Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 200 of 240
Found at i:60871551 original size:33 final size:31
Alignment explanation
Indices: 60871487--60871559 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 31
60871477 GGTTTTTGCA
* *
60871487 GCTAAGATGGTACCTTCTACTGGTTTTTGCT
1 GCTAAGATGGTACCTTCTACTGATTTCTGCT
*
60871518 GCTAAGATGGTACCGCTTCTATTGATTTCTGCT
1 GCTAAGATGGTA-C-CTTCTACTGATTTCTGCT
60871551 GCTAA-ATGG
1 GCTAAGATGG
60871560 GAAATAGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 12 0.32
32 5 0.14
33 20 0.54
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GCTAAGATGGTACCTTCTACTGATTTCTGCT
Found at i:60872203 original size:11 final size:12
Alignment explanation
Indices: 60872173--60872205 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60872163 TCATGTTATC
*
60872173 ATAAAAGATAAA
1 ATAAAATATAAA
60872185 ATAAAATATAAA
1 ATAAAATATAAA
60872197 A-AAAATATA
1 ATAAAATATA
60872206 TGGAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:60872545 original size:33 final size:32
Alignment explanation
Indices: 60872506--60872631 Score: 118
Period size: 33 Copynumber: 4.0 Consensus size: 32
60872496 ATATTGTTAA
60872506 TAATTAAATTATTTATGTTAAAACATAATAAC
1 TAATTAAATTATTTATGTTAAAACATAATAAC
* * **
60872538 TAAATTAATTTATTTATGTTAAAACATATTATT
1 T-AATTAAATTATTTATGTTAAAACATAATAAC
* * **
60872571 TTATTAAAATTA-TTA--TTAAATA-TTGTTAA-
1 TAATT-AAATTATTTATGTTAAA-ACATAATAAC
60872600 TAATTAAATTATTTATGTTAAAACATAATAAC
1 TAATTAAATTATTTATGTTAAAACATAATAAC
60872632 ACTTAACTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
28 6 0.08
29 7 0.10
30 10 0.14
31 10 0.14
32 7 0.10
33 33 0.45
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (32 bp):
TAATTAAATTATTTATGTTAAAACATAATAAC
Found at i:60872666 original size:25 final size:25
Alignment explanation
Indices: 60872622--60873164 Score: 807
Period size: 25 Copynumber: 21.2 Consensus size: 25
60872612 TTATGTTAAA
*
60872622 ACATAATAACACTTAACTTACAACTT
1 ACATAAT-ACATTTAACTTACAACTT
60872648 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
* *
60872673 ACATAATACATAATAACTTACAACTG
1 ACATAATACAT-TTAACTTACAACTT
*
60872699 ACATTATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
60872724 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
60872750 ACATAATACATTTAACTTACAAACTT
1 ACATAATACATTTAACTTAC-AACTT
*
60872776 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
* *
60872802 ACATTATACACTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
60872827 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
60872852 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
60872878 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
60872903 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
* * *
60872929 ACATTATACACTTAACTAACAACTT
1 ACATAATACATTTAACTTACAACTT
60872954 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
60872979 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
60873005 ACATAATACATTTAACTTACAAACTT
1 ACATAATACATTTAACTTAC-AACTT
*
60873031 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
* *
60873057 ACATTATACACTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
60873082 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
60873107 ACATTATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
60873132 ACATAATAAATTTAACTTACATAACTT
1 ACATAATACATTTAACTTAC--AACTT
60873159 ACATAA
1 ACATAA
60873165 CTTACATAAT
Statistics
Matches: 470, Mismatches: 36, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
25 260 0.55
26 183 0.39
27 27 0.06
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (25 bp):
ACATAATACATTTAACTTACAACTT
Found at i:60872677 original size:51 final size:49
Alignment explanation
Indices: 60872622--60873164 Score: 771
Period size: 51 Copynumber: 10.6 Consensus size: 49
60872612 TTATGTTAAA
60872622 ACATAATAACACTTAACTTACAACTTACATAATACATTTAACTTACAACTT
1 ACATAAT-ACA-TTAACTTACAACTTACATAATACATTTAACTTACAACTT
* *
60872673 ACATAATACATAATAACTTACAACTGACATTATACATTTAACTTACAACTT
1 ACATAATACAT--TAACTTACAACTTACATAATACATTTAACTTACAACTT
60872724 ACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAAACTT
1 ACATAATACAT--TAACTTACAACTTACATAATACATTTAACTTAC-AACTT
* *
60872776 ACATAATACATAATAACTTACAACTTACATTATACACTTAACTTACAACTT
1 ACATAATACAT--TAACTTACAACTTACATAATACATTTAACTTACAACTT
*
60872827 ACATAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTT
1 ACATAATACA-TTAACTTACAACTTACATAATACAT-TTAACTTACAACTT
*
60872878 ACATAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTT
1 ACATAATACA-TTAACTTACAACTTACATAATACAT-TTAACTTACAACTT
* *
60872929 ACATTATACACTTAACTAACAACTTACATAATACATTTAACTTACAACTT
1 ACATAATACA-TTAACTTACAACTTACATAATACATTTAACTTACAACTT
60872979 ACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAAACTT
1 ACATAATACAT--TAACTTACAACTTACATAATACATTTAACTTAC-AACTT
* *
60873031 ACATAATACATAATAACTTACAACTTACATTATACACTTAACTTACAACTT
1 ACATAATACAT--TAACTTACAACTTACATAATACATTTAACTTACAACTT
*
60873082 ACATAATACATTTAACTTACAACTTACATTATACATTTAACTTACAACTT
1 ACATAATACA-TTAACTTACAACTTACATAATACATTTAACTTACAACTT
*
60873132 ACATAATAAATTTAACTTACATAACTTACATAA
1 ACATAATACA-TTAACTTAC--AACTTACATAA
60873165 CTTACATAAT
Statistics
Matches: 461, Mismatches: 20, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
49 2 0.00
50 103 0.22
51 246 0.53
52 110 0.24
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (49 bp):
ACATAATACATTAACTTACAACTTACATAATACATTTAACTTACAACTT
Found at i:60873158 original size:9 final size:9
Alignment explanation
Indices: 60873144--60873216 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
60873134 ATAATAAATT
60873144 TAACTTACA
1 TAACTTACA
60873153 TAACTTACA
1 TAACTTACA
60873162 TAACTTACA
1 TAACTTACA
*
60873171 TAATACATA-A
1 T-A-ACTTACA
60873181 TAACTTAC-
1 TAACTTACA
60873189 -AACTTACA
1 TAACTTACA
* *
60873197 TTACATACA
1 TAACTTACA
* *
60873206 TTACTTTCA
1 TAACTTACA
60873215 TA
1 TA
60873217 GATTTAGATT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
7 7 0.13
8 4 0.08
9 34 0.65
10 3 0.06
11 4 0.08
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (9 bp):
TAACTTACA
Found at i:60879232 original size:42 final size:43
Alignment explanation
Indices: 60879172--60879288 Score: 191
Period size: 42 Copynumber: 2.7 Consensus size: 43
60879162 TTTTTTATAT
*
60879172 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCATTTGT-AA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGTAAA
*
60879214 AAAAACGCCGCTACAGAACATGTTCTTTAGCGGCATTTGTAAAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGT-AAA
*
60879258 AAAAATGCCGCTAAAGAACATGTTCTTTAGC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGC
60879289 TTTAGCGGCG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 38 0.55
44 31 0.45
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGTAAA
Found at i:60881514 original size:29 final size:30
Alignment explanation
Indices: 60881482--60881576 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
60881472 GCAATCTGAT
* *
60881482 ACAT-AAACTTTTATTTGGTGCAATTATAC
1 ACATGAAACTTTCATTTGGTTCAATTATAC
* * *
60881511 ACATGAAACTTTGATTGTGGTTCAAATATAT
1 ACATGAAACTTTCATT-TGGTTCAATTATAC
* * *
60881542 TCATGAAACTTTCATTTTGATTCAGTTATAC
1 ACATGAAACTTTCA-TTTGGTTCAATTATAC
60881573 ACAT
1 ACAT
60881577 TTAAAGAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 4 0.08
30 10 0.19
31 36 0.69
32 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (30 bp):
ACATGAAACTTTCATTTGGTTCAATTATAC
Found at i:60886384 original size:34 final size:34
Alignment explanation
Indices: 60886346--60886412 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
60886336 AAAAAACCCC
* *
60886346 TAAACCCTACTTTAAATAAACAAAACTCTAACCT
1 TAAACCCTAATTTAAATAAACAAAACCCTAACCT
*
60886380 TAAACCCTAATTTTAATAAACAAAACCCTAACC
1 TAAACCCTAATTTAAATAAACAAAACCCTAACC
60886413 CTATTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (34 bp):
TAAACCCTAATTTAAATAAACAAAACCCTAACCT
Found at i:60889031 original size:31 final size:31
Alignment explanation
Indices: 60888996--60889059 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
60888986 TTTGTCGGGG
60888996 CTAAATTATTGCAAAAGGACCCCCCCGCCCA
1 CTAAATTATTGCAAAAGGACCCCCCCGCCCA
*
60889027 CTAAATTATTGCAAAAGGACGCCCCCGCCCA
1 CTAAATTATTGCAAAAGGACCCCCCCGCCCA
60889058 CT
1 CT
60889060 GACACATCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.38, G:0.14, T:0.17
Consensus pattern (31 bp):
CTAAATTATTGCAAAAGGACCCCCCCGCCCA
Found at i:60892915 original size:31 final size:31
Alignment explanation
Indices: 60892877--60892935 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
60892867 CTCACTTCAC
**
60892877 TCCCTAATATTATCAAGCATTCTCAATTTAG
1 TCCCTAATATTATCAAAAATTCTCAATTTAG
60892908 TCCCTAATATTATCAAAAATTCTCAATT
1 TCCCTAATATTATCAAAAATTCTCAATT
60892936 CAATTCTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (31 bp):
TCCCTAATATTATCAAAAATTCTCAATTTAG
Found at i:60893110 original size:22 final size:22
Alignment explanation
Indices: 60893085--60893165 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
60893075 TTGATGTAAA
60893085 AATTA-AAAACAGAAAATTATAT
1 AATTACAAAA-AGAAAATTATAT
*
60893107 AATTACAAAAAGAACATTATA-
1 AATTACAAAAAGAAAATTATAT
* *
60893128 AATATATAAAAA-AAACTTA-A-
1 AAT-TACAAAAAGAAAATTATAT
*
60893148 ATTTACAAAAA-AAAATTA
1 AATTACAAAAAGAAAATTA
60893166 AAAAATAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.26
20 3 0.06
21 8 0.16
22 22 0.44
23 4 0.08
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.26
Consensus pattern (22 bp):
AATTACAAAAAGAAAATTATAT
Found at i:60900193 original size:13 final size:13
Alignment explanation
Indices: 60900175--60900214 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
60900165 ATGTAGTATA
60900175 TTTATAAAAAAAT
1 TTTATAAAAAAAT
60900188 TTTATAAAAAAAT
1 TTTATAAAAAAAT
** *
60900201 AATATTAAAAAAT
1 TTTATAAAAAAAT
60900214 T
1 T
60900215 AATTTAGGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTATAAAAAAAT
Found at i:60901093 original size:8 final size:8
Alignment explanation
Indices: 60901067--60901158 Score: 50
Period size: 8 Copynumber: 12.0 Consensus size: 8
60901057 TAATATCTTG
60901067 AAAATATAT
1 AAAA-ATAT
*
60901076 AAAAAAAT
1 AAAAATAT
*
60901084 AAACATAT
1 AAAAATAT
***
60901092 AACTTTAT
1 AAAAATAT
60901100 AAAAA-AT
1 AAAAATAT
60901107 AAAAA-AT
1 AAAAATAT
60901114 AAAAA-A-
1 AAAAATAT
*
60901120 AAATATAT
1 AAAAATAT
*
60901128 -AAACTAT
1 AAAAATAT
**
60901135 AAATTTAT
1 AAAAATAT
60901143 AAAAATAT
1 AAAAATAT
*
60901151 ATAAATAT
1 AAAAATAT
60901159 GTAAAATTAC
Statistics
Matches: 63, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
6 4 0.06
7 21 0.33
8 34 0.54
9 4 0.06
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAAATAT
Found at i:60903481 original size:7 final size:7
Alignment explanation
Indices: 60903469--60903497 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
60903459 AACTTTCAAT
60903469 AAATAAA
1 AAATAAA
60903476 AAATAAA
1 AAATAAA
60903483 AAATAAA
1 AAATAAA
60903490 AAATAAA
1 AAATAAA
60903497 A
1 A
60903498 TTATTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:60915045 original size:27 final size:27
Alignment explanation
Indices: 60914991--60915046 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
60914981 ATACTGTTCC
* *
60914991 TTCAGAATGCGCCACAGAGGCATTTCA
1 TTCAGAATGCGCCACAAAGGCATATCA
*
60915018 TTCAGATTGTCGCCACAAAGGC-TATCA
1 TTCAGAATG-CGCCACAAAGGCATATCA
60915045 TT
1 TT
60915047 TTAGAGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (27 bp):
TTCAGAATGCGCCACAAAGGCATATCA
Found at i:60925483 original size:318 final size:318
Alignment explanation
Indices: 60924906--60925526 Score: 1242
Period size: 318 Copynumber: 2.0 Consensus size: 318
60924896 CTCAAATGAA
60924906 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
1 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
60924971 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
66 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
60925036 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
131 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
60925101 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
196 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
60925166 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAGATAAAACTTTTGGTC
261 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAGATAAAACTTTTGGTC
60925224 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
1 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
60925289 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
66 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
60925354 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
131 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
60925419 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
196 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
60925484 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAG
261 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAG
60925527 TTATATCATT
Statistics
Matches: 303, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
318 303 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (318 bp):
AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAGATAAAACTTTTGGTC
Found at i:60927036 original size:9 final size:9
Alignment explanation
Indices: 60927022--60927046 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
60927012 ACAAAAGCAT
60927022 GTTCACAAA
1 GTTCACAAA
60927031 GTTCACAAA
1 GTTCACAAA
60927040 GTTCACA
1 GTTCACA
60927047 CAATGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
GTTCACAAA
Found at i:60933813 original size:17 final size:16
Alignment explanation
Indices: 60933768--60933815 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
60933758 TTTATTTATT
60933768 TTTTATGTAGTTATTTTA
1 TTTTAT-TA-TTATTTTA
* *
60933786 TTTTTTTATTATTTTG
1 TTTTATTATTATTTTA
60933802 TTCTTATTATTATT
1 TT-TTATTATTATT
60933816 CTAACCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 9 0.35
17 12 0.46
18 5 0.19
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTTATTATTATTTTA
Found at i:60942080 original size:18 final size:18
Alignment explanation
Indices: 60942057--60942097 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
60942047 AAGTACTAAC
60942057 GCCACCTAGCCTAGATAA
1 GCCACCTAGCCTAGATAA
60942075 GCCACCTAGCCTAGATAA
1 GCCACCTAGCCTAGATAA
60942093 GCCAC
1 GCCAC
60942098 TGATACTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.37, G:0.17, T:0.15
Consensus pattern (18 bp):
GCCACCTAGCCTAGATAA
Found at i:60945355 original size:44 final size:44
Alignment explanation
Indices: 60945189--60945649 Score: 392
Period size: 44 Copynumber: 10.3 Consensus size: 44
60945179 ATCACCATAG
* * * *
60945189 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGAAGATTTAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * *
60945233 TAGATCCTA-CACCCCTGAAGTCGCAGTGG-GACAGATTGAATCTACCATA
1 CAAATCTTATC-TCCCTGAAGTTGCAGTGGAG-CAGATT-AA---AGC-TA
* * * * *
60945282 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGTAAATTAAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
60945327 CAAATCTTATCTCCTTGAAATTGTAGTGGAACAGATTAAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
60945371 CAAATTTTATCTCCTTGAAGTTGCAGTGGAACAGATTACAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * ** *
60945415 CAAACCTTATCTCCCTAAAGTTGCAGAAGAGCAGATTGAAGCTATAACAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC--T----A
* * *
60945465 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
60945509 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAA---A
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
60945550 CAAACCTTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * *
60945594 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
60945638 CAAATCTTATCT
1 CAAATCTTATCT
60945650 TGCTAAAGTT
Statistics
Matches: 333, Mismatches: 65, Indels: 38
0.76 0.15 0.09
Matches are distributed among these distances:
41 35 0.11
43 2 0.01
44 221 0.66
45 3 0.01
46 2 0.01
48 3 0.01
49 4 0.01
50 62 0.19
51 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:60945355 original size:94 final size:93
Alignment explanation
Indices: 60945152--60945622 Score: 355
Period size: 94 Copynumber: 5.2 Consensus size: 93
60945142 ATTCTATACT
** * * *
60945152 CTTGAAGTTATAGTGGGTCAGATTGAAATCACCATAGCAAATCTTATCTCCCTAAAGTTGCAGTA
1 CTTGAAGTTGCAGTGGGACAGATTG-AATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTG
* * * * *
60945217 GAG-AAGATTTAAGCTATAGATCCTA-CACC
65 GAGCAA-ATTAAAGCTACAAATCTTATC-TC
* * * *
60945246 CCTGAAGTCGCAGTGGGACAGATTGAATCTACCATAGCGAATCTTATTTCCCTGAAGTTGCAGTG
1 CTTGAAGTTGCAGTGGGACAGATTGAATC-ACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTG
* *
60945311 GAGTAAATTAAAGTTACAAATCTTATCTC
65 GAGCAAATTAAAGCTACAAATCTTATCTC
* * * * * *
60945340 CTTGAAATTGTAGTGGAACAGATT-AA--A-GATA-CAAATTTTATCTCCTTGAAGTTGCAGTGG
1 CTTGAAGTTGCAGTGGGACAGATTGAATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
60945400 AACAGATTACAGCTACAAACCTTATCTC
66 AGCAAATTAAAGCTACAAATCTTATCTC
* * ** * ** * *
60945428 CCTAAAGTTGCAG-AAGAGCAGATTGAAGCTATAACAACAAATCTTATCTCCCTGAAGTTGCAGT
1 CTTGAAGTTGCAGTGGGA-CAGATTGAATC-ACCATAGCAAATCTTATCTCCCTGAAGTTGCAGT
* * * *
60945492 GGAGCAGACTGAATCTACAAATCTTATCTC
64 GGAGCAAATTAAAGCTACAAATCTTATCTC
* *
60945522 CTTGAAGTTGCAGT-GGAGTAGATT--A--A--A-A-CAAACCTTATCTCCCTGAAGTTGCAGTG
1 CTTGAAGTTGCAGTGGGA-CAGATTGAATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTG
* ** *
60945578 GAACGGATTGAAGCTACAAATCTTATCTC
65 GAGCAAATTAAAGCTACAAATCTTATCTC
60945607 CTTGAAGTTGCAGTGG
1 CTTGAAGTTGCAGTGG
60945623 AGCATATTGA
Statistics
Matches: 308, Mismatches: 57, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
85 66 0.21
86 2 0.01
87 2 0.01
88 62 0.20
89 6 0.02
90 1 0.00
92 2 0.01
93 8 0.03
94 156 0.51
95 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (93 bp):
CTTGAAGTTGCAGTGGGACAGATTGAATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAAATTAAAGCTACAAATCTTATCTC
Found at i:60945606 original size:85 final size:85
Alignment explanation
Indices: 60945463--60945624 Score: 279
Period size: 85 Copynumber: 1.9 Consensus size: 85
60945453 AAGCTATAAC
* * *
60945463 AACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATCTACAAATCTTATCTCCTTGAA
1 AACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGCTACAAATCTTATCTCCTTGAA
60945528 GTTGCAGTGGAGTAGATTAA
66 GTTGCAGTGGAGTAGATTAA
* *
60945548 AACAAACCTTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGCTACAAATCTTATCTCCTTGAA
1 AACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGCTACAAATCTTATCTCCTTGAA
60945613 GTTGCAGTGGAG
66 GTTGCAGTGGAG
60945625 CATATTGAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (85 bp):
AACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGCTACAAATCTTATCTCCTTGAA
GTTGCAGTGGAGTAGATTAA
Found at i:60945636 original size:179 final size:182
Alignment explanation
Indices: 60945285--60945637 Score: 482
Period size: 179 Copynumber: 2.0 Consensus size: 182
60945275 TACCATAGCG
* * *
60945285 AATCTTATTTCCCTGAAGTTGCAGTGGAGTAAATTAAAGTTACAAATCTTATCTCCTTGAAATTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGTTACAAATCTTATCTCCTTGAAATTG
* ** *
60945350 TAGTGGAACAGATTAAAGATACAAATTTTATCTCCTTGAAGTTGCAGTGGAACAGATTACAGCTA
66 CAGTGGAACAGATTAAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTACAGCTA
60945415 CAAACCTTATCTCCCTAAAGTTGCAGAAGAGCAGATTGAAGCTATAACAACA
131 CAAACCTTATCTCCCTAAAGTTGCAGAAGAGCAGATTGAAGCTATAACAACA
* * *
60945467 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-TCTACAAATCTTATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGT-TACAAATCTTATCTCCTTGAAATT
** *
60945531 GCAGTGGAGTAGATT-AA-A-ACAAACCTTATCTCCCTGAAGTTGCAGTGGAACGGATTGA-AGC
65 GCAGTGGAACAGATTAAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATT-ACAGC
* * * ** *
60945592 TACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTA
129 TACAAACCTTATCTCCCTAAAGTTGCAGAAGAGCAGATTGAAGCTA
60945638 CAAATCTTAT
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
179 77 0.51
180 2 0.01
181 3 0.02
182 68 0.45
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (182 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGTTACAAATCTTATCTCCTTGAAATTG
CAGTGGAACAGATTAAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTACAGCTA
CAAACCTTATCTCCCTAAAGTTGCAGAAGAGCAGATTGAAGCTATAACAACA
Found at i:60947809 original size:11 final size:11
Alignment explanation
Indices: 60947793--60947818 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60947783 CCCTTTTTCT
60947793 AAAAAAAATAA
1 AAAAAAAATAA
60947804 AAAAAAAATAA
1 AAAAAAAATAA
60947815 AAAA
1 AAAA
60947819 TATTGTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:60951886 original size:5 final size:5
Alignment explanation
Indices: 60951876--60951901 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60951866 TGAGCATTCG
60951876 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
60951902 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:60951999 original size:5 final size:5
Alignment explanation
Indices: 60951991--60952016 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60951981 GAGATGGAAT
60951991 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
60952017 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:60952401 original size:9 final size:9
Alignment explanation
Indices: 60952387--60952415 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
60952377 TGAACAATTC
60952387 AATAATATA
1 AATAATATA
60952396 AATAATATA
1 AATAATATA
60952405 AATAATATA
1 AATAATATA
60952414 AA
1 AA
60952416 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:60952708 original size:30 final size:31
Alignment explanation
Indices: 60952669--60952728 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
60952659 GGAGGTGGGA
*
60952669 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
60952700 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
60952729 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:60952955 original size:9 final size:9
Alignment explanation
Indices: 60952941--60952977 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
60952931 TATAGTTTGA
60952941 TATTCGAAT
1 TATTCGAAT
60952950 TATTCGAAT
1 TATTCGAAT
*
60952959 TATTCGAGT
1 TATTCGAAT
60952968 TATTCGAAT
1 TATTCGAAT
60952977 T
1 T
60952978 TGAAAACGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60953054 original size:9 final size:9
Alignment explanation
Indices: 60953031--60953072 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
60953021 TCAAGTTGAT
*
60953031 TCGAATAAC
1 TCGATTAAC
*
60953040 TTGATTAAC
1 TCGATTAAC
60953049 TCGATTAAC
1 TCGATTAAC
*
60953058 TCGAATAAC
1 TCGATTAAC
60953067 TCGATT
1 TCGATT
60953073 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:60954282 original size:31 final size:30
Alignment explanation
Indices: 60954247--60954317 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
60954237 AGAGAAGAAG
* * * *
60954247 AAGTATAAACATATTGGGCCATTTATATAAA
1 AAGTAAAAAAATATTGGACCATATAT-TAAA
60954278 AAGTAAAAAAATATTGGACCATATATTAAA
1 AAGTAAAAAAATATTGGACCATATATTAAA
*
60954308 AA-CAAAAAAA
1 AAGTAAAAAAA
60954318 GAAGGACGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 7 0.20
30 6 0.17
31 22 0.63
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.25
Consensus pattern (30 bp):
AAGTAAAAAAATATTGGACCATATATTAAA
Found at i:60963404 original size:5 final size:5
Alignment explanation
Indices: 60963394--60963425 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
60963384 AGAGGTGAAT
60963394 TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TA
60963426 GAGTTAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:60963865 original size:37 final size:37
Alignment explanation
Indices: 60963824--60963896 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
60963814 ATATTTTTAT
60963824 ATTTCCCTATGGATTTACTACAAATTTCAATTGATTC
1 ATTTCCCTATGGATTTACTACAAATTTCAATTGATTC
* *
60963861 ATTTCCCTATGGGTTTACTCCAAATTTCAATTGATT
1 ATTTCCCTATGGATTTACTACAAATTTCAATTGATT
60963897 GATTAGAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (37 bp):
ATTTCCCTATGGATTTACTACAAATTTCAATTGATTC
Found at i:60972098 original size:12 final size:11
Alignment explanation
Indices: 60972078--60972108 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
60972068 AATATAATTT
60972078 AAAA-TAAAAA
1 AAAACTAAAAA
60972088 AAAACTAAAAA
1 AAAACTAAAAA
60972099 AAAACTAAAA
1 AAAACTAAAA
60972109 CTAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAACTAAAAA
Found at i:60972483 original size:20 final size:18
Alignment explanation
Indices: 60972443--60972479 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
60972433 AGTGTCGTAT
60972443 TTTATTTTTAAACATATA
1 TTTATTTTTAAACATATA
*
60972461 TTTATATTTTAAATATATA
1 TTTAT-TTTTAAACATATA
60972480 ATTTTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATTTTTAAACATATA
Found at i:60974104 original size:20 final size:21
Alignment explanation
Indices: 60974059--60974105 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
60974049 CAAAAGATAA
* *
60974059 ATAATAAAATTATATTATTTT
1 ATAATAAAATTATATTATGTG
60974080 A-AATAAAATTA-ATTATGTG
1 ATAATAAAATTATATTATGTG
60974099 ATAATAA
1 ATAATAA
60974106 GTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATAATAAAATTATATTATGTG
Found at i:60976445 original size:22 final size:22
Alignment explanation
Indices: 60976418--60976466 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
60976408 CACACTAGTA
* *
60976418 TATGAAAGCCCTTTATAGGTAG
1 TATGAAAACCCTTTACAGGTAG
60976440 TATGAAAACCCTTTACAGGTAG
1 TATGAAAACCCTTTACAGGTAG
60976462 TATGA
1 TATGA
60976467 GACTCTGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (22 bp):
TATGAAAACCCTTTACAGGTAG
Found at i:60981292 original size:82 final size:82
Alignment explanation
Indices: 60981155--60981318 Score: 247
Period size: 82 Copynumber: 2.0 Consensus size: 82
60981145 ACCGGGTTAT
* * * *
60981155 ATTTAACCTAAAGGGACCATGAATATCCTATGAGGGTAACACACATATAATAAGTTCATTGGATA
1 ATTTAACCTAAACGGACCATGAATATCCTATGAAGATAACACACATATAACAAGTTCATTGGATA
60981220 AAAGTTTAATTAAGTAG
66 AAAGTTTAATTAAGTAG
* * * * *
60981237 ATTTAACCTAAACGGATCATGAATATCCTATGAAGATAATACATATATGACAAGTTTATTGGATA
1 ATTTAACCTAAACGGACCATGAATATCCTATGAAGATAACACACATATAACAAGTTCATTGGATA
60981302 AAAGTTTAATTAAGTAG
66 AAAGTTTAATTAAGTAG
60981319 CTTTTGTCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (82 bp):
ATTTAACCTAAACGGACCATGAATATCCTATGAAGATAACACACATATAACAAGTTCATTGGATA
AAAGTTTAATTAAGTAG
Found at i:60982137 original size:19 final size:18
Alignment explanation
Indices: 60982113--60982173 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 18
60982103 AAAGGGTGAG
60982113 AAGTAAAAGTTTAGGGGGA
1 AAGTAAAAGTTT-GGGGGA
*
60982132 AAGTAAAAAGTTTTGGGG-
1 AAGT-AAAAGTTTGGGGGA
*
60982150 AA-TAAAAGTTTGAGGGA
1 AAGTAAAAGTTTGGGGGA
60982167 AAGTAAA
1 AAGTAAA
60982174 TAGGGGGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.31
17 3 0.08
18 6 0.17
19 8 0.22
20 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (18 bp):
AAGTAAAAGTTTGGGGGA
Found at i:60982188 original size:32 final size:33
Alignment explanation
Indices: 60982114--60982200 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 33
60982104 AAGGGTGAGA
* *
60982114 AGTAAAAGTTTAGGGGGAAAGTAAAAAGTTTTGGGG
1 AGTAAAAGTTT-GAGGGAAAGTAAAAAG--TGGGGG
* *
60982150 AATAAAAGTTTGAGGGAAAGTAAATAG-GGGGG
1 AGTAAAAGTTTGAGGGAAAGTAAAAAGTGGGGG
* *
60982182 AGTAAAATTTTGAAGGAAA
1 AGTAAAAGTTTGAGGGAAA
60982201 AATATTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 20 0.45
35 14 0.32
36 10 0.23
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (33 bp):
AGTAAAAGTTTGAGGGAAAGTAAAAAGTGGGGG
Found at i:60982539 original size:9 final size:9
Alignment explanation
Indices: 60982525--60982561 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
60982515 TATAGTTTGA
60982525 TATTCGAAT
1 TATTCGAAT
60982534 TATTCGAAT
1 TATTCGAAT
*
60982543 TATTCGAGT
1 TATTCGAAT
*
60982552 TATTTGAAT
1 TATTCGAAT
60982561 T
1 T
60982562 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60993300 original size:81 final size:81
Alignment explanation
Indices: 60993196--60993430 Score: 371
Period size: 81 Copynumber: 2.9 Consensus size: 81
60993186 CACCTGCCCT
* *
60993196 GTTTGCTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTTGGAGGAGATAAAT
1 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
*
60993261 CAGTACCATCTGTTCG
66 CAGTACCATCTGCTCG
*
60993277 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTACGTTTCCTAGGAGGAGATAAAT
1 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
*
60993342 CAGTACCATCTGCTCT
66 CAGTACCATCTGCTCG
* * * * *
60993358 GTTTACTAAAGCTTCTGGTGAGGGTGTGTCATTCCTAACCCTCCGCTTCCGAGGAGGAGATAAAT
1 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
*
60993423 CAGAACCA
66 CAGTACCA
60993431 CCTCTAGAAG
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 142 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (81 bp):
GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
CAGTACCATCTGCTCG
Found at i:60999157 original size:21 final size:21
Alignment explanation
Indices: 60999131--60999171 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60999121 ATCTGCTCAA
* *
60999131 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
60999152 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
60999172 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61005090 original size:65 final size:65
Alignment explanation
Indices: 61004986--61005111 Score: 207
Period size: 65 Copynumber: 1.9 Consensus size: 65
61004976 TAAACAGTAT
* * * *
61004986 GAATATCATGTTGTAGTAGCTATGGAACTTTTATAATACGATTTGGATAGGATATATATATACAC
1 GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATAGGATATACATATACAC
*
61005051 GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATTGGATATACATAT
1 GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATAGGATATACATAT
61005112 TGATATCTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (65 bp):
GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATAGGATATACATATACAC
Found at i:61013507 original size:105 final size:105
Alignment explanation
Indices: 61013260--61013630 Score: 576
Period size: 103 Copynumber: 3.6 Consensus size: 105
61013250 AACCGTTATT
* * * *
61013260 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAACACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
61013325 ATCAGCACATAGCAACCCCCTTTT--CATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
61013363 GGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATCA-CGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
61013427 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
*
61013468 GGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
61013533 ATCAGCACATAGCAACCCCC-TTTCACATTT-AAAAATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
**
61013571 GGTGGACTCA-GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTC
1 GGTGGA-TCACGCACTTAGC-ACCACCAATGAA-CCGGGGAATCAGCACTTAGCAACCCCTC
61013631 TATATGTAAT
Statistics
Matches: 250, Mismatches: 11, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
103 106 0.42
104 48 0.19
105 95 0.38
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
Found at i:61016445 original size:147 final size:147
Alignment explanation
Indices: 61016173--61016463 Score: 485
Period size: 147 Copynumber: 2.0 Consensus size: 147
61016163 TCCTTTAGCT
* *
61016173 ACCCATTTCAGACTTTCATCTGCTTTGTCTCTATAATCAGATGATGAGATTGAGTACATGTCACA
1 ACCCATTTCAGACTTTCATCTGCTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCACA
** * *
61016238 TGTTCCATGCTTTAGTGCAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTAT
66 TGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTAT
61016303 CATATGCAATCAGTACA
131 CATATGCAATCAGTACA
*
61016320 ACCCATTTTAGACTTTCAT-TGACTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCAC
1 ACCCATTTCAGACTTTCATCTG-CTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCAC
*
61016384 ATGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTTCAGATTTA
65 ATGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTA
*
61016449 TCATATGCAGTCAGT
130 TCATATGCAATCAGT
61016464 GCAGTTAGCA
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
146 2 0.01
147 132 0.99
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (147 bp):
ACCCATTTCAGACTTTCATCTGCTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCACA
TGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTAT
CATATGCAATCAGTACA
Found at i:61017526 original size:19 final size:19
Alignment explanation
Indices: 61017502--61017541 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
61017492 TTTTACATAG
61017502 TTATT-ATTTTGAATATTTA
1 TTATTAATTTTGAA-ATTTA
*
61017521 TTATTAATTTTTAAATTTA
1 TTATTAATTTTGAAATTTA
61017540 TT
1 TT
61017542 TATTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATTAATTTTGAAATTTA
Found at i:61022068 original size:26 final size:26
Alignment explanation
Indices: 61022033--61022221 Score: 83
Period size: 24 Copynumber: 7.6 Consensus size: 26
61022023 ACAGCTCTTA
*
61022033 TGAGCGTCCCGATATATGGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTTCG
** *
61022059 TGAGCTTCCCGAT-TAAAAGCTCTTTG
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* * *
61022085 TGAGCTTCCCGATA-CTGGCTC-ACT
1 TGAGCTTCCCGATATATGGCTCTTCG
* * * * * *
61022109 TAAACTTCCTGATATATGGTTATCCG
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
61022135 -GAGCTTCCCGTTA-ATGGCTCTTTG
1 TGAGCTTCCCGATATATGGCTCTTCG
* * * * *
61022159 -GAGCTACTCGTTAT-TGGCT-TGCA
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
61022182 TGAGCTTCCTGAT-TATGGCTCTT-A
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
61022206 TGAGCTTTCCGTTATA
1 TGAGCTTCCCGATATA
61022222 CGGCCCGGAT
Statistics
Matches: 115, Mismatches: 39, Indels: 19
0.66 0.23 0.11
Matches are distributed among these distances:
23 2 0.02
24 58 0.50
25 21 0.18
26 34 0.30
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TGAGCTTCCCGATATATGGCTCTTCG
Found at i:61025703 original size:6 final size:6
Alignment explanation
Indices: 61025692--61025730 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
61025682 ATTATATTAT
61025692 CCCGCA CCCGCA CCCGCA CCCGCA CCCGCA CCCGCA CCC
1 CCCGCA CCCGCA CCCGCA CCCGCA CCCGCA CCCGCA CCC
61025731 AAACCCAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.69, G:0.15, T:0.00
Consensus pattern (6 bp):
CCCGCA
Found at i:61025736 original size:18 final size:18
Alignment explanation
Indices: 61025697--61025736 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
61025687 ATTATCCCGC
**
61025697 ACCCGCACCCGCACCCGC
1 ACCCGCACCCGCACCCAA
61025715 ACCCGCACCCGCACCCAA
1 ACCCGCACCCGCACCCAA
61025733 ACCC
1 ACCC
61025737 AAACCCGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.65, G:0.12, T:0.00
Consensus pattern (18 bp):
ACCCGCACCCGCACCCAA
Found at i:61036845 original size:20 final size:20
Alignment explanation
Indices: 61036807--61036844 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61036797 TTTTTTTTGG
61036807 TACTTCCTTATAATTTTTTA
1 TACTTCCTTATAATTTTTTA
61036827 TACTT-CTTCAT-ATTTTTT
1 TACTTCCTT-ATAATTTTTT
61036845 TTTGGGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (20 bp):
TACTTCCTTATAATTTTTTA
Found at i:61037904 original size:39 final size:41
Alignment explanation
Indices: 61037850--61037937 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 41
61037840 TTCGAATCCT
61037850 TGAAAAGGTTGAAAAGGATG-TATCCG-AAAGGAT-ATCAAA
1 TGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATGA-CAAA
*
61037889 TGAAAAGGTTGAAAAGGATGTTATTCGAAAAGGATGACAAA
1 TGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATGACAAA
*
61037930 AGAAAAGG
1 TGAAAAGG
61037938 ATGTGTTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 20 0.45
40 5 0.11
41 18 0.41
42 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.27, T:0.19
Consensus pattern (41 bp):
TGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATGACAAA
Found at i:61043042 original size:71 final size:72
Alignment explanation
Indices: 61042955--61043093 Score: 178
Period size: 71 Copynumber: 1.9 Consensus size: 72
61042945 GCCACAACTG
*
61042955 GGTTGGTACCAATACAAGTCCCCAAAGAAGT-TTAAGGG-GTAAATTGTCT-AGGTTGTT-GCGA
1 GGTTGGTACCAATACAAGTCCCCAAAGAAGTCTT-AGGGAGTAAACTG-CTGAGGTTGTTAG-GA
61043016 TACAACTCCT
63 TACAACTCCT
** * *
61043026 GGTTGGTACCGGTACAAGTCCTCAAAGGAGTCTTAGGGAGTAAACTGCTGAGGTTGTTAGGATAC
1 GGTTGGTACCAATACAAGTCCCCAAAGAAGTCTTAGGGAGTAAACTGCTGAGGTTGTTAGGATAC
61043091 AAC
66 AAC
61043094 CCCAGGCTGG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
71 33 0.56
72 25 0.42
73 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (72 bp):
GGTTGGTACCAATACAAGTCCCCAAAGAAGTCTTAGGGAGTAAACTGCTGAGGTTGTTAGGATAC
AACTCCT
Found at i:61043114 original size:72 final size:71
Alignment explanation
Indices: 61042958--61043118 Score: 177
Period size: 72 Copynumber: 2.3 Consensus size: 71
61042948 ACAACTGGGT
* * *
61042958 TGGTACCAATACAAGTCCCCAAAGAAGTTTAAGGGGTAAATTGTCTAGGTTGTTGCGATACAACT
1 TGGTACCGATACAAGTCCCCAAAGAAGTTTAAGGGGTAAACTGTCTAGGTTGTTGCGATACAACC
* *
61043023 CCTGGT
66 CCAGGC
* * *
61043029 TGGTACCGGTACAAGTCCTCAAAGGAGTCTT-AGGGAGTAAACTG-CTGAGGTTGTTAG-GATAC
1 TGGTACCGATACAAGTCCCCAAAGAAGT-TTAAGGG-GTAAACTGTCT-AGGTTGTT-GCGATAC
61043091 AACCCCAGGC
62 AACCCCAGGC
*
61043101 TGGTACTGATACAA-TCCC
1 TGGTACCGATACAAGTCCC
61043119 AGATTGGTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
71 33 0.44
72 41 0.55
73 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (71 bp):
TGGTACCGATACAAGTCCCCAAAGAAGTTTAAGGGGTAAACTGTCTAGGTTGTTGCGATACAACC
CCAGGC
Found at i:61043126 original size:22 final size:22
Alignment explanation
Indices: 61043086--61043128 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61043076 AGGTTGTTAG
*
61043086 GATACAACCCCAGGCTGGTACT
1 GATACAACCCCAGACTGGTACT
* *
61043108 GATACAATCCCAGATTGGTAC
1 GATACAACCCCAGACTGGTAC
61043129 CAACACAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (22 bp):
GATACAACCCCAGACTGGTACT
Found at i:61050628 original size:20 final size:20
Alignment explanation
Indices: 61050582--61050628 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
61050572 ATAAATATTT
*
61050582 TTAAAAATATAACAATAAAT
1 TTAAAAATATAACAATAAAA
* *
61050602 TTTAAAATAT-ACATTACAAA
1 TTAAAAATATAACAATA-AAA
61050622 TTAAAAA
1 TTAAAAA
61050629 AAACACCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAAATATAACAATAAAA
Found at i:61051090 original size:5 final size:5
Alignment explanation
Indices: 61051080--61051136 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
61051070 TTGGGGAAGG
*
61051080 TTTTA TTTTA TTTTA TTTTA TTTTA TATTTAA TTTAA TTAATTA TTTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTT-A TTTTA TT--TTA TTTTA
61051128 TTTTA TTTT
1 TTTTA TTTT
61051137 GAATATAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 30 0.67
6 5 0.11
7 6 0.13
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:61051792 original size:21 final size:22
Alignment explanation
Indices: 61051768--61051905 Score: 82
Period size: 20 Copynumber: 6.7 Consensus size: 22
61051758 TTCCCTTGTA
61051768 AATTTTTTGGTACTTCC-TTAT
1 AATTTTTTGGTACTTCCTTTAT
* *
61051789 AATTTTTT-ATACTT-CTTCAT
1 AATTTTTTGGTACTTCCTTTAT
* *
61051809 ATTTTTTTTGGGTA-TTCCTTTGT
1 A-ATTTTTT-GGTACTTCCTTTAT
* *
61051832 AA-TTTTTGGTA-TTCCCTCAT
1 AATTTTTTGGTACTTCCTTTAT
* * *
61051852 -ATTTTTTTGTAC--CCGTAAT
1 AATTTTTTGGTACTTCCTTTAT
* *
61051871 AGTTTTTAGGTAC-TCCTTTAT
1 AATTTTTTGGTACTTCCTTTAT
61051892 AA-TTTTTGGTACTT
1 AATTTTTTGGTACTT
61051906 TTTAGTACTT
Statistics
Matches: 87, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
19 7 0.08
20 45 0.52
21 26 0.30
22 2 0.02
23 7 0.08
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.57
Consensus pattern (22 bp):
AATTTTTTGGTACTTCCTTTAT
Found at i:61051816 original size:20 final size:20
Alignment explanation
Indices: 61051748--61051815 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
61051738 ACTTCATCGT
*
61051748 ATTTTTTATA-TTCCCTTGTAA
1 ATTTTTTATACTT-CCTTAT-A
*
61051769 ATTTTTTGGTACTTCCTTATA
1 ATTTTTT-ATACTTCCTTATA
61051790 ATTTTTTATACTT-CTTCAT-
1 ATTTTTTATACTTCCTT-ATA
61051809 ATTTTTT
1 ATTTTTT
61051816 TTGGGTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 10 0.24
20 7 0.17
21 15 0.37
22 7 0.17
23 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTTTATACTTCCTTATA
Found at i:61052914 original size:39 final size:41
Alignment explanation
Indices: 61052821--61052920 Score: 134
Period size: 39 Copynumber: 2.5 Consensus size: 41
61052811 TTAGAATCCT
* *
61052821 TGAAAAGGTTGAAAAGGATGTTATTCGAAAGGGATAACACA
1 TGAAAAGGTTGAAAAGGATGTTATCCGAAAGGGATAACAAA
* *
61052862 TGGAAAA-GATGAAAAGGATG-TATCCGAAA-GGATATCAAA
1 T-GAAAAGGTTGAAAAGGATGTTATCCGAAAGGGATAACAAA
61052901 TGAAAAGGTTGAAAAGGATG
1 TGAAAAGGTTGAAAAGGATG
61052921 ACAAATGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
38 5 0.10
39 21 0.40
40 8 0.15
41 13 0.25
42 5 0.10
ACGTcount: A:0.46, C:0.06, G:0.28, T:0.20
Consensus pattern (41 bp):
TGAAAAGGTTGAAAAGGATGTTATCCGAAAGGGATAACAAA
Found at i:61057072 original size:17 final size:18
Alignment explanation
Indices: 61057050--61057085 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
61057040 AATCTATATA
*
61057050 TATGTATATTTAT-TTTT
1 TATGTACATTTATATTTT
61057067 TATGTACATTTATATTTT
1 TATGTACATTTATATTTT
61057085 T
1 T
61057086 TCCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (18 bp):
TATGTACATTTATATTTT
Found at i:61063898 original size:3 final size:3
Alignment explanation
Indices: 61063890--61063917 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61063880 AATTCAAAAG
61063890 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
61063918 AAGAAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61076550 original size:20 final size:20
Alignment explanation
Indices: 61076525--61076564 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
61076515 AGTCTTTCTG
61076525 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
61076545 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
61076565 TTCATCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.45, G:0.05, T:0.40
Consensus pattern (20 bp):
CGATTTCCCCTCATCCTTTC
Found at i:61078229 original size:17 final size:17
Alignment explanation
Indices: 61078207--61078239 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61078197 TTATTTTCTA
61078207 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
61078224 TATAAGTTTTGTAAAT
1 TATAAGTTTTCTAAAT
61078240 AATTATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:61078302 original size:20 final size:21
Alignment explanation
Indices: 61078277--61078324 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
61078267 TTTTTTAAAA
61078277 AAAAATTATTATAT-TGTTTT
1 AAAAATTATTATATATGTTTT
* *
61078297 AAAAATAATTATATATTTTTT
1 AAAAATTATTATATATGTTTT
61078318 AAAAATT
1 AAAAATT
61078325 TAAATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AAAAATTATTATATATGTTTT
Found at i:61078331 original size:21 final size:20
Alignment explanation
Indices: 61078267--61078323 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 20
61078257 TAGTATAATT
*
61078267 TTTTTTAAAAAAAAATTATTATA
1 TTTTTT-AAAAATAA-TA-TATA
61078290 TTGTTTTAAAAATAATTATATA
1 TT-TTTTAAAAATAA-TATATA
61078312 TTTTTTAAAAAT
1 TTTTTTAAAAAT
61078324 TTAAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 10 0.31
22 6 0.19
23 12 0.38
24 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTTTAAAAATAATATATA
Found at i:61078339 original size:21 final size:20
Alignment explanation
Indices: 61078287--61078334 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
61078277 AAAAATTATT
*
61078287 ATATTGTTTTAAAAATAATTAT
1 ATATT-TTTTAAAAAT-ATTAA
61078309 ATATTTTTTAAAAAT-TTAA
1 ATATTTTTTAAAAATATTAA
61078328 ATATTTT
1 ATATTTT
61078335 ATTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
21 10 0.40
22 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATATTTTTTAAAAATATTAA
Found at i:61078492 original size:21 final size:20
Alignment explanation
Indices: 61078466--61078523 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
61078456 TTACATAATA
*
61078466 CATAACTTATATATAAGTTT
1 CATAACTTATATATAACTTT
* *
61078486 GTATAACTTACATAATAACTTT
1 -CATAACTTATAT-ATAACTTT
61078508 CATAACTTATATATAA
1 CATAACTTATATATAA
61078524 TCTGATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 20 0.65
22 7 0.23
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.41
Consensus pattern (20 bp):
CATAACTTATATATAACTTT
Found at i:61078545 original size:12 final size:14
Alignment explanation
Indices: 61078528--61078564 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
61078518 ATATAATCTG
61078528 ATAATACAT-T-AC
1 ATAATACATATAAC
61078540 ATAATACATAATAAC
1 ATAATACAT-ATAAC
61078555 ATAATACATA
1 ATAATACATA
61078565 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:61078550 original size:38 final size:38
Alignment explanation
Indices: 61078425--61078550 Score: 121
Period size: 38 Copynumber: 3.2 Consensus size: 38
61078415 ATTTTACAGC
* ** *
61078425 ATACATAACGTATATATAATAACATAATAAATTACATA
1 ATACATAACTTATATATAATATGATAATACATTACATA
*
61078463 ATACATAACTTATATATAAGTTTGTATAACTTACA-TA-ATA
1 ATACATAACTTATATATAA-TATG-ATAA--TACATTACATA
* *
61078503 ACTTTCATAACTTATATATAATCTGATAATACATTACATA
1 A--TACATAACTTATATATAATATGATAATACATTACATA
61078543 ATACATAA
1 ATACATAA
61078551 TAACATAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
38 28 0.39
39 3 0.04
40 16 0.22
41 5 0.07
42 20 0.28
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (38 bp):
ATACATAACTTATATATAATATGATAATACATTACATA
Found at i:61078558 original size:8 final size:7
Alignment explanation
Indices: 61078528--61078565 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
61078518 ATATAATCTG
61078528 ATAATAC
1 ATAATAC
61078535 AT--TAC
1 ATAATAC
61078540 ATAATAC
1 ATAATAC
61078547 ATAATAAC
1 ATAAT-AC
61078555 ATAATAC
1 ATAATAC
61078562 ATAA
1 ATAA
61078566 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:61078577 original size:27 final size:27
Alignment explanation
Indices: 61078508--61078578 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
61078498 TAATAACTTT
***
61078508 CATAACTTATA-TATAATCTGATAATA
1 CATAACTTATATTATAATAACATAATA
* * *
61078534 CATTACATA-ATACATAATAACATAATA
1 CATAACTTATAT-TATAATAACATAATA
61078561 CATAACTTATATTATAAT
1 CATAACTTATATTATAAT
61078579 CTTGCATAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTATATTATAATAACATAATA
Found at i:61078586 original size:22 final size:21
Alignment explanation
Indices: 61078561--61078612 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
61078551 TAACATAATA
* * *
61078561 CATAACTTATATTATAATCTTG
1 CATAACTTACATAATAA-CTTC
61078583 CATAACTTACATAATAACTTC
1 CATAACTTACATAATAACTTC
61078604 CATAACTTA
1 CATAACTTA
61078613 ATACACCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (21 bp):
CATAACTTACATAATAACTTC
Found at i:61078711 original size:9 final size:9
Alignment explanation
Indices: 61078683--61078988 Score: 223
Period size: 9 Copynumber: 35.2 Consensus size: 9
61078673 CATATATAGA
*
61078683 AACTGACAT
1 AACTTACAT
* *
61078692 AAATTAAAT
1 AACTTACAT
61078701 AACTTACAT
1 AACTTACAT
61078710 AACTTACAT
1 AACTTACAT
*
61078719 AAATTA-AGT
1 AACTTACA-T
61078728 AACTTACAT
1 AACTTACAT
61078737 AACTTACAT
1 AACTTACAT
*
61078746 AACCTACAT
1 AACTTACAT
* *
61078755 AAATTAAAT
1 AACTTACAT
61078764 AACTTACAT
1 AACTTACAT
61078773 AACTTACAT
1 AACTTACAT
61078782 AACTTACAT
1 AACTTACAT
* *
61078791 AAATTAAAT
1 AACTTACAT
61078800 AACTTACAT
1 AACTTACAT
61078809 AACTTACAT
1 AACTTACAT
* *
61078818 AAATTAAAT
1 AACTTACAT
*
61078827 TACTTACAT
1 AACTTACAT
61078836 AACTTACAT
1 AACTTACAT
*
61078845 TA--TACAT
1 AACTTACAT
*
61078852 AACCTT-CTT
1 AA-CTTACAT
61078861 AACTTACAT
1 AACTTACAT
* *
61078870 TA--TACAC
1 AACTTACAT
* *
61078877 GACTCACAT
1 AACTTACAT
61078886 AA-TTA-AT
1 AACTTACAT
*
61078893 -A-TTACGTTTT
1 AACTTAC---AT
61078903 AACTTACAT
1 AACTTACAT
*
61078912 AA-TAAC-T
1 AACTTACAT
**
61078919 TTCTTACAT
1 AACTTACAT
61078928 AACTTACAT
1 AACTTACAT
61078937 AACTTACAT
1 AACTTACAT
*
61078946 TACTTACAGT
1 AACTTACA-T
61078956 -ACTTACAT
1 AACTTACAT
61078964 AA--TACAT
1 AACTTACAT
*
61078971 AA--TATAT
1 AACTTACAT
61078978 AACTTACAT
1 AACTTACAT
61078987 AA
1 AA
61078989 TACATAAAAA
Statistics
Matches: 232, Mismatches: 45, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
6 4 0.02
7 27 0.12
8 13 0.06
9 179 0.77
10 4 0.02
11 1 0.00
12 4 0.02
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:61081283 original size:21 final size:21
Alignment explanation
Indices: 61081247--61081313 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
61081237 AACTTAAAGA
* *
61081247 AGAGGCGGCAGTGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
*
61081268 AGCGGCTGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
* *
61081289 GGAGGCTGCAGCGAGAGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
61081310 AGAG
1 AGAG
61081314 CAGAGCAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.49, T:0.04
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGGGAAGC
Found at i:61081676 original size:43 final size:43
Alignment explanation
Indices: 61081627--61081790 Score: 224
Period size: 42 Copynumber: 3.9 Consensus size: 43
61081617 GCGTTTTTGT
*
61081627 AAAAAAACGCTACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
*
61081670 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCAGCGCTTA-A
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* * * *
61081712 GAAAAAATGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAG-
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* ** *
61081754 AAAAAAATGCCGTTAAAGACCATGTTCTTTAGCGGCG
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG
61081791 TTTTTGTTTG
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 70 0.64
43 39 0.36
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (43 bp):
AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
Found at i:61088765 original size:12 final size:12
Alignment explanation
Indices: 61088748--61088773 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61088738 ATTAAGCCCT
61088748 TTCTTGTTCTTA
1 TTCTTGTTCTTA
61088760 TTCTTGTTCTTA
1 TTCTTGTTCTTA
61088772 TT
1 TT
61088774 TGTAGTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (12 bp):
TTCTTGTTCTTA
Found at i:61094167 original size:15 final size:16
Alignment explanation
Indices: 61094147--61094176 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61094137 TGGTGCCTTA
61094147 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
61094162 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
61094177 AGCATGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:61094414 original size:9 final size:9
Alignment explanation
Indices: 61094400--61094430 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
61094390 AATTAAAACC
61094400 TAAATATAA
1 TAAATATAA
61094409 TAAATATAA
1 TAAATATAA
61094418 TAAATATAA
1 TAAATATAA
61094427 TAAA
1 TAAA
61094431 GATCCAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAATATAA
Found at i:61100611 original size:6 final size:6
Alignment explanation
Indices: 61100602--61100641 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
61100592 AAAAAGAAGA
* * *
61100602 AAAATC AAAATC AAAATC AAAGTC AAAATA AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
61100642 AGAGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:61100674 original size:20 final size:20
Alignment explanation
Indices: 61100626--61100674 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
61100616 AATCAAAGTC
* *
61100626 AAAATAAAAATGAAAAAGAG
1 AAAAAAAAAAAGAAAAAGAG
*
61100646 AGAAAAAAAAAGAAAAAG-G
1 AAAAAAAAAAAGAAAAAGAG
*
61100665 AAAAACAAAA
1 AAAAAAAAAA
61100675 GGAGAGGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAAAGAG
Found at i:61103037 original size:131 final size:131
Alignment explanation
Indices: 61102861--61103171 Score: 514
Period size: 131 Copynumber: 2.4 Consensus size: 131
61102851 GTAGATCTCG
* * *
61102861 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATTTTATCTTCCACAGGAGTAGGGAAA
1 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCACAGGAGTAGGGAAA
*
61102926 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGGAATAGGTTGGAAATTACAGATCTT
66 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGAAATAGGTTGGAAATTACAGATCTT
61102991 A
131 A
* * * *
61102992 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACGACGAATCTTATCTTCCCCATGAGTAGGGAAA
1 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCACAGGAGTAGGGAAA
* *
61103057 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGAAATAGGTTGGAAATTGCAGATCTT
66 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGAAATAGGTTGGAAATTACAGATCTT
*
61103122 G
131 A
*
61103123 TCTCCCTAAGCAGTAGCGAAGCAGATCGAAGACGGCGAATCTTATCTTC
1 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
61103172 AAGTGTAAGG
Statistics
Matches: 166, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 166 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (131 bp):
TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCACAGGAGTAGGGAAA
CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGAAATAGGTTGGAAATTACAGATCTT
A
Found at i:61103425 original size:44 final size:44
Alignment explanation
Indices: 61103377--61103579 Score: 121
Period size: 44 Copynumber: 4.7 Consensus size: 44
61103367 TTGATAATCC
61103377 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
*** * * * ** **
61103421 TATCTTTTTGAAGTTGCAGTAGAGTAGATC-GCAT-CCAG-TCT
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
* * * *
61103462 TATCTCCCTGAATTTGCAGTGGAGCAGA-CATAAGAAACCA-ATCC
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAA--AGATCT
* ** * * **
61103506 TATCTCCTTGAGGTTGCAGTGGAGCGGATCAAAATGATGGATCT
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
* * *
61103550 TATCTCTCT-AAAGTGGCAGTAGAGCAGATC
1 TATCTCCCTGAAA-TTGCAGTGGAGCAGATC
61103580 GCATCAAGTC
Statistics
Matches: 112, Mismatches: 39, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
40 1 0.01
41 26 0.23
42 2 0.02
43 3 0.03
44 75 0.67
45 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
Found at i:61103577 original size:173 final size:172
Alignment explanation
Indices: 61103197--61103579 Score: 387
Period size: 173 Copynumber: 2.2 Consensus size: 172
61103187 GATTGAAGCC
* * * * * * * *
61103197 GATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTAAGG
1 GATAATCCTATCTCCCTGAAATGGCAGTAGAGCAGATCAAAATAAAAGATCTTATCTCTCTAAGG
* * * *
61103262 TTGCAGTAGAGTGGATCGCAGCAGTCTTATCCCCCTAAAGTCACAGTGGGGCAAACTGAAGAAGC
66 TTGCAGTAGAGTAGATCGCACCAGTCTTATCCCCCTAAAGTCACAGTGGAGCAAACTGAAGAAAC
* * * **
61103327 AAATCTTATCTCCCTGAGATTGCAGTGGAACAGGTTGAAGTT
131 AAATCCTATCTCCCTGAGATTGCAGTGGAACAGGATCAAAAT
* * * *
61103369 GATAATCCTATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCTTATCTTTTTGAA-
1 GATAATCCTATCTCCCTGAAATGGCAGTAGAGCAGATCAAAATAAAAGATCTTATCTCTCT-AAG
* * * ** *
61103433 GTTGCAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTGAATTTGCAGTGGAGCAGACAT-AAGA
65 GTTGCAGTAGAGTAGATCGCA-CCAGTCTTATCCCCCTAAAGTCACAGTGGAGCAAAC-TGAAGA
* * * *
61103497 AACCAATCCTATCTCCTTGAGGTTGCAGTGGAGC-GGATCAAAAT
128 AACAAATCCTATCTCCCTGAGATTGCAGTGGAACAGGATCAAAAT
* * *
61103541 GATGGATCTTATCTCTCT-AAAGTGGCAGTAGAGCAGATC
1 GAT-AATCCTATCTCCCTGAAA-TGGCAGTAGAGCAGATC
61103580 GCATCAAGTC
Statistics
Matches: 174, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
172 85 0.49
173 88 0.51
174 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (172 bp):
GATAATCCTATCTCCCTGAAATGGCAGTAGAGCAGATCAAAATAAAAGATCTTATCTCTCTAAGG
TTGCAGTAGAGTAGATCGCACCAGTCTTATCCCCCTAAAGTCACAGTGGAGCAAACTGAAGAAAC
AAATCCTATCTCCCTGAGATTGCAGTGGAACAGGATCAAAAT
Found at i:61103890 original size:9 final size:9
Alignment explanation
Indices: 61103872--61103901 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
61103862 ATTAAAACCC
61103872 AAATATAAT
1 AAATATAAT
*
61103881 AAATAAAAT
1 AAATATAAT
61103890 AAATATAAT
1 AAATATAAT
61103899 AAA
1 AAA
61103902 GATCCAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATATAAT
Found at i:61109617 original size:31 final size:31
Alignment explanation
Indices: 61109579--61109662 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
61109569 GAATTATTCA
**
61109579 AAAGTTTTTATTTAAGTCGTTGAACTCTTCG
1 AAAGTTTTTATTTAAGTCACTGAACTCTTCG
*
61109610 AAAGTTTTTATTTAAGACACTGAACTCTTCG
1 AAAGTTTTTATTTAAGTCACTGAACTCTTCG
61109641 AAAGTTTTTATTTAAGTCACTG
1 AAAGTTTTTATTTAAGTCACTG
61109663 GGTTGTTAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (31 bp):
AAAGTTTTTATTTAAGTCACTGAACTCTTCG
Found at i:61109894 original size:19 final size:19
Alignment explanation
Indices: 61109870--61109909 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
61109860 TTGTTTCATG
61109870 AAAAAAAA-CTGAACTGTAA
1 AAAAAAAATC-GAACTGTAA
*
61109889 AAAAAAAATCGAATTGTAA
1 AAAAAAAATCGAACTGTAA
61109908 AA
1 AA
61109910 GAGAAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.65, C:0.07, G:0.10, T:0.17
Consensus pattern (19 bp):
AAAAAAAATCGAACTGTAA
Found at i:61116977 original size:19 final size:19
Alignment explanation
Indices: 61116953--61117018 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
61116943 ATTAGAAAAG
61116953 ATTTTATAAAAAATAATAA
1 ATTTTATAAAAAATAATAA
* * *
61116972 ATTTTAGAAAAATTATTAA
1 ATTTTATAAAAAATAATAA
61116991 ATTTTAATAAAAATATAA-AA
1 ATTTT-ATAAAAA-ATAATAA
61117011 A-TTTATAA
1 ATTTTATAA
61117019 TTTTTTCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.10
19 24 0.62
20 9 0.23
21 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTTTATAAAAAATAATAA
Found at i:61117011 original size:29 final size:30
Alignment explanation
Indices: 61116979--61117042 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
61116969 TAAATTTTAG
61116979 AAAAATTATTAA-ATTTTAATAAAAAT-ATA
1 AAAAATTA-TAATATTTTAATAAAAATCATA
* * *
61117008 AAAATTTATAATTTTTTCATAAAAATCATA
1 AAAAATTATAATATTTTAATAAAAATCATA
61117038 AAAAA
1 AAAAA
61117043 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.10
29 19 0.66
30 7 0.24
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAAATTATAATATTTTAATAAAAATCATA
Found at i:61117321 original size:57 final size:58
Alignment explanation
Indices: 61117256--61117378 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 58
61117246 TTACATTTTG
*
61117256 TATAATTTTCTTAC-AACTTTATAAAATTTTA-AATTTTTTGTAT-ATTTCTATATATTT
1 TATAATTTT-TTACTAACTTTATAAAATTTAACAATTTTTT-TATGATTTCTATATATTT
** * *
61117313 TATAA-TTTTTACTATTTTTATAAAATTTAACAATTTTTTTATGATTTTTATATTTTT
1 TATAATTTTTTACTAACTTTATAAAATTTAACAATTTTTTTATGATTTCTATATATTT
61117370 TAT-ATTTTT
1 TATAATTTTT
61117379 AATAAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
55 4 0.07
56 21 0.37
57 32 0.56
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (58 bp):
TATAATTTTTTACTAACTTTATAAAATTTAACAATTTTTTTATGATTTCTATATATTT
Found at i:61117688 original size:91 final size:91
Alignment explanation
Indices: 61117488--61117698 Score: 282
Period size: 93 Copynumber: 2.3 Consensus size: 91
61117478 AGTGGAGGCC
** * * * *
61117488 TAATTGCTTTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAT
1 TAATTGCTTTTTTAAAAAAAGTTTGAGGATATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAA
**
61117553 TGAATGTAAAAAAAAAAATTAGGGGCT
66 TGAATGT-AAAAAAAAAAGCAGGGGCT
* *
61117580 TAATTG-TTTTTTAAAAAAAAGGTTTGAGGATATTTTTTATGCATTTTGGAAGTTCAAGTACCCA
1 TAATTGCTTTTTT-AAAAAAA-GTTTGAGGATATTTTTGATGCATTTTGAAAGTTCAAGTACCCA
*
61117644 AATGAGTGT-AAAAAAAAAGCAGGGGCT
64 AATGAATGTAAAAAAAAAAGCAGGGGCT
61117671 TAATTGCTTTTTTAAAAAAAGTTTGAGG
1 TAATTGCTTTTTTAAAAAAAGTTTGAGG
61117699 GCTTTTTGCA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
90 8 0.08
91 35 0.33
92 17 0.16
93 45 0.43
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (91 bp):
TAATTGCTTTTTTAAAAAAAGTTTGAGGATATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAA
TGAATGTAAAAAAAAAAGCAGGGGCT
Found at i:61121155 original size:29 final size:29
Alignment explanation
Indices: 61121113--61121171 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
61121103 GTCAAGTGTT
61121113 GTCATTCAACTTGCTAATGTATCATATTA
1 GTCATTCAACTTGCTAATGTATCATATTA
61121142 GTCATTCAACTTGCTAATGTATCATATTA
1 GTCATTCAACTTGCTAATGTATCATATTA
61121171 G
1 G
61121172 CAATACGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (29 bp):
GTCATTCAACTTGCTAATGTATCATATTA
Found at i:61121557 original size:12 final size:12
Alignment explanation
Indices: 61121537--61121576 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
61121527 ACCGTCGCGT
*
61121537 CACCTACTCTGC
1 CACCAACTCTGC
61121549 CACCAACTCTGC
1 CACCAACTCTGC
61121561 CACCAACTCTGC
1 CACCAACTCTGC
61121573 CACC
1 CACC
61121577 GCTCGTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.53, G:0.07, T:0.17
Consensus pattern (12 bp):
CACCAACTCTGC
Found at i:61122854 original size:3 final size:3
Alignment explanation
Indices: 61122837--61122886 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
61122827 TCAAATATCC
* * * *
61122837 TTA TTA TT- TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61122883 TTA T
1 TTA T
61122887 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:61123019 original size:3 final size:3
Alignment explanation
Indices: 61123011--61123037 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
61123001 TATTCCAATG
61123011 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
61123038 GTTTATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61134804 original size:28 final size:31
Alignment explanation
Indices: 61134761--61134817 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
61134751 GTACCTAATT
61134761 TTTTTTTTGTCACAAG-TAGTATCTAAACTA
1 TTTTTTTTGTCACAAGTTAGTATCTAAACTA
*
61134791 TTTTTTTT-TC-CAAGTTGGTATCTAAAC
1 TTTTTTTTGTCACAAGTTAGTATCTAAAC
61134818 AATACTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 13 0.52
30 8 0.32
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (31 bp):
TTTTTTTTGTCACAAGTTAGTATCTAAACTA
Found at i:61145250 original size:22 final size:20
Alignment explanation
Indices: 61145225--61145264 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61145215 ATTTTTATCC
61145225 TTTAATATTTATAAAATTTTAA
1 TTTAAT-TTT-TAAAATTTTAA
*
61145247 TTTAATTTTTTAAATTTT
1 TTTAATTTTTAAAATTTT
61145265 GTAAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTTTTAAAATTTTAA
Found at i:61158073 original size:42 final size:42
Alignment explanation
Indices: 61158009--61158115 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
61157999 ACGCGGCCAG
* **
61158009 GGACATGAGCGTGTGCCTAGGCCGTGTGAGCCACATGGGTAA
1 GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
*
61158051 GGACATGAGTGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
1 GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
* * *
61158093 GGACATGGGCATGTGTCCAGGCC
1 GGACATGAGCGTGTGCCCAGGCC
61158116 ATACAACTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.18
Consensus pattern (42 bp):
GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
Found at i:61161384 original size:42 final size:42
Alignment explanation
Indices: 61161337--61161435 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
61161327 ACAAGGTCAG
* *
61161337 GGACATGGGTGTGTGCCTAGGCCGTGTGAGCCACACGAA-TAA
1 GGACATGGGTGTGTGCCCAGGCCGTGTGAGCCACAC-AAGCAA
* * *
61161379 GGACATGGGCGTGTGCCCAGTCTGTGTGAGCCACACAAGCAA
1 GGACATGGGTGTGTGCCCAGGCCGTGTGAGCCACACAAGCAA
61161421 GGACATGGGTGTGTG
1 GGACATGGGTGTGTG
61161436 TCCATATAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.19
Consensus pattern (42 bp):
GGACATGGGTGTGTGCCCAGGCCGTGTGAGCCACACAAGCAA
Found at i:61165068 original size:13 final size:14
Alignment explanation
Indices: 61165034--61165068 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
61165024 AAATAGAAAA
61165034 AAAAGAAATGAAATT
1 AAAA-AAATGAAATT
61165049 AAAAAAATGAAATT
1 AAAAAAATGAAATT
61165063 AAAAAA
1 AAAAAA
61165069 GGAAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (14 bp):
AAAAAAATGAAATT
Found at i:61165758 original size:42 final size:42
Alignment explanation
Indices: 61165706--61165839 Score: 173
Period size: 42 Copynumber: 3.2 Consensus size: 42
61165696 TCGTGTCTTC
* * *
61165706 GCCCGTGTAACTCACTGATTTGAGACATACGGTTGTGTCCCA
1 GCCCATGTAACTCACTGACTTGAGACATACGGTCGTGTCCCA
* * *
61165748 GCCCATGTAACTCCCTGACTTGAGACACACGATCGTGTCCCA
1 GCCCATGTAACTCACTGACTTGAGACATACGGTCGTGTCCCA
*
61165790 GCCCATGTAACTCACTGACTTGAG--ATACGTGGTCATGTCCCA
1 GCCCATGTAACTCACTGACTTGAGACATAC--GGTCGTGTCCCA
61165832 GCCCATGT
1 GCCCATGT
61165840 CTCTGCCCGT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.04
42 77 0.96
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (42 bp):
GCCCATGTAACTCACTGACTTGAGACATACGGTCGTGTCCCA
Found at i:61172283 original size:29 final size:29
Alignment explanation
Indices: 61172239--61172306 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
61172229 GAATAGGTGG
**
61172239 AGAACTTGTTTGTTGAGAGTTCGCGATGA
1 AGAACTTGTTCATTGAGAGTTCGCGATGA
61172268 AGAACTTGTTCATTGAGAGTTCGCGATGA
1 AGAACTTGTTCATTGAGAGTTCGCGATGA
61172297 AGAACTTGTT
1 AGAACTTGTT
61172307 AGAATTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAGTTCGCGATGA
Found at i:61173842 original size:12 final size:12
Alignment explanation
Indices: 61173825--61173851 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61173815 AATATTGGTG
61173825 GCAAAGTTGCTA
1 GCAAAGTTGCTA
61173837 GCAAAGTTGCTA
1 GCAAAGTTGCTA
61173849 GCA
1 GCA
61173852 TTTTGAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (12 bp):
GCAAAGTTGCTA
Found at i:61178190 original size:22 final size:23
Alignment explanation
Indices: 61178160--61178202 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
61178150 TCATTTTGGA
*
61178160 TTATATCAAATTTAAATTATTTC
1 TTATATCAAATTCAAATTATTTC
*
61178183 TTAT-TCAACTTCAAATTATT
1 TTATATCAAATTCAAATTATT
61178203 AACATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATATCAAATTCAAATTATTTC
Found at i:61182957 original size:15 final size:18
Alignment explanation
Indices: 61182919--61182965 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
61182909 TCTTACTTTT
61182919 ATAATTAAATATATTTAA
1 ATAATTAAATATATTTAA
61182937 ATAATTAAA-AT-TTTAA
1 ATAATTAAATATATTTAA
*
61182953 A-AATTAAGTATAT
1 ATAATTAAATATAT
61182966 ACTCTTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 3 0.12
18 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATTAAATATATTTAA
Found at i:61183881 original size:18 final size:18
Alignment explanation
Indices: 61183854--61183892 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
61183844 TTGGATTGTT
61183854 AAAATATT-AATAATATA
1 AAAATATTAAATAATATA
*
61183871 AAAATTATTAAATGATATA
1 AAAA-TATTAAATAATATA
61183890 AAA
1 AAA
61183893 GTACTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATATTAAATAATATA
Found at i:61201381 original size:3 final size:3
Alignment explanation
Indices: 61201369--61201405 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
61201359 AAACTAAAGC
61201369 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
61201406 GGACATGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61206443 original size:457 final size:456
Alignment explanation
Indices: 61205584--61206489 Score: 1413
Period size: 457 Copynumber: 2.0 Consensus size: 456
61205574 GTCTTCTTAA
* * * * *
61205584 TGATTAATATGATCATTGTCAACAAATGACCGTGATTAAATTGCTCATTTGAGAACAAGCAACTT
1 TGATTAATATGATCACTATCAACAAATGACCGTGATTAAATTGCTCATTCGAGAACAAACAACCT
*
61205649 GTGGCCACATTCTATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTAAT
66 GTGGCCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTAAT
* * *
61205714 TGAGCTATGAATTCCACTATTGCTAGTAAAGTCATGTCATACACAAGTCATGTACCCAACATACC
131 TGAGCTATGAATTCCACTATTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATACC
* * * ** * ** *
61205779 AGCTATCCTGCTCGATCATTTTTAGAGTGTAAGCCTTCATTTATATCAAAGCACATGAGTTACAT
196 AGATATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTACAT
*
61205844 ATGCGTGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAATTAA
261 ATGCATGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAATTAA
*
61205909 TTCACAAACGGATTCAGAATTAATTTATCTTGGATCCAGTCCAATGTATCATTCTACCAATGAAT
326 TTCACAAACGGATTCAGAATTAATTCATCTTGGATCCAGTCCAATGTATCATTCTACCAATGAAT
* *
61205974 ACATTTATGTCTCTA-TCCGTGGAGTCAACTGCTCTGATAGCCAAGACTAGTCATATCATGTGGC
391 ACATCTATGTCTCTACT-CGTGGAGTCAACTGCTCCGATAGCCAAGACTAGTCATATCATGTGGC
61206038 TG
455 TG
* *
61206040 TGATTAAATATGATCACTATCAACAAATGACTGTGATTAAATTGCTCGTTCGAGAACAAA-ACAC
1 TGATT-AATATGATCACTATCAACAAATGACCGTGATTAAATTGCTCATTCGAGAACAAACA-AC
*
61206104 CTGTGGCCATATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTA
64 CTGTGGCCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTA
* *
61206169 ATTGAGTTATGAATTCCACTGTTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATA
129 ATTGAGCTATGAATTCCACTATTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATA
*
61206234 -CTGATGATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTA
194 CCAGAT-ATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTA
* *
61206298 CATATGCATGGTCAGTGACTAATTTAGGATTTAGGTAAATCACACCATGAATGTCACAAGTGAAT
258 CATATGCATGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAAT
* * * * * **
61206363 TAATTCACAAATGGATTCATAATTAATTCATCTTGGGTCTAGTCCAATGTATCATTTTGTCAATG
323 TAATTCACAAACGGATTCAGAATTAATTCATCTTGGATCCAGTCCAATGTATCATTCTACCAATG
*
61206428 AATACATCTATGTCTCTACTCGTGGATTCAACTGCTCCGATAGCCAAGACTAGTCATATCAT
388 AATACATCTATGTCTCTACTCGTGGAGTCAACTGCTCCGATAGCCAAGACTAGTCATATCAT
61206490 TGATTGGAAT
Statistics
Matches: 408, Mismatches: 38, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
456 9 0.02
457 398 0.98
458 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (456 bp):
TGATTAATATGATCACTATCAACAAATGACCGTGATTAAATTGCTCATTCGAGAACAAACAACCT
GTGGCCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTAAT
TGAGCTATGAATTCCACTATTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATACC
AGATATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTACAT
ATGCATGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAATTAA
TTCACAAACGGATTCAGAATTAATTCATCTTGGATCCAGTCCAATGTATCATTCTACCAATGAAT
ACATCTATGTCTCTACTCGTGGAGTCAACTGCTCCGATAGCCAAGACTAGTCATATCATGTGGCT
G
Found at i:61207650 original size:12 final size:12
Alignment explanation
Indices: 61207633--61207658 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61207623 AAAGATTTGG
61207633 TAATTGAATGGT
1 TAATTGAATGGT
61207645 TAATTGAATGGT
1 TAATTGAATGGT
61207657 TA
1 TA
61207659 GTTGGTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (12 bp):
TAATTGAATGGT
Found at i:61208690 original size:3 final size:3
Alignment explanation
Indices: 61208676--61208730 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
61208666 AATTTCTATG
*
61208676 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
61208724 ATT ATT A
1 ATT ATT A
61208731 AAAACTAACG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:61210469 original size:25 final size:25
Alignment explanation
Indices: 61210422--61210469 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61210412 GAGATTTTTT
** *
61210422 TTTAAAAGGTAGTTTCTTTAATACA
1 TTTAAAAGGTAGTTTAGTCAATACA
*
61210447 TTTAAAGGGTAGTTTAGTCAATA
1 TTTAAAAGGTAGTTTAGTCAATA
61210470 ACAATGGATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (25 bp):
TTTAAAAGGTAGTTTAGTCAATACA
Found at i:61215251 original size:18 final size:18
Alignment explanation
Indices: 61215202--61215240 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
61215192 ATTAAAATTT
*
61215202 TAAAAATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
61215220 TAAAGATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
61215238 TAA
1 TAA
61215241 TTACAGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAGATCAAATTTAAAC
Found at i:61215318 original size:29 final size:29
Alignment explanation
Indices: 61215274--61215337 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
61215264 AAATAATTTG
* * *
61215274 ATCTTTATTCAGCCAATTTCAAATCTTCA
1 ATCTTTATCCACCCAACTTCAAATCTTCA
61215303 ATCTTTATCCACCCAACTTCAAATCTTCA
1 ATCTTTATCCACCCAACTTCAAATCTTCA
61215332 ATCTTT
1 ATCTTT
61215338 CAATCTACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCACCCAACTTCAAATCTTCA
Found at i:61221656 original size:6 final size:6
Alignment explanation
Indices: 61221645--61221669 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61221635 CATCCATGGA
61221645 CTTCCT CTTCCT CTTCCT CTTCCT C
1 CTTCCT CTTCCT CTTCCT CTTCCT C
61221670 GTGTTATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CTTCCT
Found at i:61224569 original size:17 final size:17
Alignment explanation
Indices: 61224549--61224581 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61224539 TATAGGATTA
*
61224549 ATAAAATTATTTTTTTT
1 ATAAAATAATTTTTTTT
61224566 ATAAAATAATTTTTTT
1 ATAAAATAATTTTTTT
61224582 ATTTCTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAAAATAATTTTTTTT
Found at i:61224580 original size:16 final size:17
Alignment explanation
Indices: 61224549--61224583 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
61224539 TATAGGATTA
*
61224549 ATAAAATTATTTTTTTT
1 ATAAAATTAATTTTTTT
61224566 ATAAAA-TAATTTTTTT
1 ATAAAATTAATTTTTTT
61224582 AT
1 AT
61224584 TTCTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAAAATTAATTTTTTT
Found at i:61231157 original size:17 final size:17
Alignment explanation
Indices: 61231121--61231158 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
61231111 ATATGAATTT
*
61231121 TATTTTTTTACAGTATA
1 TATTTTTTTACAGTAAA
61231138 TATTTTTTTAC-GTAAAA
1 TATTTTTTTACAGT-AAA
61231155 TATT
1 TATT
61231159 GAGAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTTTTTTACAGTAAA
Found at i:61232763 original size:15 final size:16
Alignment explanation
Indices: 61232743--61232772 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61232733 TTTTCCATTG
61232743 TGGAATCA-GAGAATA
1 TGGAATCATGAGAATA
61232758 TGGAATCATGAGAAT
1 TGGAATCATGAGAAT
61232773 TCTTCCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (16 bp):
TGGAATCATGAGAATA
Found at i:61237142 original size:55 final size:60
Alignment explanation
Indices: 61237058--61237194 Score: 167
Period size: 60 Copynumber: 2.4 Consensus size: 60
61237048 AGCAAAACCC
* *
61237058 TCTTCTTTCTCATCTTTTTTCTCTCCCTAAACTG-T-TTA-TATCTT-T-TTTTTTACCG
1 TCTTCTTTCTCTTCTTTCTTCTCTCCCTAAACTGTTATTACTATCTTCTCTTTTTTACCG
* * ** *
61237113 TCTTCGTTCTCTTCTCTCTTCTCTCCCTAAGTTGTTATTACTTTCTTCTCTTTTTTACCG
1 TCTTCTTTCTCTTCTTTCTTCTCTCCCTAAACTGTTATTACTATCTTCTCTTTTTTACCG
*
61237173 TATTCTTTCTCTTCTTTCTTCT
1 TCTTCTTTCTCTTCTTTCTTCT
61237195 TCTTTTTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
55 28 0.42
56 1 0.01
57 3 0.04
58 5 0.07
59 1 0.01
60 29 0.43
ACGTcount: A:0.09, C:0.28, G:0.04, T:0.58
Consensus pattern (60 bp):
TCTTCTTTCTCTTCTTTCTTCTCTCCCTAAACTGTTATTACTATCTTCTCTTTTTTACCG
Done.