAAACACCCATCTTTGAGAT
* * * * *
649463 TGTTTCCCTTGAAACAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA-TCATCTTTGACA
65 TGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACACCCATATATGACA
649527 T-T
130 TAT
* * *
649529 ATTTCCTTTGAAACAAATTTTATC-CCTTTTGAGACAGATTCTCTTGAAACACCCATATTTGAGA
1 -TTTCCCTTGAAACAAATTTTATCTCC-CTTGAGACAGATTCTCTTGAAACACCCATCTTTGAGA
** ** * *
649593 TCATTTCCCTTGAAATGAATTTTATCTCTCTTGAGACTGTTTCTCTTGAAACACCCATATATGAG
64 TTGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACACCCATATATGAC
649658 ATAT
129 ATAT
* * * * **
649662 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACACATTATCTTTGAG-T
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGATTCTCTTGAAACAC-CCATCTTTGAGAT
*
649726 ATGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
65 -TGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACA
649779 AATCCCTAAA
Statistics
Matches: 207, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
130 1 0.00
131 96 0.46
132 53 0.26
133 57 0.28
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.39
Consensus pattern (132 bp):
TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGATTCTCTTGAAACACCCATCTTTGAGATT
GTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACACCCATATATGACAT
AT
Found at i:649639 original size:197 final size:199
Alignment explanation
Indices: 649393--649778 Score: 555
Period size: 197 Copynumber: 1.9 Consensus size: 199
649383 AAAAACTTTA
* * * *
649393 AGATCGTTTCCCTCGAAATGAATTTTGTCTCTCTCGAGACAATTTCTCTTGAAACACCCATCTTT
1 AGATCATTTCCCTCGAAATGAATTTTATCTCTCTCGAGACAATTTCTCTTGAAACACCCATATAT
* *
649458 GAGAT-TGTTTCCCTTGAAACAAATTTTTTCTCCCTTGAGACAGTTTCTCTTG-AA-ACATCATC
66 GAGATAT-TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACACATCATC
* *
649520 TTTGACAT-TATTTCCTTTGAAACAAATTTTATCCCTTTTGAGACAGATTCTCTTGAAACACCCA
130 TTTGA-ATATATTTCCCTTGAAACAAATTTTATCCCTCTTGAGACAGATTCTCTTGAAACACCCA
649584 TATTTG
194 TATTTG
* * **
649590 AGATCATTTCCCTTGAAATGAATTTTATCTCTCTTGAGACTGTTTCTCTTGAAACACCCATATAT
1 AGATCATTTCCCTCGAAATGAATTTTATCTCTCTCGAGACAATTTCTCTTGAAACACCCATATAT
* *
649655 GAGATATTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACACATTATCT
66 GAGATATTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACACATCATCT
* * * * *
649720 TTGAGTATGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
131 TTGAATATATTTCCCTTGAAACAAATTTTATCCCTCTTGAGACAGATTCTCTTGAAACA
649779 AATCCCTAAA
Statistics
Matches: 166, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
197 104 0.63
198 4 0.02
199 58 0.35
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.39
Consensus pattern (199 bp):
AGATCATTTCCCTCGAAATGAATTTTATCTCTCTCGAGACAATTTCTCTTGAAACACCCATATAT
GAGATATTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACACATCATCT
TTGAATATATTTCCCTTGAAACAAATTTTATCCCTCTTGAGACAGATTCTCTTGAAACACCCATA
TTTG
Found at i:649780 original size:36 final size:36
Alignment explanation
Indices: 649662--649781 Score: 117
Period size: 36 Copynumber: 3.5 Consensus size: 36
649652 TATGAGATAT
* *
649662 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * * *
649698 TTTCTCTCGAAACACA---T-TATCT-TTGAGTA-TG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAG-ACAG
649729 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
649765 TTTCTCTTGAAACAAAT
1 TTTCCCTTGAAACAAAT
649782 CCCTAAATAT
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
31 19 0.30
32 4 0.06
33 1 0.02
34 1 0.02
35 5 0.08
36 34 0.53
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:650346 original size:13 final size:13
Alignment explanation
Indices: 650324--650362 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
650314 GGTCTACAAA
650324 ATTA-TTATTATT
1 ATTATTTATTATT
650336 ATTATTTATTATT
1 ATTATTTATTATT
*
650349 ATTGTTTACTTATT
1 ATTATTTA-TTATT
650363 TTCTTCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.17
13 15 0.62
14 5 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:651856 original size:5 final size:5
Alignment explanation
Indices: 651848--651872 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
651838 TTATGTTATG
651848 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
651873 CCTTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:652713 original size:5 final size:5
Alignment explanation
Indices: 652703--652733 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
652693 TAACTTAAAA
*
652703 ACCCG ACCCG ACCCG ACTCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG A
652734 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.55, G:0.19, T:0.03
Consensus pattern (5 bp):
ACCCG
Found at i:655876 original size:16 final size:15
Alignment explanation
Indices: 655849--655983 Score: 62
Period size: 16 Copynumber: 8.5 Consensus size: 15
655839 AGAAAAGGAA
655849 AAAATAAAATAAAAAT
1 AAAAT-AAATAAAAAT
655865 AATAATAAATAAATAA-
1 AA-AATAAATAAA-AAT
* *
655881 AACATTAAAGAAAAAT
1 AA-AATAAATAAAAAT
*
655897 AAAATTAAATATAAATT
1 AAAA-TAAATA-AAAAT
* *
655914 AAAGAGAGGA-AAAAAT
1 AAA-ATA-AATAAAAAT
*
655930 AAAATAAGA-AATAAGT
1 AAAATAA-ATAA-AAAT
* *
655946 -AAACAAATAATAAT
1 AAAATAAATAAAAAT
*
655960 AAAATAAATAAAATAG
1 AAAATAAATAAAA-AT
655976 AAAATAAA
1 AAAATAAA
655984 ATTTAATAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
14 3 0.03
15 25 0.28
16 45 0.51
17 14 0.16
18 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:655878 original size:14 final size:11
Alignment explanation
Indices: 655848--656028 Score: 65
Period size: 11 Copynumber: 16.2 Consensus size: 11
655838 GAGAAAAGGA
655848 AAAAATAAAAT
1 AAAAATAAAAT
655859 AAAAAT--AAT
1 AAAAATAAAAT
655868 AATAAAT-AAAT
1 AA-AAATAAAAT
* *
655879 AAAACATTAAAG
1 AAAA-ATAAAAT
655891 AAAAATAAAATT
1 AAAAATAAAA-T
* *
655903 AAATATAAATT
1 AAAAATAAAAT
* * **
655914 AAAGAGAGGA-
1 AAAAATAAAAT
655924 AAAAATAAAAT
1 AAAAATAAAAT
655935 AAGAAATAAGTAA-
1 AA-AAATAA--AAT
*
655948 ACAAATAATAAT
1 AAAAATAA-AAT
655960 -AAAAT-AAAT
1 AAAAATAAAAT
*
655969 AAAATAGAAAAT
1 AAAA-ATAAAAT
**
655981 -AAAATTTAAT
1 AAAAATAAAAT
*
655991 AAAAAGAAAGA-
1 AAAAATAAA-AT
656002 AAGATAATGAAAAT
1 AA-A-AAT-AAAAT
*
656016 AAAAACAAAAT
1 AAAAATAAAAT
656027 AA
1 AA
656029 TAAAAAGAGA
Statistics
Matches: 126, Mismatches: 25, Indels: 38
0.67 0.13 0.20
Matches are distributed among these distances:
9 8 0.06
10 20 0.16
11 51 0.40
12 35 0.28
13 5 0.04
14 7 0.06
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:655983 original size:21 final size:20
Alignment explanation
Indices: 655957--656033 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
655947 AACAAATAAT
655957 AATAAAATAAATAAAATAGAA
1 AATAAAAT-AATAAAATAGAA
655978 AATAAAATTTAATAAAA-AGAA
1 AATAAAA--TAATAAAATAGAA
*
655999 AGA-AAGATAATGAAAATA-AA
1 A-ATAAAATAAT-AAAATAGAA
*
656019 AACAAAATAATAAAA
1 AATAAAATAATAAAA
656034 AGAGAAGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
19 9 0.19
20 14 0.29
21 16 0.33
22 8 0.17
23 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (20 bp):
AATAAAATAATAAAATAGAA
Found at i:656034 original size:20 final size:20
Alignment explanation
Indices: 655950--656034 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
655940 ATAAGTAAAC
*
655950 AAATAATAATAAAATAA-ATA
1 AAATAAAAATAAAATAATA-A
655970 AAATAGAAAATAAAATTTAATAA
1 AAATA-AAAATAAAA--TAATAA
* * * *
655993 AAAGAAAGA-AAGATAATGA
1 AAATAAAAATAAAATAATAA
*
656012 AAATAAAAACAAAATAATAA
1 AAATAAAAATAAAATAATAA
656032 AAA
1 AAA
656035 GAGAAGAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
19 12 0.24
20 16 0.31
21 11 0.22
22 3 0.06
23 8 0.16
24 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAAAATAATAA
Found at i:656904 original size:28 final size:29
Alignment explanation
Indices: 656843--656905 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
656833 TATAAGGCTT
* *
656843 TATTTTGGTTGCTTGTGTTGTGGTTTTGG
1 TATTTTGGTTGCTTGTGTTGTGGTTGTGA
*
656872 T-TTTTTGTT-CTCTGTGTTGT-GTTGTGA
1 TATTTTGGTTGCT-TGTGTTGTGGTTGTGA
656899 TATTTTG
1 TATTTTG
656906 TGGCTCTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
27 8 0.29
28 19 0.68
29 1 0.04
ACGTcount: A:0.05, C:0.05, G:0.29, T:0.62
Consensus pattern (29 bp):
TATTTTGGTTGCTTGTGTTGTGGTTGTGA
Found at i:657625 original size:37 final size:37
Alignment explanation
Indices: 657520--657893 Score: 345
Period size: 37 Copynumber: 10.3 Consensus size: 37
657510 AAATTATATA
* *
657520 ATATA-TATAT-ATATTTCAAAAATATTTTT-AAACT
1 ATATATTATATAATTTTTCAAAAATGTTTTTAAAACT
* *
657554 ATATATTATAT--TTTTT--AAAACGTTTTCAAAACT
1 ATATATTATATAATTTTTCAAAAATGTTTTTAAAACT
657587 ATATATTATATAATTTTTCAAAAATGTTTTTAAAACT
1 ATATATTATATAATTTTTCAAAAATGTTTTTAAAACT
*
657624 ATATACTATATAATTTTTCAAAAAATGTTTTTAAAACT
1 ATATATTATATAATTTTTC-AAAAATGTTTTTAAAACT
*
657662 ATATACTATATAATTTTTCAAAAATGTTTTTAAAACT
1 ATATATTATATAATTTTTCAAAAATGTTTTTAAAACT
* *
657699 ATATATTATATAATTTTTCAAAAATATTTTCAAAAACT
1 ATATATTATATAATTTTTCAAAAATGTTTT-TAAAACT
* *
657737 ATATA-TATAT--GTTTTC--AAATGTTTTCAAAAACT
1 ATATATTATATAATTTTTCAAAAATGTTTT-TAAAACT
*
657770 ATATATTATAT-ATATTTT--AAAATGTTTTCAAAAACT
1 ATATATTATATAAT-TTTTCAAAAATGTTTT-TAAAACT
* ** *
657806 ATA-ATATATATAAATTTT-AGAAACCGTTTTTTGAAAATT
1 ATATAT-TATATAATTTTTCA-AAAATG-TTTTT-AAAACT
* * *
657845 ATATATTATAT--TTTATCAAAAATATTTTCAAAAACT
1 ATATATTATATAATTTTTCAAAAATGTTTT-TAAAACT
*
657881 ATATTACTATATA
1 ATA-TATTATATA
657894 TATATAATAA
Statistics
Matches: 291, Mismatches: 26, Indels: 42
0.81 0.07 0.12
Matches are distributed among these distances:
32 8 0.03
33 37 0.13
34 14 0.05
35 17 0.06
36 45 0.15
37 98 0.34
38 53 0.18
39 17 0.06
40 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (37 bp):
ATATATTATATAATTTTTCAAAAATGTTTTTAAAACT
Found at i:657666 original size:75 final size:71
Alignment explanation
Indices: 657520--657893 Score: 365
Period size: 75 Copynumber: 5.2 Consensus size: 71
657510 AAATTATATA
* * * *
657520 ATATATATAT-ATATTTCAAAAATATTTTT-AAACTATATATTATAT-TTTTT-AAAACGTTTTC
1 ATATATATATAATTTTTCAAAAATGTTTTTAAAACTATATATTATATATTTTTAAAAATGTTTTA
657581 AAAACT
66 AAAACT
*
657587 ATATATTATATAATTTTTCAAAAATGTTTTTAAAACTATATACTATATAATTTTTCAAAAAATGT
1 ATATA-TATATAATTTTTCAAAAATGTTTTTAAAACTATATATTATAT-ATTTTT--AAAAATGT
*
657652 TTTTAAAACT
62 TTTAAAAACT
*
657662 ATATACTATATAATTTTTCAAAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATATT
1 ATATA-TATATAATTTTTCAAAAATGTTTTTAAAACTATATATTATAT-ATTTTT-AAAAATGTT
657727 TTCAAAAACT
63 TT-AAAAACT
* *
657737 ATATATATAT--GTTTTC--AAATGTTTTCAAAAACTATATATTATATATATTTT-AAAATGTTT
1 ATATATATATAATTTTTCAAAAATGTTTT-TAAAACTATATATTATATAT-TTTTAAAAATGTTT
657797 TCAAAAACT
64 T-AAAAACT
* ** * * *
657806 ATAATATATATAAATTTT-AGAAACCGTTTTTTGAAAATTATATATTATAT-TTTATCAAAAATA
1 AT-ATATATATAATTTTTCA-AAAATG-TTTTT-AAAACTATATATTATATATTT-TTAAAAATG
657869 TTTTCAAAAACT
61 TTTT-AAAAACT
657881 ATATTACTATATA
1 ATA-TA-TATATA
657894 TATATAATAA
Statistics
Matches: 264, Mismatches: 20, Indels: 37
0.82 0.06 0.12
Matches are distributed among these distances:
67 5 0.02
68 5 0.02
69 36 0.14
70 34 0.13
71 21 0.08
72 14 0.05
73 2 0.01
74 21 0.08
75 120 0.45
76 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (71 bp):
ATATATATATAATTTTTCAAAAATGTTTTTAAAACTATATATTATATATTTTTAAAAATGTTTTA
AAAACT
Found at i:657911 original size:144 final size:142
Alignment explanation
Indices: 657618--657925 Score: 310
Period size: 144 Copynumber: 2.1 Consensus size: 142
657608 AAATGTTTTT
* *
657618 AAAACTATATACTATATA-ATTTTTCAAAAAATGTTTTTAAAACTATATACTATATAATTTTTCA
1 AAAACTATATA-TATATATATTTTT--AAAAATGTTTTAAAAACTATATACTATATAAATTTTCA
* *
657682 AAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATATTTTCAAAAACTATATATATAT
63 AAAACGTTTTTAAAACTATATATTATAT-ATTTATCAAAAATATTTTCAAAAACTATATATATAT
* * ****
657747 GTTTTCAAATGTTTTCA
127 ATTAT-AAATAAAATCA
657764 AAAACTATATAT-TATATATATTTT-AAAATGTTTTCAAAAACTATAATA-TATATAAATTTT-A
1 AAAACTATATATATATATAT-TTTTAAAAATGTTTT-AAAAACTAT-ATACTATATAAATTTTCA
* *
657825 GAAACCGTTTTTTGAAAATTATATATTATAT-TTTATCAAAAATATTTTCAAAAACTATAT-TAC
63 -AAAACG-TTTTT-AAAACTATATATTATATATTTATCAAAAATATTTTCAAAAACTATATATA-
657888 TATATATATATAATAAAAT-A
124 TATAT-TATA-AATAAAATCA
*
657908 AAAA-TATGTATATATATA
1 AAAACTATATATATATATA
657926 AAAAACAAAA
Statistics
Matches: 138, Mismatches: 13, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
143 19 0.14
144 71 0.51
145 17 0.12
146 31 0.22
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (142 bp):
AAAACTATATATATATATATTTTTAAAAATGTTTTAAAAACTATATACTATATAAATTTTCAAAA
ACGTTTTTAAAACTATATATTATATATTTATCAAAAATATTTTCAAAAACTATATATATATATTA
TAAATAAAATCA
Found at i:657929 original size:24 final size:26
Alignment explanation
Indices: 657890--657937 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
657880 TATATTACTA
657890 TATATATATAATAAAATA-AAAATATG
1 TATATATATAATAAAA-ACAAAATATG
657916 TATATATAT-A-AAAAACAAAATA
1 TATATATATAATAAAAACAAAATA
657938 ACTCCGGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 10 0.48
25 1 0.05
26 9 0.43
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
TATATATATAATAAAAACAAAATATG
Found at i:658741 original size:165 final size:165
Alignment explanation
Indices: 658426--659825 Score: 1308
Period size: 165 Copynumber: 8.5 Consensus size: 165
658416 TTTTATTGAT
* * ** * * * *
658426 AGATAACCCTTCTTGCCTTGAGCTATATTGTAAATTTGAGGTGCCTTTG-AGCTGAGTGTAATCG
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA--TGATGTGCCCTCGAAGCTGAGTGTAATCG
* * * * * ** * *
658490 AACTCGTAGGTCTTTGTTGACAGATAACCCCTT-TAGCATTGAGTTATG-TAATAAATGATATGC
64 AACTCGAAGGTCTTTG--G-CAGATAA-CCCTTCTTGCCTTAAGCTATGCT-GCAAATGATGTGT
* * * * * * *
658553 CTTTAAGCTGAACATAGTCGAACTCGAAGGTGTTTTGTTGGA
124 CGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* * * ** ** * *
658595 AAATATCCCTTTTTTCCTTGAAATATGTTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
* *
658660 CTCG-AGCGTCTTTGGCAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTAA
66 CTCGAAG-GTCTTTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGA
* * * *
658724 GCTGAGCATAGTCGAACTCAAAGATCTTTTGCTGGT
130 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* *
658760 AGATAACCTTTCTAGCCTTGAGTTATGCTGCAAATGTTGTGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
* * * * *
658825 CTCGAAGATCTTTGGCAGATAACCTTTATTGTCTTAAGCTATGCTGCAAATGATGTGCCGTTGAG
66 CTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAG
* *
658890 CTGAGCGTAGTCAAACTCAAAGGTATTTTGTTGGC
131 CTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* ** *
658925 AGATAACCCTTCTAGCCTTGAATTATGCTGCAAATTTTGTTCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
* * * *
658990 CTTGAGGGTCTTTGGAAGATAACCCTTATTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAG
66 CTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAG
* *
659055 CTGAGCGTAGTCAAACTCAAAGGTCCTTTGTTGGC
131 CTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* * * *
659090 AGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGTTATGCCCTCGAAGCTGAGTGTAATTGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
*
659155 CTCGAGGGTCTTTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAG
66 CTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAG
* ** *
659220 CTGAGCGTAGTGGAACTCAAATCTCCTTTGTTGGC
131 CTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* * * * * * ** *
659255 AGATAACCATTCTAGCCTTGAGTTATGCTGCAAATGATATGTCTTTG-AGCTGAGCGTTGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
* * * * * *
659319 CTCGAAGGTATTTTGGTGGCAAATAACTCTTCTAGCCTTGAGCTATGCTGCAAATGATGTG-CCT
66 CTCGAAGG--TCTT--TGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGT
** * *
659383 TGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGAC
127 T-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* * * * *
659423 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
* * * * * * *
659487 CTCGAAGGTCTTTGTTGACAGAT-A--------GCCTTGAGTTATACTACAAATGATATGCCTTT
66 CTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTT
* *
659543 GAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGC
128 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* * * * * * * * * *
659581 AAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
* * * * * *
659645 CTCGAAGGTCTTTGGTTGGCAGATAAACCTTCTAGCCTTGAGTTATGCTGCAAATGATATG-CCT
66 CTCGAAGGTC--T--TTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGT
* *
659709 TGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGC
127 T-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
* ** * * * * * * * *
659749 AAATAGTCCTTTTTGCCTTGAGTTATGTTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
*
659813 CTTGAAGGTCTTT
66 CTCGAAGGTCTTT
659826 TGTTGACATA
Statistics
Matches: 1069, Mismatches: 133, Indels: 63
0.85 0.11 0.05
Matches are distributed among these distances:
158 126 0.12
159 8 0.01
160 3 0.00
162 3 0.00
164 28 0.03
165 544 0.51
166 13 0.01
167 26 0.02
168 293 0.27
169 25 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (165 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAG
CTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGC
Found at i:658793 original size:84 final size:84
Alignment explanation
Indices: 658426--659851 Score: 1195
Period size: 84 Copynumber: 17.2 Consensus size: 84
658416 TTTTATTGAT
* * ** * * * *
658426 AGATAACCCTTCTTGCCTTGAGCTATATTGTAAATTTGAGGTG-CCTTTGAGCTGAGTGTAATCG
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA--TGATGTGTCC-TTGAGCTGAGCGTAGTCG
* *
658490 AACTCGTAGGTC-TTTGTTGAC
63 AACTCGAAGGTCTTTTGTTGGC
* ** * * * *
658511 AGATAACCCCTT-TAGCATTGAGTTATG-TAATAAATGATATG-CCTTTAAGCTGAACATAGTCG
1 AGATAA-CCCTTCTAGCCTTGAGTTATGCT-GCAAATGATGTGTCC-TTGAGCTGAGCGTAGTCG
* *
658573 AACTCGAAGGTGTTTTGTTGGA
63 AACTCGAAGGTCTTTTGTTGGC
* * * ** ** * * * * * *
658595 AAATATCCCTTTTTTCCTTGAAATATGTTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTG-AGCTGAGCGTAGTCGAA
658660 CTCG-AGCGTC---T-TTGGC
65 CTCGAAG-GTCTTTTGTTGGC
* * * * * * *
658676 AGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTAAGCTGAGCATAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTGAGCTGAGCGTAGTCGAAC
* * * *
658741 TCAAAGATCTTTTGCTGGT
66 TCGAAGGTCTTTTGTTGGC
* * * * * *
658760 AGATAACCTTTCTAGCCTTGAGTTATGCTGCAAATGTTGTGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTG-AGCTGAGCGTAGTCGAA
*
658825 CTCGAAGATC---T-TTGGC
65 CTCGAAGGTCTTTTGTTGGC
* * * * * * *
658841 AGATAACCTTTATTGTCTTAAGCTATGCTGCAAATGATGTG-CCGTTGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCC-TTGAGCTGAGCGTAGTCGAA
* *
658905 CTCAAAGGTATTTTGTTGGC
65 CTCGAAGGTCTTTTGTTGGC
* ** * * *
658925 AGATAACCCTTCTAGCCTTGAATTATGCTGCAAATTTTGT-TCCCTCGAAGCTGAGTGTAATCGA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGT-CCTTG-AGCTGAGCGTAGTCGA
* * *
658989 ACTTGAGGGTC---T-TTGGA
64 ACTCGAAGGTCTTTTGTTGGC
* * * * * *
659006 AGATAACCCTTATTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTGAGCGTAGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTGAGCTGAGCGTAGTCGAAC
* *
659071 TCAAAGGTCCTTTGTTGGC
66 TCGAAGGTCTTTTGTTGGC
* * * * * * * *
659090 AGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGTTATGCCCTCGAAGCTGAGTGTAATTGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTG-AGCTGAGCGTAGTCGAA
*
659155 CTCGAGGGTC---T-TTGGC
65 CTCGAAGGTCTTTTGTTGGC
* * * * *
659171 AGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTGAGCGTAGTGGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTGAGCTGAGCGTAGTCGAAC
* ** *
659236 TCAAATCTCCTTTGTTGGC
66 TCGAAGGTCTTTTGTTGGC
* * * * *
659255 AGATAACCATTCTAGCCTTGAGTTATGCTGCAAATGATATGTCTTTGAGCTGAGCGTTGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTGAGCTGAGCGTAGTCGAAC
* *
659320 TCGAAGGTATTTTGGTGGC
66 TCGAAGGTCTTTTGTTGGC
* * *
659339 AAATAACTCTTCTAGCCTTGAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTT-GAGCTGAGCGTAGTCGAA
* * *
659403 CTTGAAGGTCTTTGGTTGAC
65 CTCGAAGGTCTTTTGTTGGC
*
659423 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTT-GAGCTGAGCGTAGTCGAA
*
659487 CTCGAAGGTC-TTTGTTGAC
65 CTCGAAGGTCTTTTGTTGGC
* * * *
659506 AG---A------TAGCCTTGAGTTATACTACAAATGATATG-CCTTTGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCC-TTGAGCTGAGCGTAGTCGAA
659561 CTCGAAGGTCTTTTGTTGGC
65 CTCGAAGGTCTTTTGTTGGC
* * * * * *
659581 AAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTT-GAGCTGAGCGTAGTCGAA
*
659645 CTCGAAGGTCTTTGGTTGGC
65 CTCGAAGGTCTTTTGTTGGC
* * *
659665 AGATAAACCTTCTAGCCTTGAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCATAGTCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTT-GAGCTGAGCGTAGTCGAA
659729 CTCGAAGGTCTTTTGTTGGC
65 CTCGAAGGTCTTTTGTTGGC
* ** * * * *
659749 AAATAGTCCTTTTTGCCTTGAGTTATGTTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTT-GAGCTGAGCGTAGTCGAA
* *
659813 CTTGAAGGTCTTTTGTTGAC
65 CTCGAAGGTCTTTTGTTGGC
* *
659833 ATATAATCCTTCTAGCCTT
1 AGATAACCCTTCTAGCCTT
659852 TAGTAATGAT
Statistics
Matches: 1080, Mismatches: 216, Indels: 91
0.78 0.16 0.07
Matches are distributed among these distances:
74 56 0.05
75 11 0.01
80 84 0.08
81 163 0.15
82 5 0.00
83 55 0.05
84 592 0.55
85 109 0.10
86 5 0.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (84 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCCTTGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTTGTTGGC
Found at i:661116 original size:95 final size:95
Alignment explanation
Indices: 660978--661178 Score: 285
Period size: 95 Copynumber: 2.1 Consensus size: 95
660968 TATTGTATAG
* * * *
660978 ATATTATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCATAGCGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATACATAAAGCCAGAGCATTTAACCAATT
* *
661043 GTTCTAGAGGGACAACTAAAGCTTTATTGT
66 GCTCAAGAGGGACAACTAAAGCTTTATTGT
* * * *
661073 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATACATAAAGCCGGGGTATTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATACATAAAGCCAGAGCATTTAACCAATT
* *
661138 GCTCAAGAGGGACAGCTCAAGCTTTATTGT
66 GCTCAAGAGGGACAACTAAAGCTTTATTGT
661168 ATATATATAAT
1 ATAT-TATAAT
661179 ATTATAATCT
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 87 0.94
96 6 0.06
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (95 bp):
ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATACATAAAGCCAGAGCATTTAACCAATT
GCTCAAGAGGGACAACTAAAGCTTTATTGT
Found at i:664627 original size:16 final size:16
Alignment explanation
Indices: 664587--664747 Score: 52
Period size: 16 Copynumber: 10.2 Consensus size: 16
664577 AGAAAAGGAA
* *
664587 AAAATAAAATAATAAT
1 AAAATTAAATAAAAAT
664603 AATAA-TAAATAAATAA-
1 AA-AATTAAATAAA-AAT
* *
664619 AAAGTTAAAGAAAAAT
1 AAAATTAAATAAAAAT
*
664635 AAAATTAAATATAAAT
1 AAAATTAAATAAAAAT
* * * **
664651 TAAA-GATAGGAAAA-
1 AAAATTAAATAAAAAT
*
664665 AAAA-GAAATAAGTAAA-
1 AAAATTAAATAA--AAAT
*
664681 AAAATAAGAATAAAAAT
1 AAAATTA-AATAAAAAT
* * *
664698 -AAATAAAATAGAACT
1 AAAATTAAATAAAAAT
* *
664713 AAAATTCAATAAAAAG
1 AAAATTAAATAAAAAT
664729 AAAGA-T-AATAAAAAT
1 AAA-ATTAAATAAAAAT
664744 AAAA
1 AAAA
664748 AAAAATAATA
Statistics
Matches: 108, Mismatches: 26, Indels: 24
0.68 0.16 0.15
Matches are distributed among these distances:
14 8 0.07
15 26 0.24
16 63 0.58
17 6 0.06
18 5 0.05
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.20
Consensus pattern (16 bp):
AAAATTAAATAAAAAT
Found at i:664707 original size:21 final size:20
Alignment explanation
Indices: 664586--664763 Score: 71
Period size: 21 Copynumber: 8.3 Consensus size: 20
664576 GAGAAAAGGA
* *
664586 AAAAATAAAATAATAATAAT
1 AAAAATAAAAAAATAAGAAT
* *
664606 AATAAATAAATAAA-AAGTTAAAG
1 AA-AAATAAAAAAATAAG---AAT
664629 AAAAATAAAATTAAATATA-AATT
1 AAAAATAAAA--AAATA-AGAA-T
*
664652 AAAGATAGGAAAAAA-AAGAA-
1 AAAAATA--AAAAAATAAGAAT
* *
664672 ATAAGTAAAAAAATAAGAAT
1 AAAAATAAAAAAATAAGAAT
664692 AAAAATAAATAAAAT-AGAACT
1 AAAAATAAA-AAAATAAGAA-T
* *
664713 AAAATTCAATAAAAAGAAAGATAAT
1 AAAAAT-AA-AAAAA-TAAG--AAT
*
664738 AAAAATAAAAAAA-AATAAT
1 AAAAATAAAAAAATAAGAAT
664757 AAAAATA
1 AAAAATA
664764 GAAGAATTAC
Statistics
Matches: 120, Mismatches: 16, Indels: 45
0.66 0.09 0.25
Matches are distributed among these distances:
18 6 0.05
19 15 0.12
20 19 0.16
21 23 0.19
22 18 0.15
23 19 0.16
24 7 0.06
25 10 0.08
26 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAAATAAAAAAATAAGAAT
Found at i:664747 original size:31 final size:31
Alignment explanation
Indices: 664689--664747 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
664679 AAAAAATAAG
* * * *
664689 AATAAAAATAAATAAAATAGAACTAAAATTC
1 AATAAAAAGAAAGAAAATAAAAATAAAATTC
*
664720 AATAAAAAGAAAGATAATAAAAATAAAA
1 AATAAAAAGAAAGAAAATAAAAATAAAA
664748 AAAAATAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (31 bp):
AATAAAAAGAAAGAAAATAAAAATAAAATTC
Found at i:664754 original size:16 final size:16
Alignment explanation
Indices: 664592--664755 Score: 55
Period size: 17 Copynumber: 9.6 Consensus size: 16
664582 AGGAAAAAAT
* *
664592 AAAATAATAATAATAA
1 AAAAAAATAAAAATAA
*
664608 TAAATAAATAAAAAGTTAA
1 -AAAAAAATAAAAA--TAA
* *
664627 AGAAAAATAAAATTAA
1 AAAAAAATAAAAATAA
* * * *
664643 ATATAAATTAAAGATAGG
1 A-AAAAAATAAAAATA-A
*
664661 AAAAAAA-AGAAATAA
1 AAAAAAATAAAAATAA
*
664676 GTAAAAAAATAAGAATAA
1 --AAAAAAATAAAAATAA
*
664694 AAATAAAT-AAAATAGA
1 AAAAAAATAAAAATA-A
*
664710 ACTAAAATTCAATAAAAA-GA
1 A--AAAA---AATAAAAATAA
* *
664730 AAGATAATAAAAATAA
1 AAAAAAATAAAAATAA
664746 AAAAAAATAA
1 AAAAAAATAA
664756 TAAAAATAGA
Statistics
Matches: 104, Mismatches: 28, Indels: 31
0.64 0.17 0.19
Matches are distributed among these distances:
15 13 0.12
16 27 0.26
17 30 0.29
18 22 0.21
19 3 0.03
20 2 0.02
21 3 0.03
22 4 0.04
ACGTcount: A:0.73, C:0.01, G:0.07, T:0.20
Consensus pattern (16 bp):
AAAAAAATAAAAATAA
Found at i:664757 original size:19 final size:21
Alignment explanation
Indices: 664720--664763 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
664710 ACTAAAATTC
664720 AATAAAAAGAAAGATAATAAA
1 AATAAAAAGAAAGATAATAAA
664741 AATAAAAA-AAA-ATAATAAA
1 AATAAAAAGAAAGATAATAAA
664760 AATA
1 AATA
664764 GAAGAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 12 0.52
20 3 0.13
21 8 0.35
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (21 bp):
AATAAAAAGAAAGATAATAAA
Found at i:665643 original size:33 final size:33
Alignment explanation
Indices: 665580--665644 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
665570 TTTTTGTTGC
* *
665580 TTGTGTTGTGGTTTTGGTTTTTGGTTCTCTGTG
1 TTGTGTTGTGGTTGTGGTTTTTGGTGCTCTGTG
665613 TTGTGTTGT-GTTGTGGTATTTT-GTGGCTCTGT
1 TTGTGTTGTGGTTGTGGT-TTTTGGT-GCTCTGT
665645 TGGCTTACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.02, C:0.06, G:0.34, T:0.58
Consensus pattern (33 bp):
TTGTGTTGTGGTTGTGGTTTTTGGTGCTCTGTG
Found at i:673249 original size:38 final size:36
Alignment explanation
Indices: 673121--673591 Score: 357
Period size: 37 Copynumber: 13.0 Consensus size: 36
673111 TATATAATAT
* *
673121 TTTTCAAAAATATTTT-TAAACTATATATTATAT--
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATAA
* * **
673154 TTTTTAAAAAAGTTTTCGAAAC--TATATTAT-T-A
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATAA
* ** *
673186 GTTTCAAAAATGACTTAAAAA-TAT-TA-TATA-AG
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATAA
*
673218 TTTTCCAAAAATGTTTTTAAAACTATATATTATATAA
1 TTTT-CAAAAATGTTTTAAAAACTATATATTATATAA
* *
673255 TTTTTCAAAAATGTTTTTTAAAACTATATACTATATAA
1 -TTTTCAAAAATG-TTTTAAAAACTATATATTATATAA
* * *
673293 TTTTTAAAAAATGTTTTTAAAACTATATACTATATAA
1 -TTTTCAAAAATGTTTTAAAAACTATATATTATATAA
*
673330 TTTTTCAAAAATGTTTTTAAAACTATATATTATATAAA
1 -TTTTCAAAAATGTTTTAAAAACTATATATTATAT-AA
** *
673368 TTTTTTAAAATGTTTTCAAAAACTATATATTATATGAG
1 TTTTCAAAAATGTTTT-AAAAACTATATATTATAT-AA
*
673406 TTTTC--AAATGATTTTAAAAACTATATAATATATAAA
1 TTTTCAAAAATG-TTTTAAAAACTATATATTATAT-AA
* *
673442 TGTTTTC-AAAATGTTTTCAAAACTCTATATTATATATA
1 --TTTTCAAAAATGTTTTAAAAACTATATATTATATA-A
*
673480 TTTT-AAAAATGTTTTCAAAAACTACA-ATATATATAAA
1 TTTTCAAAAATGTTTT-AAAAACTATATAT-TATAT-AA
** * *
673517 TTTTCGAAAACCGGTTTATGAAAATTATATATTATAT--
1 TTTTC-AAAA-ATGTTT-TAAAAACTATATATTATATAA
*
673554 TTTGTCAAAAATATTTTCAAAAACTATATATATATATA
1 TTT-TCAAAAATGTTTT-AAAAACTATATAT-TATATA
673592 TACAAAATAA
Statistics
Matches: 359, Mismatches: 46, Indels: 61
0.77 0.10 0.13
Matches are distributed among these distances:
31 4 0.01
32 27 0.08
33 28 0.08
34 7 0.02
35 3 0.01
36 57 0.16
37 114 0.32
38 91 0.25
39 9 0.03
40 16 0.04
41 3 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (36 bp):
TTTTCAAAAATGTTTTAAAAACTATATATTATATAA
Found at i:673309 original size:75 final size:73
Alignment explanation
Indices: 673117--673589 Score: 417
Period size: 75 Copynumber: 6.5 Consensus size: 73
673107 AAATTATATA
* * * **
673117 ATATTTTTCAAAAATATTTTT--AAACTATATAT-TAT-ATTTTTTAAAAAAGTTTTCGAAAC--
1 ATATTTTTCAAAAATGTTTTTAAAAACTATATATATATAAATTTTTAAAAATGTTTTTAAAACTA
673176 TATATTAT
66 TATATTAT
* ** * *
673184 -TA-GTTTCAAAAATG-ACTT-AAAA--ATAT-TATATAAGTTTTCCAAAAATGTTTTTAAAACT
1 ATATTTTTCAAAAATGTTTTTAAAAACTATATATATATAAATTTT-TAAAAATGTTTTTAAAACT
673242 ATATATTAT
65 ATATATTAT
*
673251 ATAATTTTTCAAAAATGTTTTTTAAAACTATATACTATAT-AATTTTTAAAAAATGTTTTTAAAA
1 AT-ATTTTTCAAAAATGTTTTTAAAAACTATATA-TATATAAATTTTT-AAAAATGTTTTTAAAA
*
673315 CTATATACTAT
63 CTATATATTAT
* *
673326 ATAATTTTTCAAAAATGTTTTT-AAAACTATATATTATATAAATTTTTTAAAATGTTTTCAAAAA
1 AT-ATTTTTCAAAAATGTTTTTAAAAACTATATA-TATATAAATTTTTAAAAATGTTTT-TAAAA
673390 CTATATATTAT
63 CTATATATTAT
* * * *
673401 ATGAGTTTTC--AAATGATTTTAAAAACTATATAATATATAAATGTTTTCAAAATGTTTTCAAAA
1 AT-ATTTTTCAAAAATGTTTTTAAAAACTATAT-ATATATAAAT-TTTTAAAAATGTTTTTAAAA
*
673464 CTCTATATTAT
63 CTATATATTAT
* * * ** *
673475 ATATATTTT-AAAAATGTTTTCAAAAACTACAATATATATAAATTTTCGAAAACCGGTTTATGAA
1 ATAT-TTTTCAAAAATGTTTTTAAAAACTA-TATATATATAAATTTT-TAAAA-ATGTTT-TTAA
*
673539 AATTATATATTAT
61 AACTATATATTAT
* * *
673552 AT-TTTGTCAAAAATATTTTCAAAAACTATATATATATA
1 ATATTTTTCAAAAATGTTTTTAAAAACTATATATATATA
673590 TATACAAAAT
Statistics
Matches: 338, Mismatches: 39, Indels: 50
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.00
63 7 0.02
64 7 0.02
65 27 0.08
66 2 0.01
67 8 0.02
68 1 0.00
69 1 0.00
70 11 0.03
71 2 0.01
72 4 0.01
73 10 0.03
74 72 0.21
75 138 0.41
76 31 0.09
77 16 0.05
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (73 bp):
ATATTTTTCAAAAATGTTTTTAAAAACTATATATATATAAATTTTTAAAAATGTTTTTAAAACTA
TATATTAT
Found at i:673455 original size:11 final size:11
Alignment explanation
Indices: 673439--673463 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
673429 TATAATATAT
673439 AAATGTTTTCA
1 AAATGTTTTCA
673450 AAATGTTTTCA
1 AAATGTTTTCA
673461 AAA
1 AAA
673464 CTCTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:673826 original size:2 final size:2
Alignment explanation
Indices: 673819--673875 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
673809 CTAATTAATA
673819 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
673859 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
673876 ATTTACTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:675569 original size:27 final size:27
Alignment explanation
Indices: 675539--675593 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
675529 TTCCTATAAT
675539 GAAAAAAAATAAAGAGATTGAAACTAG
1 GAAAAAAAATAAAGAGATTGAAACTAG
675566 GAAAAAAAATAAAGAGATTGAAACTAG
1 GAAAAAAAATAAAGAGATTGAAACTAG
675593 G
1 G
675594 GGTGAGCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.62, C:0.04, G:0.20, T:0.15
Consensus pattern (27 bp):
GAAAAAAAATAAAGAGATTGAAACTAG
Found at i:676125 original size:2 final size:2
Alignment explanation
Indices: 676118--676179 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
676108 AAAGAGCGTA
*
676118 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
676159 AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
676180 GGATATGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:678172 original size:249 final size:247
Alignment explanation
Indices: 677823--678895 Score: 1387
Period size: 249 Copynumber: 4.3 Consensus size: 247
677813 TGATTTGCCT
* * * ** * * * * * *
677823 TTGAGCTGAGTGTAATCGAACTCAAAGGTCCTCGGTTGGCAGATAGCTCTTCTCGACTTAAGTTA
1 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGAAAATAACCCTTCTAGACTTGAGTTA
* *
677888 TGCTGCAAATGATATGCCTTGGAGTTTAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAA
66 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAA
* * * *
677953 CCCTTCTAGCCTTGCGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGCAATCGAACTCGAG
131 CCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
* * *
678018 GGTCTTTGGCAGCTAGCCCTTCTCGACTTAAGCTATACTGTAAATGATGTACC
196 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT-CC
* * * * * *
678071 TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTATTGGAAAATATCCCTTATTGTCTTGAGCT
1 TT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGAAAATAACCCTTCTAGACTTGAGTT
* *
678136 ATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCATATA
65 ATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATA
* * ** *
678200 ACCCTTCTAACCTTGAGTGATGTTGCAAATGATATGTCCTCGAAGCTGAGTGTAATCGAACTCGG
130 ACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGG
678265 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
195 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT-CC
* * * * *
678319 GTTGAGCTGAGTGTAGTCGAACTCAAAGGTCTTTTGGT-CATAGATAACCCTTCTAGCCTTGAGT
1 -TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGA-AAATAACCCTTCTAGACTTGAGT
* * **
678383 TATGCTGTAAATGATATGCCTTGGAGATGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TCACATA
64 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCATA
* * * * *
678447 TAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTCTTCGAAGCTGAGTGTAATCAAACTC
128 TAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
*
678512 GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGTCG
193 GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG--ATGTCC
* * * * *
678569 TTGAGCTGAGCGTAGTTGAACTCAAAGGTCTTTTGTTGGCAAACAACCCTTCTAGACTTAAGTTG
1 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGAAAATAACCCTTCTAGACTTGAGTTA
* * *
678634 TGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAA
66 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAA
* * * * * *
678699 CCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATTGAACTCGGG
131 CCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
*
678764 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCG
196 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA--TGTCC
* * * * * * * *
678818 TTGAGGTGAGCGAAGTCAAACTCAAAGGTCTTTTGTTAGCAGATAACCCTTCTCGACTTAAGTTA
1 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGAAAATAACCCTTCTAGACTTGAGTTA
*
678883 TGCTACAAATGAT
66 TGCTGCAAATGAT
678896 GTCTTAAAAA
Statistics
Matches: 722, Mismatches: 92, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
247 2 0.00
248 220 0.30
249 494 0.68
250 2 0.00
251 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (247 bp):
TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGAAAATAACCCTTCTAGACTTGAGTTA
TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAA
CCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTCC
Found at i:678858 original size:165 final size:166
Alignment explanation
Indices: 677813--678895 Score: 874
Period size: 165 Copynumber: 6.5 Consensus size: 166
677803 ATTGTGAACT
* * * * * * ** * * *
677813 TGATTTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCCTCGGTTGGCAGATAGCTCTTCTCG
1 TGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTCG
* * * * *
677878 ACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGTTTAGCGTAGTCGAACTCGAAGGTCTTTGG
66 ACTTAAGTTATGCTGCAAATGATATGTCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TT--
* * ** * *
677942 TTGGCATATAACCCTTCTAGCCTTGCGTTATACTGCAAA
128 TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
* * * * * * * *
677981 TGATGTGCCCTCGAAGCTGAGTGCAATCGAACTCGAGGGTC-TTTG---GCAGCTAGCCCTTCTC
1 TGATGTGCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTC
* * * * * * *
678042 GACTTAAGCTATACTGTAAATG--ATGTACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT
65 GACTTAAGTTATGCTGCAAATGATATGT-CCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC--T
* * * * * * * *
678105 TATTGGAAAATATCCCTTATTGTCTTGAGCTATGTTGCAAA
127 T-TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
* * * *
678146 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCATATAACCCTTCT-A
1 TGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTCG
* * * * **
678209 ACCTTGAGTGATGTTGCAAATGATATGTCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TTT
66 A-CTTAAGTTATGCTGCAAATGATATGTCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTT
* *
678273 GGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
130 GGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
* * * *
678310 TGATGTGCCGTT-GAGCTGAGTGTAGTCGAACTCAAAGGTCTTTTGGTCA-TAGATAACCCTTCT
1 TGATGTGCC-TTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTT-GTTAGCAGATAACCCTTCT
* * * * * * * *
678373 AGCCTTGAGTTATGCTGTAAATGATATG-CCTTGGAGATGAGCGTAGTCGAACTCGAAGGTCTTT
64 CGACTTAAGTTATGCTGCAAATGATATGTCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT
* * * * * *
678437 TGGTCACATATAACCCTTCTAGCCTTGAGTTATACTGTAAA
129 TGG---CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
* * * * * ** *
678478 TGATGTGTCTTCGAAGCTGAGTGTAATCAAACTCGGGGGTC-TTTG---GCAGATAGCCCTTCTC
1 TGATGTGCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTC
* * * * * *
678539 GACTTAAGCTATGCTGCAAATGATATGTCGTTG-AGCTGAGCGTAGTTGAACTCAAAGGTCTTTT
65 GACTTAAGTTATGCTGCAAATGATATGTCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC--TT
* * * *
678603 GTTGGCAAACAACCCTTCTAGACTTAAGTTGTGCTGCAAA
128 -TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
* *
678643 TGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCG
1 TGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTCG
* * * * **
678708 ACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATTGAACTCGGGGGTC-TTTG
66 ACTTAAGTTATGCTGCAAATGATATGTCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTG
* *
678772 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
131 GCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
* * * * *
678808 TGATGTGTCGTT-GAGGTGAGCGAAGTCAAACTCAAAGGTCTTTTGTTAGCAGATAACCCTTCTC
1 TGATGTG-CCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTC
*
678872 GACTTAAGTTATGCTACAAATGAT
65 GACTTAAGTTATGCTGCAAATGAT
678896 GTCTTAAAAA
Statistics
Matches: 741, Mismatches: 143, Indels: 65
0.78 0.15 0.07
Matches are distributed among these distances:
163 3 0.00
164 141 0.19
165 356 0.48
166 14 0.02
167 31 0.04
168 124 0.17
169 72 0.10
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (166 bp):
TGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTCG
ACTTAAGTTATGCTGCAAATGATATGTCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTG
GCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
Found at i:678896 original size:84 final size:84
Alignment explanation
Indices: 677813--678897 Score: 898
Period size: 84 Copynumber: 13.1 Consensus size: 84
677803 ATTGTGAACT
* * * * * * ** * *
677813 TGATTTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCCTCGGTTGGCAGATAGCTCTTCTCG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
677878 ACTTAAGTTATGCTGCAAA
66 ACTTAAGTTATGCTGCAAA
* * * * * *
677897 TGATATGCCTTGGAGTTTAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAACCCTTCTAG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
* ** *
677962 CCTTGCGTTATACTGCAAA
66 ACTTAAGTTATGCTGCAAA
* * * * * * * *
677981 TGATGTGCCCTCGAAGCTGAGTGCAATCGAACTCGAGGGTC---T-TTGGCAGCTAGCCCTTCTC
1 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTC
* * *
678042 GACTTAAGCTATACTGTAAA
65 GACTTAAGTTATGCTGCAAA
* * * * * * * *
678062 TGATGTACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTATTGGAAAATATCCCTTATTG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
* * * *
678127 TCTTGAGCTATGTTGCAAA
66 ACTTAAGTTATGCTGCAAA
* *
678146 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCATATAACCCTTCT-A
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
* * *
678209 ACCTTGAGTGATGTTGCAAA
66 A-CTTAAGTTATGCTGCAAA
* * * * * ** *
678229 TGATATGTCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTC
1 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTC
*
678290 GACTTAAGCTATGCTGCAAA
65 GACTTAAGTTATGCTGCAAA
* * * *** *
678310 TGATGTGCCGTT-GAGCTGAGTGTAGTCGAACTCAAAGGTCTTTTGGTCATAGATAACCCTTCTA
1 TGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTC
* * *
678374 GCCTTGAGTTATGCTGTAAA
65 GACTTAAGTTATGCTGCAAA
* * * ** * *
678394 TGATATGCCTTGGAGATGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
* * * *
678459 CCTTGAGTTATACTGTAAA
66 ACTTAAGTTATGCTGCAAA
* * * * * ** *
678478 TGATGTGTCTTCGAAGCTGAGTGTAATCAAACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTC
1 TGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTC
*
678539 GACTTAAGCTATGCTGCAAA
65 GACTTAAGTTATGCTGCAAA
* * * * * * *
678559 TGATATGTCGTT-GAGCTGAGCGTAGTTGAACTCAAAGGTCTTTTGTTGGCAAACAACCCTTCTA
1 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTC
*
678623 GACTTAAGTTGTGCTGCAAA
65 GACTTAAGTTATGCTGCAAA
* * * *
678643 TGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAACCCTTCTCG
1 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
*
678708 ACTTAAGTTATGCTGTAAA
66 ACTTAAGTTATGCTGCAAA
* * * * * * ** *
678727 TGATATGCCCTCGAAGCTGAGTGTAATTGAACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTC
1 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTC
*
678788 GACTTAAGCTATGCTGCAAA
65 GACTTAAGTTATGCTGCAAA
* * * * * *
678808 TGATGTGTCGTT-GAGGTGAGCGAAGTCAAACTCAAAGGTCTTTTGTTAGCAGATAACCCTTCTC
1 TGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTC
*
678872 GACTTAAGTTATGCTACAAA
65 GACTTAAGTTATGCTGCAAA
678892 TGATGT
1 TGATGT
678898 CTTAAAAAAT
Statistics
Matches: 793, Mismatches: 182, Indels: 52
0.77 0.18 0.05
Matches are distributed among these distances:
80 89 0.11
81 150 0.19
82 5 0.01
83 48 0.06
84 429 0.54
85 72 0.09
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (84 bp):
TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
ACTTAAGTTATGCTGCAAA
Found at i:683975 original size:12 final size:13
Alignment explanation
Indices: 683956--683988 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
683946 AAGAGAGAGT
683956 AAAAATAAA-TAA
1 AAAAATAAATTAA
*
683968 ATAAATAAATTAA
1 AAAAATAAATTAA
683981 AAAAATAA
1 AAAAATAA
683989 CAATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAATTAA
Found at i:683993 original size:23 final size:24
Alignment explanation
Indices: 683967--684012 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
683957 AAAATAAATA
683967 AATAAATAA-ATTAAAAA-AATAAC
1 AATAAA-AATATTAAAAAGAATAAC
683990 AATAAAAATATTAAAAAGAATAA
1 AATAAAAATATTAAAAAGAATAA
684013 GAAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.10
23 14 0.67
24 5 0.24
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (24 bp):
AATAAAAATATTAAAAAGAATAAC
Found at i:684074 original size:2 final size:2
Alignment explanation
Indices: 684067--684120 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
684057 AAAGAGCGTA
684067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
684109 AT AT AT AT AT AT
1 AT AT AT AT AT AT
684121 GGATAGAAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:684241 original size:2 final size:2
Alignment explanation
Indices: 684234--684264 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
684224 CCATAGATAC
684234 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
684265 ATTTAAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:685616 original size:2 final size:2
Alignment explanation
Indices: 685609--685636 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
685599 ATTAGTGTTG
685609 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
685637 CATTTCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:686129 original size:10 final size:11
Alignment explanation
Indices: 686093--686147 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
686083 ATTAGAAAAG
*
686093 AAAAAAATAAT
1 AAAAGAATAAT
*
686104 AAATA-AATGA-
1 AAA-AGAATAAT
686114 AAAAGAA-AAT
1 AAAAGAATAAT
686124 AAAAGAATAAT
1 AAAAGAATAAT
*
686135 AAAATAATAAT
1 AAAAGAATAAT
686146 AA
1 AA
686148 TAACAATAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 2 0.05
10 12 0.32
11 22 0.59
12 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAAGAATAAT
Found at i:687338 original size:35 final size:34
Alignment explanation
Indices: 687272--687542 Score: 228
Period size: 33 Copynumber: 7.9 Consensus size: 34
687262 TTATATATAT
*
687272 AAAAATATTTTCAAAAAC--TATA-ATATATTTTC
1 AAAAATGTTTT-AAAAACTATATATATATATTTTC
*
687304 AAAAATGCTTTAAAAACTATATAATATATATTTTC
1 AAAAATGTTTTAAAAACTATAT-ATATATATTTTC
687339 AAAAATGTTTTAAAAACTATATAT-TATATTTTC
1 AAAAATGTTTTAAAAACTATATATATATATTTTC
687372 --AAATGTTTTTAAAATACTATATAT-TATATTTT-
1 AAAAATG-TTTTAAAA-ACTATATATATATATTTTC
*
687404 AAAAA-GTTTTTAAAAAATATAT-TATATTATTTTC
1 AAAAATG-TTTTAAAAACTATATATATA-TATTTTC
*
687438 -AAAATGTTTTAAAAAACTATATTATATATATATATATAT
1 AAAAATGTTTT-AAAAACTATA-TATATATAT-T-T-T-C
* * *
687477 ATTCAAAATG-TTT-AAAATTATTTATATTATTTTTTC
1 A---AAAATGTTTTAAAAACTATATATA-TATATTTTC
687513 -AAAATGTTTTAAAAACTATATTATATATAT
1 AAAAATGTTTTAAAAACTATA-TATATATAT
687543 ATATATATAT
Statistics
Matches: 199, Mismatches: 13, Indels: 52
0.75 0.05 0.20
Matches are distributed among these distances:
31 12 0.06
32 31 0.16
33 56 0.28
34 27 0.14
35 39 0.20
36 5 0.03
37 2 0.01
38 2 0.01
39 5 0.03
40 11 0.06
42 3 0.02
43 6 0.03
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (34 bp):
AAAAATGTTTTAAAAACTATATATATATATTTTC
Found at i:687376 original size:66 final size:67
Alignment explanation
Indices: 687263--687542 Score: 251
Period size: 66 Copynumber: 4.1 Consensus size: 67
687253 ATAGTATTAT
* * *
687263 TATATA-TATAAAAATATTTTCAAAAACTATA---ATATATTTTCAAAAATGCTTTAAAAACTAT
1 TATATATTTTAAAAATGTTTT-AAAAACTATATATATATATTTTC-AAAATGTTTTAAAAACTAT
687324 ATAA
64 ATAA
687328 TATATATTTTCAAAAATGTTTTAAAAACTATATAT-TATATTTTC-AAATGTTTTTAAAATACTA
1 TATATATTTT-AAAAATGTTTTAAAAACTATATATATATATTTTCAAAATG-TTTTAAAA-ACTA
687391 TAT-A
63 TATAA
*
687395 T-TATATTTTAAAAA-GTTTTTAAAAAATATAT-TATATTATTTTCAAAATGTTTTAAAAAACTA
1 TATATATTTTAAAAATG-TTTTAAAAACTATATATATA-TATTTTCAAAATGTTTT-AAAAACTA
687457 TATTATA
63 TA-TA-A
* * *
687464 TATATATATATATATTCAAAATG-TTT-AAAATTATTTATATTATTTTTTCAAAATGTTTTAAAA
1 TATATAT-T-T-TA---AAAATGTTTTAAAAACTATATATA-TATATTTTCAAAATGTTTTAAAA
*
687527 ACTATATTA
59 ACTATATAA
687536 TATATAT
1 TATATAT
687543 ATATATATAT
Statistics
Matches: 182, Mismatches: 8, Indels: 43
0.78 0.03 0.18
Matches are distributed among these distances:
64 2 0.01
65 27 0.15
66 42 0.23
67 29 0.16
68 16 0.09
69 2 0.01
70 5 0.03
71 1 0.01
72 9 0.05
73 3 0.02
74 18 0.10
75 21 0.12
76 6 0.03
77 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (67 bp):
TATATATTTTAAAAATGTTTTAAAAACTATATATATATATTTTCAAAATGTTTTAAAAACTATAT
AA
Found at i:687541 original size:2 final size:2
Alignment explanation
Indices: 687529--687558 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
687519 TTTTAAAAAC
687529 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
687559 TTTCAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:687582 original size:38 final size:39
Alignment explanation
Indices: 687290--687864 Score: 391
Period size: 38 Copynumber: 15.3 Consensus size: 39
687280 TTTCAAAAAC
*
687290 TATA-ATATATTTTCAAAAATGCTTTAAAAAC----TATA
1 TATATATATATTTTC-AAAATGTTTTAAAAACTATATATA
687325 TA-ATATATATTTTCAAAAATGTTTTAAAAAC------TA
1 TATATATATATTTTC-AAAATGTTTTAAAAACTATATATA
*
687358 TATAT-TATATTTTC-AAATGTTTTTAAAA-TACTATA--
1 TATATATATATTTTCAAAATGTTTTAAAAACTA-TATATA
*
687393 --TAT-TATATTTT-AAAAAGTTTTTAAAAA--ATATAT-
1 TATATATATATTTTCAAAATG-TTTTAAAAACTATATATA
687426 --TATAT-TATTTTCAAAATGTTTTAAAAAACTATATTATA
1 TATATATATATTTTCAAAATGTTTT-AAAAACTATA-TATA
687464 TATATATATATATATTCAAAATG-TTT-AAAA-T-TAT-T-
1 TATATATATAT-T-TTCAAAATGTTTTAAAAACTATATATA
*
687499 TATAT-TATTTTTTCAAAATGTTTTAAAAACTATATTATATATATATATA
1 TATATATATATTTTCAAAATGTTTTAAAAAC-----------TATATATA
*
687548 TATATATATATTTTCAAAATG-TTTAATAACTATATAT-
1 TATATATATATTTTCAAAATGTTTTAAAAACTATATATA
687585 TATATATATATTTTCAAAATGTTTTAAAAACTATATAT-
1 TATATATATATTTTCAAAATGTTTTAAAAACTATATATA
* *
687623 TATATATATGTTTTTAAAATGTTTTAAAAACTATATAT-
1 TATATATATATTTTCAAAATGTTTTAAAAACTATATATA
*
687661 TATATATATGTTTTCAAAATGTTTTAAAAACTATATAT-
1 TATATATATATTTTCAAAATGTTTTAAAAACTATATATA
*
687699 TATATAT-TTTTTTCAAAATGTTTTAAAAACTATAAATTATA
1 TATATATATATTTTCAAAATGTTTTAAAAACTAT--A-TATA
***
687740 TATATATGTATATTTTCAAAAAAAATTT-AAAACTATATAT-
1 TATATA--TATATTTTC-AAAATGTTTTAAAAACTATATATA
* * *
687780 TATAGA-A-GTTTTCAAAATATTTTAAAAACTAT-T-TA
1 TATATATATATTTTCAAAATGTTTTAAAAACTATATATA
*** **
687815 T-TATATATA-TTTCAAAAATCAATTGCAAACTATAATATA
1 TATATATATATTTTC-AAAATGTTTTAAAAACTAT-ATATA
687854 TATATATATAT
1 TATATATATAT
687865 ATATATATAT
Statistics
Matches: 451, Mismatches: 28, Indels: 116
0.76 0.05 0.19
Matches are distributed among these distances:
31 13 0.03
32 13 0.03
33 46 0.10
34 34 0.08
35 48 0.11
36 31 0.07
37 51 0.11
38 105 0.23
39 5 0.01
40 25 0.06
41 12 0.03
42 5 0.01
43 10 0.02
44 14 0.03
45 7 0.02
46 1 0.00
47 3 0.01
48 1 0.00
49 13 0.03
50 14 0.03
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (39 bp):
TATATATATATTTTCAAAATGTTTTAAAAACTATATATA
Found at i:687589 original size:51 final size:49
Alignment explanation
Indices: 687499--687595 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
687489 TAAAATTATT
*
687499 TATATTATTTTTTCAAAATGTTTTAAAAACTATATTATATATATATATA
1 TATATTATATTTTCAAAATGTTTTAAAAACTATATTATATATATATATA
*
687548 TATATATATATTTTCAAAATG-TTTAATAACTATA-TAT-TATATATATA
1 TATAT-TATATTTTCAAAATGTTTTAAAAACTATATTATATATATATATA
687595 T
1 T
687596 TTTCAAAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 11 0.24
48 3 0.07
49 17 0.38
50 14 0.31
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (49 bp):
TATATTATATTTTCAAAATGTTTTAAAAACTATATTATATATATATATA
Found at i:687833 original size:36 final size:35
Alignment explanation
Indices: 687736--687862 Score: 105
Period size: 36 Copynumber: 3.5 Consensus size: 35
687726 AACTATAAAT
* *
687736 TATATATATATGTATATTTTCAAAAAAAATTTAAAAC
1 TATATAT-TATATATA-TTTCAAAAATAATTTAAAAC
* *
687773 TATATATTATAGA-AGTTTTC-AAAATATTTTAAAAAC
1 TATATATTATATATA--TTTCAAAAATAATTT-AAAAC
* **
687809 TATTTATTATATATATTTCAAAAATCAATTGCAAAC
1 TATATATTATATATATTTCAAAAAT-AATTTAAAAC
687845 TATAATATATATATATAT
1 TAT-ATAT-TATATATAT
687863 ATATATATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
35 13 0.18
36 37 0.51
37 14 0.19
38 9 0.12
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (35 bp):
TATATATTATATATATTTCAAAAATAATTTAAAAC
Found at i:687856 original size:2 final size:2
Alignment explanation
Indices: 687845--687885 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
687835 AATTGCAAAC
687845 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
687886 ACAAAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:688750 original size:85 final size:85
Alignment explanation
Indices: 688629--689266 Score: 792
Period size: 85 Copynumber: 7.5 Consensus size: 85
688619 CTCGACAATT
* ** * * * * * * *
688629 TTTGTTGACATATAACTTTTCTCGACTTAAGCTATGCTGTGAATTTGACATGCCCTTGAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
* *
688694 TGGAATCGAACTCGAAGGTA
66 TGTAATCGAACTCGAAGGTC
* * * ** *
688714 TTTATTGACAGATATCCGTTCTTACCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
*
688779 TGTAATCAAACTCGAA-GTC
66 TGTAATCGAACTCGAAGGTC
** * * * * *
688798 TTTTGTTGACAGATAGTCGTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTGGCTTTGAGCTGA
1 -TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGA
688863 GTGTAATCGAACTCGAAGGTC
65 GTGTAATCGAACTCGAAGGTC
* * * *
688884 TTGGTTGACAGATAACCCTTATCGCCTTTAGTTATGTTGTAAATTTGATATGCCTTTGAGCTGAG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
*
688949 TGTAATCGAACTCGAAGGTAT
66 TGTAATCGAACTCGAAGGT-C
* * * * * * * *
688970 TTTGTTAACAGATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATTCGATGTACCTTTGAGCTGAG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
* *
689035 TGTAATCGAACTCAAAGTTC
66 TGTAATCGAACTCGAAGGTC
* *
689055 TTGGTTGATAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
689120 TGTAATCGAACTCGAAGGTC
66 TGTAATCGAACTCGAAGGTC
* * *
689140 TTTTGTTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAATTTGATGTTCCTTTGAGCTGA
1 -TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGA
*
689205 GTGTAATTGAACTCGAAGGTC
65 GTGTAATCGAACTCGAAGGTC
* * *
689226 TTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGATGTA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
689267 TTTGGCTGGG
Statistics
Matches: 479, Mismatches: 70, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
84 2 0.00
85 323 0.67
86 154 0.32
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (85 bp):
TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAG
TGTAATCGAACTCGAAGGTC
Found at i:689059 original size:171 final size:171
Alignment explanation
Indices: 688628--689266 Score: 866
Period size: 171 Copynumber: 3.7 Consensus size: 171
688618 ACTCGACAAT
* * ** * * * * ** * *
688628 TTTTGTTGACATATAACTTTTCTCGACTTAAGCTATGCTGTGAATTTGACATGCCCTTGAGCTGA
1 TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTACCTTTGAGCTGA
* * * ** * * *
688693 ATGGAATCGAACTCGAAGGTATTTATTGACAGATATCCGTTCTTACCTTGAGTTATGCTGTAAAT
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAAT
* *
688758 TTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAA-GTC
131 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* * **
688798 TTTTGTTGACAGATAGTCGTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTGGCTTTGAGCTGA
1 TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTACCTTTGAGCTGA
* * * *
688863 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTATCGCCTTTAGTTATGTTGTAAAT
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAAT
*
688928 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTA
131 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* * *
688969 TTTTGTTAACAGATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATTCGATGTACCTTTGAGCTGA
1 TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTACCTTTGAGCTGA
* * * *
689034 GTGTAATCGAACTCAAAGTTCTTGGTTGATAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAAT
689099 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
131 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* * * * *
689140 TTTTGTTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAATTTGATGTTCCTTTGAGCTGA
1 TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTACCTTTGAGCTGA
* *
689205 GTGTAATTGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGATGTA
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTA
689267 TTTGGCTGGG
Statistics
Matches: 412, Mismatches: 56, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
170 140 0.34
171 272 0.66
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (171 bp):
TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTACCTTTGAGCTGA
GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAAT
TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
Found at i:689098 original size:256 final size:256
Alignment explanation
Indices: 688661--689266 Score: 820
Period size: 256 Copynumber: 2.4 Consensus size: 256
688651 CGACTTAAGC
* * * * * *
688661 TATGCTGTGAATTTGACATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTATTTATTGACAGA
1 TATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAGA
* * * * *
688726 TATCCGTTCTTACCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACT
66 TAACCCTTCTTACCTTGAGTTATGATGTAAATTCGATATACCTTTGAGCTGAATGTAATCAAACT
* * ** * * * *
688791 CGAAGTCTTTTGTTGACAGATAGTCGTTCTCGCCTTGAGCTATGTTGTAAATTTGATGTGGCTTT
131 CAAAGTCTTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTT
* *
688856 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTATCGCCTTTAGT
196 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTATCACCTTGAGT
* *
688916 TATGTTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTAACAG
1 TATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTA-TTTGTTGACAG
* * * * * * *
688981 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATTCGATGTACCTTTGAGCTGAGTGTAATCGAAC
65 ATAACCCTTCTTACCTTGAGTTATGATGTAAATTCGATATACCTTTGAGCTGAATGTAATCAAAC
* *
689046 TCAAAGT-TCTTGGTTGATAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCT
130 TCAAAGTCT-TTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCT
* *
689110 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTTGAGT
194 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTATCACCTTGAGT
* * * * *
689173 TATGCTGTAAATTTGATGTTCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTGGTTGACAGA
1 TATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAGA
*
689238 TAACCCTTCTCACCTTGAGTTATGATGTA
66 TAACCCTTCTTACCTTGAGTTATGATGTA
689267 TTTGGCTGGG
Statistics
Matches: 304, Mismatches: 44, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
255 48 0.16
256 180 0.59
257 76 0.25
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (256 bp):
TATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAGA
TAACCCTTCTTACCTTGAGTTATGATGTAAATTCGATATACCTTTGAGCTGAATGTAATCAAACT
CAAAGTCTTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTT
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTATCACCTTGAGT
Found at i:697376 original size:21 final size:22
Alignment explanation
Indices: 697339--697382 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
697329 GGGTCGGGTC
*
697339 ATGTAACCTGTAAAAT-ATAAT
1 ATGTAACATGTAAAATAATAAT
697360 ATGTAACAT-TAATAATAATAAT
1 ATGTAACATGTAA-AATAATAAT
697382 A
1 A
697383 ATAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 11 0.55
22 6 0.30
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (22 bp):
ATGTAACATGTAAAATAATAAT
Found at i:697377 original size:3 final size:3
Alignment explanation
Indices: 697369--697393 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
697359 TATGTAACAT
697369 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
697394 GTATTAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:697729 original size:110 final size:111
Alignment explanation
Indices: 697547--697853 Score: 465
Period size: 110 Copynumber: 2.8 Consensus size: 111
697537 GTTCCACTTC
* **
697547 CACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCTTCTGAGTAAATATCAGA
1 CACTCAGGGAATATCAAATCTTGAAAGAGAGAGATCTGTTCCGCTTCTTCTGAGGGAATATCAGA
*
697612 TCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTGTTCCGCTGT
66 TCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTATTCCGCTGT
* * *
697658 CACTCAGGGAATATC-AATCTTGAAAGAGAGAGATCTGTTCCACTTCTTTTGAGGGATTATCAGA
1 CACTCAGGGAATATCAAATCTTGAAAGAGAGAGATCTGTTCCGCTTCTTCTGAGGGAATATCAGA
*
697722 TCTGGGAAAGTCGATCCATTGAATCAGGGTAGACTTATTCCGCTGT
66 TCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTATTCCGCTGT
* * * *
697768 CACTCATGGAATATCAAATCTTGAAAAAGAGTGATTTGTTCCGCTTCTTCTGAAGGGAATATCAG
1 CACTCAGGGAATATCAAATCTTGAAAGAGAGAGATCTGTTCCGCTTCTTCTG-AGGGAATATCAG
*
697833 ATCT-GGATGAGTTGATCCATT
65 ATCTGGGA-AAGTTGATCCATT
697854 CCGCTGTCAA
Statistics
Matches: 176, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
110 101 0.57
111 49 0.28
112 26 0.15
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (111 bp):
CACTCAGGGAATATCAAATCTTGAAAGAGAGAGATCTGTTCCGCTTCTTCTGAGGGAATATCAGA
TCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTATTCCGCTGT
Found at i:697979 original size:134 final size:134
Alignment explanation
Indices: 697739--698102 Score: 557
Period size: 134 Copynumber: 2.7 Consensus size: 134
697729 AAGTCGATCC
* * *
697739 ATTGAATCAGGGTAGACTTATTCCGCTGTCACTCATGGAATATCAAATCTTGAAAAAGAGTGATT
1 ATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGTGATT
* *
697804 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCAATTAGG
66 TGTTCCACTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCAATCAGG
697869 GAAG
131 GAAG
* *
697873 ATTGAATCAAGGTAAACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGTGATC
1 ATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGTGATT
* * * * * * *
697938 TATTTCTCTTTTTATGAAGGGAATATCAGATTTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
66 TGTTCCACTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCAATCAGG
698003 GAAG
131 GAAG
* * * *
698007 ATTAAATCATGGTAGACTTGTTTCGCTGTCACTAAGGGAATATCAAATCTTGAAAAAGAGTGATT
1 ATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGTGATT
*
698072 TGTTCCACTTCTTCTGAAAGGAATATCAGAT
66 TGTTCCACTTCTTCTGAAGGGAATATCAGAT
698103 AGATGGATTT
Statistics
Matches: 205, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 205 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (134 bp):
ATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGTGATT
TGTTCCACTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCAATCAGG
GAAG
Found at i:698246 original size:79 final size:79
Alignment explanation
Indices: 698106--698259 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 79
698096 ATCAGATAGA
* * * * * * *
698106 TGGATTTACTTCACTATTCTTCCGTGAAGGCTTAAGATGGCCCAGAGGGCTTCATCGTCATGCTC
1 TGGATTTACTTCACTAATCTTCCGTGAAGGCTTAAGATGACCCAAAGGACTTAAGCATCATGCTC
*
698171 GGAAGGCTTATTGT
66 GGAAGACTTATTGT
* * * *
698185 TGGATTTGCTTCATTAATCTTCGGTGAAGGCTTAAGATGACCCAAAGGATTTAAGCATCATGCTC
1 TGGATTTACTTCACTAATCTTCCGTGAAGGCTTAAGATGACCCAAAGGACTTAAGCATCATGCTC
698250 GGAAGACTTA
66 GGAAGACTTA
698260 CTGATGACCT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (79 bp):
TGGATTTACTTCACTAATCTTCCGTGAAGGCTTAAGATGACCCAAAGGACTTAAGCATCATGCTC
GGAAGACTTATTGT
Found at i:710803 original size:38 final size:38
Alignment explanation
Indices: 710665--711048 Score: 536
Period size: 38 Copynumber: 10.2 Consensus size: 38
710655 AAAAACTATA
*
710665 ATATATATTTTCAAAAATGTTTTAAAAAGTATATA--AT
1 ATATATATTTTC-AAAATGTTTTAAAAACTATATATTAT
710702 ATATATATTTTCAAAAATGTTTTAAAAACTATATA-T-T
1 ATATATATTTTC-AAAATGTTTTAAAAACTATATATTAT
710739 ATATATATTTTCAAAAAT-TTTTAAAAAACTATATATTAT
1 ATATATATTTTC-AAAATGTTTT-AAAAACTATATATTAT
710778 ATATATATTTTCAAAATG-TTTAAAAACTATATATTAT
1 ATATATATTTTCAAAATGTTTTAAAAACTATATATTAT
*
710815 ATATATATTTTCAAAATATTTTAAAAACTATATATTAT
1 ATATATATTTTCAAAATGTTTTAAAAACTATATATTAT
* *
710853 ATATATGTTTTTTTCAAAATATTTTAAAAACTATATATTAT
1 ATATA---TATTTTCAAAATGTTTTAAAAACTATATATTAT
*
710894 ATATATGTTTTCAAAATGTTTTAAAAACTATATATTAT
1 ATATATATTTTCAAAATGTTTTAAAAACTATATATTAT
*
710932 ATATATATTTTTAAAATGTTTTAAAAACTATATATTAT
1 ATATATATTTTCAAAATGTTTTAAAAACTATATATTAT
*
710970 ATATATTTTTTTCAAAATGTTTT-AAAACTATATATTAT
1 ATATA-TATTTTCAAAATGTTTTAAAAACTATATATTAT
* * *
711008 ATA-A-GTTTTAAAAATATTTTAAAAACTATAT-TTAT
1 ATATATATTTTCAAAATGTTTTAAAAACTATATATTAT
711043 ATATAT
1 ATATAT
711049 TTCAAAAATC
Statistics
Matches: 322, Mismatches: 12, Indels: 26
0.89 0.03 0.07
Matches are distributed among these distances:
35 20 0.06
36 15 0.05
37 99 0.31
38 123 0.38
39 28 0.09
41 37 0.11
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (38 bp):
ATATATATTTTCAAAATGTTTTAAAAACTATATATTAT
Found at i:711069 original size:35 final size:35
Alignment explanation
Indices: 710635--711084 Score: 343
Period size: 37 Copynumber: 12.2 Consensus size: 35
710625 ATAATACTAT
*
710635 TATATA-TT-AAAAATATTTTCAAAAACTATA-ATA
1 TATATATTTCAAAAATATTTT-AAAAACTATATTTA
* * *
710668 TATAT-TTTCAAAAATGTTTTAAAAAGTATATAATA
1 TATATATTTCAAAAATATTTTAAAAACTATAT-TTA
*
710703 TATATATTTTCAAAAATGTTTTAAAAACTATATATTA
1 TATATA-TTTCAAAAATATTTTAAAAACTATAT-TTA
710740 TATATATTTTCAAAAAT-TTTTAAAAAACTATATATTATA
1 TATATA-TTTCAAAAATATTTT-AAAAAC--TATATT-TA
*
710779 TATATATTTTC-AAAAT-GTTTAAAAACTATATATTATA
1 TATATA-TTTCAAAAATATTTTAAAAAC--TATATT-TA
710816 TATATATTTTC-AAAATATTTTAAAAACTATATATTA
1 TATATA-TTTCAAAAATATTTTAAAAACTATAT-TTA
710852 TATATATGTTTTTTTC-AAAATATTTTAAAAACTATATATTA
1 TATATA------TTTCAAAAATATTTTAAAAACTATAT-TTA
*
710893 TATATATGTTTTC-AAAATGTTTTAAAAACTATATATTATA
1 TATATA---TTTCAAAAATATTTTAAAAAC--TATATT-TA
** *
710933 TATATATTTTTAAAATGTTTTAAAAACTATATATTA
1 TATATATTTCAAAAATATTTTAAAAACTATAT-TTA
*
710969 TATATATTTTTTTC-AAAATGTTTT-AAAACTATATATTA
1 TATATA----TTTCAAAAATATTTTAAAAACTATAT-TTA
*
711007 TATA-AGTTTTAAAAATATTTTAAAAACTATATTTA
1 TATATA-TTTCAAAAATATTTTAAAAACTATATTTA
**
711042 TATATATTTCAAAAATCA-TTTGCAAACTATATTATA
1 TATATATTTCAAAAAT-ATTTTAAAAACTATATT-TA
711078 TATATAT
1 TATATAT
711085 ATAAATAAAA
Statistics
Matches: 370, Mismatches: 16, Indels: 59
0.83 0.04 0.13
Matches are distributed among these distances:
33 16 0.04
34 13 0.04
35 46 0.12
36 51 0.14
37 90 0.24
38 73 0.20
39 29 0.08
40 16 0.04
41 36 0.10
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (35 bp):
TATATATTTCAAAAATATTTTAAAAACTATATTTA
Found at i:711082 original size:34 final size:34
Alignment explanation
Indices: 710864--711082 Score: 144
Period size: 38 Copynumber: 6.0 Consensus size: 34
710854 TATATGTTTT
710864 TTTC-AAAATATTTTAAAAACTATATATTATATATA
1 TTTCAAAAATATTTTAAAAAC--TATATTATATATA
*
710899 TGTTTTC-AAAATGTTTTAAAAACTATATATTATATATATA
1 ---TTTCAAAAATATTTTAAAAAC--TATA-T-TATATATA
** *
710939 TTTTTAAAATGTTTTAAAAACTATATATTATATATA
1 TTTCAAAAATATTTTAAAAAC--TATATTATATATA
*
710975 TTTTTTTC-AAAATGTTTT-AAAACTATA-TATTATATAA
1 ----TTTCAAAAATATTTTAAAAACTATATTA-TATAT-A
*
711012 GTTTTAAAAATATTTTAAAAACTATATTTATATATA
1 -TTTCAAAAATATTTTAAAAACTATA-TTATATATA
**
711048 TTTCAAAAATCA-TTTGCAAACTATATTATATATA
1 TTTCAAAAAT-ATTTTAAAAACTATATTATATATA
711082 T
1 T
711083 ATATAAATAA
Statistics
Matches: 158, Mismatches: 9, Indels: 32
0.79 0.05 0.16
Matches are distributed among these distances:
34 13 0.08
35 31 0.20
36 28 0.18
37 10 0.06
38 54 0.34
39 11 0.07
40 11 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (34 bp):
TTTCAAAAATATTTTAAAAACTATATTATATATA
Found at i:711940 original size:19 final size:19
Alignment explanation
Indices: 711918--711976 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
711908 AGATAAAGAG
711918 AATAAAATAAAAGGAAAAA
1 AATAAAATAAAAGGAAAAA
*
711937 AATAAAATAAAA-AAAAATA
1 AATAAAATAAAAGGAAAA-A
*
711956 AATAAGAT--AAGGAAAAA
1 AATAAAATAAAAGGAAAAA
711973 AATA
1 AATA
711977 GTAAAGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 7 0.20
18 8 0.23
19 20 0.57
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (19 bp):
AATAAAATAAAAGGAAAAA
Done.