Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold132
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: 2458301
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 4 of 15
Found at i:648847 original size:13 final size:13
Alignment explanation
Indices: 648831--648857 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
648821 CTTGTGTTCG
648831 ACACTTGTATACA
1 ACACTTGTATACA
648844 ACACTTGTATACA
1 ACACTTGTATACA
648857 A
1 A
648858 TATATATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACACTTGTATACA
Found at i:653625 original size:11 final size:11
Alignment explanation
Indices: 653609--653646 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
653599 AAATTATGAT
653609 TTAAATTTTTA
1 TTAAATTTTTA
653620 TTAAATTTTTA
1 TTAAATTTTTA
653631 --AAATTTTTA
1 TTAAATTTTTA
*
653640 TTTAATT
1 TTAAATT
653647 ATTAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTAAATTTTTA
Found at i:653636 original size:20 final size:20
Alignment explanation
Indices: 653611--653652 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
653601 ATTATGATTT
*
653611 AAATTTTTATTAAATTTTTA
1 AAATTTTTATTAAATTATTA
*
653631 AAATTTTTATTTAATTATTA
1 AAATTTTTATTAAATTATTA
653651 AA
1 AA
653653 TTAAATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AAATTTTTATTAAATTATTA
Found at i:663321 original size:20 final size:20
Alignment explanation
Indices: 663296--663335 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
663286 CAAAGAAAGA
663296 AGTTAGTTCATGGCTTACCT
1 AGTTAGTTCATGGCTTACCT
663316 AGTTAGTTCATGGCTTACCT
1 AGTTAGTTCATGGCTTACCT
663336 CCATTAGAAG
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:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
AGTTAGTTCATGGCTTACCT
Found at i:665955 original size:13 final size:13
Alignment explanation
Indices: 665937--665962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
665927 GTTTAAGAGT
665937 TTGTTGATCATGG
1 TTGTTGATCATGG
665950 TTGTTGATCATGG
1 TTGTTGATCATGG
665963 AAACATGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
TTGTTGATCATGG
Found at i:665964 original size:72 final size:73
Alignment explanation
Indices: 665878--666017 Score: 237
Period size: 73 Copynumber: 1.9 Consensus size: 73
665868 GTTTAAGAGT
* *
665878 TTGTTGATCATGGAAACATG-TTGACAGTTTCATTAATCTAGTTGCTATTGTTTAAGAGTTTGTT
1 TTGTTGATCATGGAAACATGTTTGACAGTTTCATTAATCTAGTTACTATTATTTAAGAGTTTGTT
665942 GATCATGG
66 GATCATGG
* *
665950 TTGTTGATCATGGAAACATGTTTGACAGTTTCATTAATCTAGTTATTATTATTTAGGAGTTTGTT
1 TTGTTGATCATGGAAACATGTTTGACAGTTTCATTAATCTAGTTACTATTATTTAAGAGTTTGTT
666015 GAT
66 GAT
666018 TATGAAAACA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 20 0.32
73 43 0.68
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.45
Consensus pattern (73 bp):
TTGTTGATCATGGAAACATGTTTGACAGTTTCATTAATCTAGTTACTATTATTTAAGAGTTTGTT
GATCATGG
Found at i:667859 original size:2 final size:2
Alignment explanation
Indices: 667852--667878 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
667842 AAAAGTATTT
667852 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
667879 GAAGTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:668006 original size:2 final size:2
Alignment explanation
Indices: 667999--668023 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
667989 TTTAATGCAT
667999 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
668024 GTAGATGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:669028 original size:8 final size:8
Alignment explanation
Indices: 669015--669071 Score: 50
Period size: 8 Copynumber: 7.5 Consensus size: 8
669005 TATCAAAATT
669015 TATATAAA
1 TATATAAA
669023 TATAT-AA
1 TATATAAA
*
669030 TATATTAA
1 TATATAAA
*
669038 -ATA-CAA
1 TATATAAA
669044 T-TATAATA
1 TATATAA-A
*
669052 TATAAAAA
1 TATATAAA
669060 TATATAAA
1 TATATAAA
669068 TATA
1 TATA
669072 ATACGAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 4 0.10
7 11 0.28
8 21 0.52
9 4 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (8 bp):
TATATAAA
Found at i:678506 original size:18 final size:18
Alignment explanation
Indices: 678483--678520 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
678473 ATACAGATAT
678483 TTTAAGAAAAATGAAGAG
1 TTTAAGAAAAATGAAGAG
*
678501 TTTAAGAGAAATGAAGAG
1 TTTAAGAAAAATGAAGAG
678519 TT
1 TT
678521 GGGATACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (18 bp):
TTTAAGAAAAATGAAGAG
Found at i:679071 original size:18 final size:17
Alignment explanation
Indices: 679044--679077 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
679034 GTAGGCAAGA
*
679044 GAAGATATAGATTAAAAT
1 GAAGACATAGA-TAAAAT
679062 GAAGACATAGATAAAA
1 GAAGACATAGATAAAA
679078 GAGGTTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (17 bp):
GAAGACATAGATAAAAT
Found at i:679195 original size:19 final size:19
Alignment explanation
Indices: 679152--679197 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
679142 TTTTATTTAA
679152 ATTTAAT-TATAAAAATAT
1 ATTTAATATATAAAAATAT
679170 ATATTAATATATAAATAATAT
1 AT-TTAATATATAAA-AATAT
679191 -TTTAATA
1 ATTTAATA
679198 ATTTAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 11 0.44
20 7 0.28
21 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTAATATATAAAAATAT
Found at i:680533 original size:20 final size:22
Alignment explanation
Indices: 680479--680533 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
680469 ATAATTATAT
680479 ATAAA-TATTAAATATATAATA
1 ATAAATTATTAAATATATAATA
* *
680500 ATAATTTTTTAAATA-ATAA-A
1 ATAAATTATTAAATATATAATA
*
680520 ATAAATTATCAAAT
1 ATAAATTATTAAAT
680534 CAACTCATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 12 0.43
21 8 0.29
22 8 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATTATTAAATATATAATA
Found at i:682317 original size:2 final size:2
Alignment explanation
Indices: 682312--682337 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
682302 AAAAAAATTT
682312 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
682338 GGTATAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:683156 original size:2 final size:2
Alignment explanation
Indices: 683149--683181 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
683139 CTTTTTCTTC
683149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
683182 ACACACGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:684646 original size:2 final size:2
Alignment explanation
Indices: 684639--684668 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
684629 GAATCAAATA
684639 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
684669 CAATGAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:684788 original size:2 final size:2
Alignment explanation
Indices: 684781--684834 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
684771 GAATCAAATA
* * * *
684781 AT AT AT AT CT AT AT AT TT AT AT CT AT AT CT 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
684823 AT AT AT AT AT AT
1 AT AT AT AT AT AT
684835 TAATGAGTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:684788 original size:142 final size:141
Alignment explanation
Indices: 684524--684808 Score: 498
Period size: 142 Copynumber: 2.0 Consensus size: 141
684514 TAATTTACAC
*
684524 ATATAATCAGTTCTTGAACCTTGGTCAAGAAAACCATGCTGTTTGGTTTTGTTTAGACCATTCAG
1 ATATAATCAGTTCTTGAACCTTGGTCAAGAAAACCATGCTGTTTGATTTTGTTTAGACCATTCAG
684589 AATATATGTCACATTTGCCAAATATGATTAAACTAACAATGAATCAAATAATATATATATATATA
66 AATATATGTCACATTTGCCAAATATGATTAAACTAACAATGAATCAAATAATATATATATATATA
684654 TATATATATAT
131 TATATATATAT
*
684665 ATATCAATGAGTTCTTGAACCTTGGTCAAGAAAACCATGCTGTTTGATTTTGTTTAGACCATTCA
1 ATAT-AATCAGTTCTTGAACCTTGGTCAAGAAAACCATGCTGTTTGATTTTGTTTAGACCATTCA
* * *
684730 GAATATATGTCTCATTTGCCAAATATTATTAAACTAACAATGAATCAAATAATATATATCTATAT
65 GAATATATGTCACATTTGCCAAATATGATTAAACTAACAATGAATCAAATAATATATATATATAT
* *
684795 ATTTATATCTAT
130 ATATATATATAT
684807 AT
1 AT
684809 CTATATATAT
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
141 4 0.03
142 132 0.97
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (141 bp):
ATATAATCAGTTCTTGAACCTTGGTCAAGAAAACCATGCTGTTTGATTTTGTTTAGACCATTCAG
AATATATGTCACATTTGCCAAATATGATTAAACTAACAATGAATCAAATAATATATATATATATA
TATATATATAT
Found at i:685268 original size:17 final size:18
Alignment explanation
Indices: 685246--685279 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
685236 ATATGTATAT
*
685246 AAAT-AAATATTTATTTC
1 AAATAAAATATTAATTTC
685263 AAATAAAATATTAATTT
1 AAATAAAATATTAATTT
685280 AAGGATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATAAAATATTAATTTC
Found at i:692975 original size:23 final size:23
Alignment explanation
Indices: 692940--692992 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
692930 TTTCATAGAT
*
692940 AATTTTTCACAAAATTAAAATTC
1 AATTTTCCACAAAATTAAAATTC
*
692963 AATTTTCCGCAAAATTAAAATTC
1 AATTTTCCACAAAATTAAAATTC
692986 AATTTTC
1 AATTTTC
692993 AACCCTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (23 bp):
AATTTTCCACAAAATTAAAATTC
Found at i:694849 original size:15 final size:16
Alignment explanation
Indices: 694819--694856 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
694809 TGAATTATAT
*
694819 TTTATATTTATTATTA
1 TTTAAATTTATTATTA
694835 TTTAAATTT-TTATTA
1 TTTAAATTTATTATTA
694850 TTTAAAT
1 TTTAAAT
694857 AAATCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAAATTTATTATTA
Found at i:697746 original size:18 final size:18
Alignment explanation
Indices: 697698--697747 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
697688 TTTTTCAATA
*
697698 AAATATATTATATATATTT
1 AAATATA-TATATAAATTT
* *
697717 ATATATAAATATAAATTT
1 AAATATATATATAAATTT
*
697735 AAATTTATATATA
1 AAATATATATATA
697748 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATATATATATAAATTT
Found at i:698373 original size:15 final size:17
Alignment explanation
Indices: 698355--698387 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
698345 TTAAATAATA
698355 AAAATTT-ATTT-ATTT
1 AAAATTTAATTTCATTT
698370 AAAATTTAATTTCATTT
1 AAAATTTAATTTCATTT
698387 A
1 A
698388 TTAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
AAAATTTAATTTCATTT
Found at i:698388 original size:21 final size:20
Alignment explanation
Indices: 698357--698397 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
698347 AAATAATAAA
*
698357 AATTTATTTATTTAAAATTT
1 AATTTATTTATTAAAAATTT
698377 AATTTCATTTATTAAAAATTT
1 AATTT-ATTTATTAAAAATTT
698398 TATGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTATTTATTAAAAATTT
Found at i:699768 original size:2 final size:2
Alignment explanation
Indices: 699761--699795 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
699751 TTACATCTTC
699761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
699796 ACTAATCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:699940 original size:3 final size:3
Alignment explanation
Indices: 699932--699979 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
699922 CCAAAATCTC
699932 ATT ATT 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
699980 TTGATTCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:700600 original size:20 final size:20
Alignment explanation
Indices: 700575--700613 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
700565 GGATAGGTCG
700575 GCCCCGCCCTACTGTTGGCC
1 GCCCCGCCCTACTGTTGGCC
*
700595 GCCCCGCCCTATTGTTGGC
1 GCCCCGCCCTACTGTTGGC
700614 TCAGGGCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.46, G:0.26, T:0.23
Consensus pattern (20 bp):
GCCCCGCCCTACTGTTGGCC
Found at i:700702 original size:20 final size:20
Alignment explanation
Indices: 700677--700714 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
700667 TCAACTCTTT
700677 AGTTTGATTCAAAACCTAAA
1 AGTTTGATTCAAAACCTAAA
700697 AGTTTGATTCAAAACCTA
1 AGTTTGATTCAAAACCTA
700715 TGTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (20 bp):
AGTTTGATTCAAAACCTAAA
Found at i:702519 original size:121 final size:121
Alignment explanation
Indices: 702304--702545 Score: 405
Period size: 121 Copynumber: 2.0 Consensus size: 121
702294 CCATTTGATA
* *
702304 TATGTTGTGTGAAGCCAGGTGAGCTTGGCTGAGCAACCATGCCCCCACATTGAACTAGTTTCATT
1 TATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAACCATGCCCCCACATTGAACTAGCTTCATT
* *
702369 CAACCAGTTAATTAAAACTCATCTTGGAAATTTACATTCCAAATTGCAATCACAAC
66 CAACCAGTCAATTAAAACTCATCTAGGAAATTTACATTCCAAATTGCAATCACAAC
* *
702425 TATGTTGTGTGAAACCAGGTGAGCTTGGCTGGGCAGCCATGCCCCCACATTG-ACTCAGCTTCAT
1 TATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAACCATGCCCCCACATTGAACT-AGCTTCAT
*
702489 TCAACCAGTCAATTAAAACTCATCTAGGAAATTTACATTTCAAATTGCAATCACAAC
65 TCAACCAGTCAATTAAAACTCATCTAGGAAATTTACATTCCAAATTGCAATCACAAC
702546 CCTGCAATGG
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
120 3 0.03
121 110 0.97
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (121 bp):
TATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAACCATGCCCCCACATTGAACTAGCTTCATT
CAACCAGTCAATTAAAACTCATCTAGGAAATTTACATTCCAAATTGCAATCACAAC
Found at i:702748 original size:137 final size:143
Alignment explanation
Indices: 702426--702825 Score: 605
Period size: 146 Copynumber: 2.8 Consensus size: 143
702416 AATCACAACT
* *
702426 ATGTTGTGTGAAACCAGGTGAGCTTGGCTGGGCAGCCATGCCCCCACATTGACTCAGCTTCATTC
1 ATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAGCCATGCCCCCACATTGACCCAGCTTCATTC
* *
702491 AACCAGTCAATTAAAACTCATCTAGGAAATTTACATTTCAAATTGCAATCACAACCCTGCAATGG
66 AACCAGTTAATTAAAACTCATCTTGGAAATTTACATTTCAAATTGCAATCACAA-CCTGC-ATGG
*
702556 ATTCCCATTTCATATT
129 A-TCCCATTTCATATC
* *
702572 ATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAGCCATGCCTCCACATTGACCCTGCTTCATTC
1 ATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAGCCATGCCCCCACATTGACCCAGCTTCATTC
* * *
702637 AATCAGTTAATTAAAACTCAGCTTGGAAATTTACATTTCAAATTGCACTCACAA-CT-C-T-G-T
66 AACCAGTTAATTAAAACTCATCTTGGAAATTTACATTTCAAATTGCAATCACAACCTGCATGGAT
*
702697 CCCATTTGATA-C
131 CCCATTTCATATC
*
702709 ATGTTGTGTGAAACGAGGTGAGCTTGGCTGAGCAGCCATGCCCCCACATTGACCCAGCTTCATTC
1 ATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAGCCATGCCCCCACATTGACCCAGCTTCATTC
* *
702774 AACCAGTTGATTAAAACTCATCTTGGAAATTTGCATTTCAAATTGCAATCAC
66 AACCAGTTAATTAAAACTCATCTTGGAAATTTACATTTCAAATTGCAATCAC
702826 TCACTTGCCA
Statistics
Matches: 235, Mismatches: 19, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
137 109 0.46
138 11 0.05
140 1 0.00
141 1 0.00
143 1 0.00
144 2 0.01
146 110 0.47
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (143 bp):
ATGTTGTGTGAAACCAGGTGAGCTTGGCTGAGCAGCCATGCCCCCACATTGACCCAGCTTCATTC
AACCAGTTAATTAAAACTCATCTTGGAAATTTACATTTCAAATTGCAATCACAACCTGCATGGAT
CCCATTTCATATC
Found at i:703103 original size:2 final size:2
Alignment explanation
Indices: 703096--703125 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
703086 TTGAAAAGTA
703096 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
703126 TAGTTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:703937 original size:2 final size:2
Alignment explanation
Indices: 703930--703966 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
703920 TTTCTTTCTT
703930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
703967 TATCCACCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:708822 original size:15 final size:15
Alignment explanation
Indices: 708787--708822 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
708777 TTAAATATCG
* *
708787 AATATAAATATATTT
1 AATATTAATATATTA
708802 AATATTAATATATTA
1 AATATTAATATATTA
708817 AATATT
1 AATATT
708823 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTAATATATTA
Found at i:717407 original size:1 final size:1
Alignment explanation
Indices: 717397--717488 Score: 67
Period size: 1 Copynumber: 92.0 Consensus size: 1
717387 TGGCAATTGG
* * * ** * * * * **
717397 AAAAAGAAAAAAACAAAACAAAGGAAAAAGAAAAAAAGAAAAAAACAAAACAAAAAAAAGGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
717462 AGAAAAAAAAAAATAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
717489 GTGAAGATTT
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.86, C:0.04, G:0.09, T:0.01
Consensus pattern (1 bp):
A
Found at i:717438 original size:32 final size:29
Alignment explanation
Indices: 717397--717488 Score: 125
Period size: 32 Copynumber: 3.1 Consensus size: 29
717387 TGGCAATTGG
717397 AAAAAGAAAAAAACAAAACAAAGGAAAAAGAA
1 AAAAAGAAAAAAACAAAACAAA--AAAAAG-A
*
717429 AAAAAGAAAAAAACAAAACAAAAAAAAGG
1 AAAAAGAAAAAAACAAAACAAAAAAAAGA
*
717458 AAAAAGAAAAAAA-AAAATAAAAAAAA-A
1 AAAAAGAAAAAAACAAAACAAAAAAAAGA
717485 AAAA
1 AAAA
717489 GTGAAGATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 4 0.07
28 12 0.21
29 13 0.23
30 6 0.11
32 22 0.39
ACGTcount: A:0.86, C:0.04, G:0.09, T:0.01
Consensus pattern (29 bp):
AAAAAGAAAAAAACAAAACAAAAAAAAGA
Found at i:717448 original size:37 final size:37
Alignment explanation
Indices: 717396--717488 Score: 136
Period size: 37 Copynumber: 2.5 Consensus size: 37
717386 ATGGCAATTG
*
717396 GAAAAAGAAAAAAACAAAACAAAGGAAAAAGAAAAAAA
1 GAAAAA-AAAAAAACAAAAAAAAGGAAAAAGAAAAAAA
*
717434 GAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAA
1 GAAAAAAAAAAAACAAAAAAAAGGAAAAAGAAAAAAA
*
717471 -AAAATAAAAAAA-AAAAAA
1 GAAAAAAAAAAAACAAAAAA
717489 GTGAAGATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.12
36 10 0.20
37 29 0.57
38 6 0.12
ACGTcount: A:0.85, C:0.04, G:0.10, T:0.01
Consensus pattern (37 bp):
GAAAAAAAAAAAACAAAAAAAAGGAAAAAGAAAAAAA
Found at i:726080 original size:308 final size:307
Alignment explanation
Indices: 725404--726760 Score: 1084
Period size: 300 Copynumber: 4.4 Consensus size: 307
725394 AGCAAAAAGA
* * * * * * * * * *
725404 AAGTTCAACCAAACTTTCTCACACAGTACGAGAGAGGGTTTCAAGGTTGATGGC-CACAAATAAA
1 AAGTTCAATCAAACTTTCGCACCCAATA-AAGAAAGGGTTTCGAGGTTGATGACTC-CTAATAGA
* * * * * * * *
725468 TAAGGGATCTTCCTTAAATGT-TTCCTACCATCAAGGCGAATTCATCTTGAATTAGCAGGATCCT
64 TTAGGGATCTTCCTTAAAT-TCTTGCAACCATCAAGGCAAATTCGTCTTAAATTAACAAGATCCT
* * * * * * * ****
725532 GAGCAATGAAAATGCAAAATAACTATATTACTTCAAAGCGTCATCTGCTAACTTT-TTAGTTGTA
128 G-GCAATAAAAATGTAAAATAACTAAATTACTTCAAAACATCATCTACTAACTTTATCA-CCACA
* * * * *
725596 TCATTGAAAGA-GAGCAAAAATATAGGAAAAAGA-AATAATAATAATAATA-ATAATAATGTAAT
191 TCATTGAAA-ACG-GAAAAAAAAAAGGAAAAAGACAA-AATAATAATAATATAAAATAAAGTAAT
* * * *
725658 CTGGGATCTCGAGAAATTTGAATTTCTTGAGTTTACAACATACCAGATGACAAGG
253 CTAGGACCTCGAGAAATTTGAATTTCTTGAGTTTACAACATACCAGAAGGCAAGG
* * * * * *
725713 AAGTTCTATCAAACTTTCGCACCCAATGTACGAAAGGGTTTCGAGCTTGCT-AGCTCCTAATAAA
1 AAGTTCAATCAAACTTTCGCACCCAAT-AAAGAAAGGGTTTCGAGGTTGATGA-CTCCTAATAGA
* * *
725777 TCAGGGATCCTT-CTTAAATTCTTGCAACCATCAAGGTAAATTCGTCTTAGATTAACAAGATCCT
64 TTAGGGAT-CTTCCTTAAATTCTTGCAACCATCAAGGCAAATTCGTCTTAAATTAACAAGATCCT
** * *
725841 GGACAATAAAAATGTAAAATAGTTAAATTACTTCAAAGCATCATCTACTAA-TGTTATCACCATA
128 GG-CAATAAAAATGTAAAATAACTAAATTACTTCAAAACATCATCTACTAACT-TTATCACCACA
** ** * *
725905 TCATTGAAAACGG-AATGACTATGGAAAAAGACAAAATAATAATAATATAAAAAAGAAGTAATCT
191 TCATTGAAAACGGAAAAAAAAAAGGAAAAAGACAAAATAATAATAATATAAAATA-AAGTAATCT
* * *
725969 AAGA-CTTGATAAATTTGAATTTCTTGAGTTTACAACATACCAGAAGGCAAGG
255 AGGACCTCGAGAAATTTGAATTTCTTGAGTTTACAACATACCAGAAGGCAAGG
* * * **
726021 AAGTTGAATTAAACTTTCGCATCCAATACAAGAAAAAGTTTCGAGGTTGATGACTCCTAATAGAT
1 AAGTTCAATCAAACTTTCGCACCCAATA-AAGAAAGGGTTTCGAGGTTGATGACTCCTAATAGAT
* * *
726086 TAGGGATCTTCCTCAAATT-TGTGCAACCATCAAGGCAAATTCGTTTTAAATTAACAAGATTCTG
65 TAGGGATCTTCCTTAAATTCT-TGCAACCATCAAGGCAAATTCGTCTTAAATTAACAAGATCCT-
* * * * * * * ** *
726150 GGCAA-CAAAATGCAAAATAACTACATTAATTCAAATCATAATCTACTAACTTTTTGTCCACATT
128 GGCAATAAAAATGTAAAATAACTAAATTACTTCAAAACATCATCTACTAACTTTATCACCACATC
** * *
726214 ATTGAAAGTGGACAAAAAAAAAAGGAAAAA-AGCATAATAATAATAATAATAATAATAAATTAAT
193 ATTGAAAACGG--AAAAAAAAAAGGAAAAAGA-CAAAATAATAATAAT-ATAA-AATAAAGTAAT
*
726278 CTAGGACCTCAAGAAATTTGAATTTCTTGAGTTTACAACATACC-GCAAGGCAAGG
253 CTAGGACCTCGAGAAATTTGAATTTCTTGAGTTTACAACATACCAG-AAGGCAAGG
* * * *
726333 AAGTTCAATCAAACTTTCGCACCCAATTAAGGAAAGGGTTTCAAGGTTGGTGGCTCCTAATAGAT
1 AAGTTCAATCAAACTTTCGCACCCAA-TAAAGAAAGGGTTTCGAGGTTGATGACTCCTAATAGAT
* * * *
726398 TAGGAATCTTCCTTAAATTCTTGCAACCATCAAGGCAAATTCGTCTTAAATTGATAGGATCCTAG
65 TAGGGATCTTCCTTAAATTCTTGCAACCATCAAGGCAAATTCGTCTTAAATTAACAAGATCCT-G
* * * * * * **
726463 GCAATGAAAATTTAAAATAACTATATTACTTCAAAACATCATCTTCTATCTTTAT-AGTCGTATC
129 GCAATAAAAATGTAAAATAACTAAATTACTTCAAAACATCATCTACTAACTTTATCA-CCACATC
* * * ** ** * *
726527 ATTG-AAA-GG-----AAAAA-G--ACATA-ATAATAATGCTACCACTAATAATGAGGTAATCT-
193 ATTGAAAACGGAAAAAAAAAAGGAAAAAGACAAAATAATAATAATA-TAA-AATAAAGTAATCTA
* * * * *
726580 GAGACCTCAAGAAATTTGAATATATTGAGTTTACAACATACC-GAAATGTAAGG
256 G-GACCTCGAGAAATTTGAATTTCTTGAGTTTACAACATACCAG-AAGGCAAGG
* * * * *
726633 AAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTTC-AAGTTCGATGGCACCTAATAAA
1 AAGTTCAATCAAACTTTCGCACCCAATA-AAGAAAGGGTTTCGAGGTT-GATGACTCCTAATAGA
* * * * * *
726697 TTAGGGAGT-TTGCTTAAGTTCTTGCAACCATCAAGACAAATTCTTCGTAAATTGACAAGATCCT
64 TTAGGGA-TCTTCCTTAAATTCTTGCAACCATCAAGGCAAATTCGTCTTAAATTAACAAGATCCT
726761 AAACAATGGA
Statistics
Matches: 858, Mismatches: 154, Indels: 81
0.78 0.14 0.07
Matches are distributed among these distances:
299 8 0.01
300 174 0.20
301 3 0.00
302 1 0.00
303 1 0.00
304 5 0.01
307 82 0.10
308 161 0.19
309 164 0.19
310 31 0.04
311 18 0.02
312 160 0.19
313 50 0.06
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (307 bp):
AAGTTCAATCAAACTTTCGCACCCAATAAAGAAAGGGTTTCGAGGTTGATGACTCCTAATAGATT
AGGGATCTTCCTTAAATTCTTGCAACCATCAAGGCAAATTCGTCTTAAATTAACAAGATCCTGGC
AATAAAAATGTAAAATAACTAAATTACTTCAAAACATCATCTACTAACTTTATCACCACATCATT
GAAAACGGAAAAAAAAAAGGAAAAAGACAAAATAATAATAATATAAAATAAAGTAATCTAGGACC
TCGAGAAATTTGAATTTCTTGAGTTTACAACATACCAGAAGGCAAGG
Found at i:726253 original size:3 final size:3
Alignment explanation
Indices: 726247--726271 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
726237 GGAAAAAAGC
726247 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
726272 ATTAATCTAG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:726810 original size:3 final size:3
Alignment explanation
Indices: 726804--726840 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
726794 AAAAAAAAAC
*
726804 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
726841 AGTAATCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:726886 original size:569 final size:560
Alignment explanation
Indices: 726247--727342 Score: 1429
Period size: 569 Copynumber: 1.9 Consensus size: 560
726237 GGAAAAAAGC
* * *
726247 ATAATAATAATAATAATAATAATAAATTAATCTAGGACCTCAAGAAATTTGAATTTCTTGAGTTT
1 ATAATAATAATAATAATAATAATAAAGTAATCTAGGACCTCAAGAAATTTGAATTTCTTCAGTGT
* *
726312 ACAACATACCGCA-AGGCAAGGAAGTTCAATCAAACTTTCGCACCCAATTA-AGGAAAGGGTTTC
66 ACAACATACCG-AGAGGCAAGGAAGTTCAATCAAACTTTCACACCCAA-TACAAGAAAGGGTTTC
* *
726375 AAGGTTGGTGGCTCCTAATAGATTAGGAATCTTCCTTAAATTCTTGCAACCATCAAGGCAAATTC
129 AAGGTTGATGGCTCCTAATAGATTAGGAATCTTCATTAAATTCTTGCAACCATCAAGGCAAATTC
* * ** * *
726440 GTCTTAAATTGATAGGATCCTAGGCAATGAAAATTTAAAATAACTATATTACTTCAAAACATCAT
194 GTCTTAAATTAACAAAATCCTAGGCAATGAAAATGTAAAATAACTATATAACTTCAAAACATCAT
* * * *
726505 CTTCTATC-TTTATAGTCGTATCATTGAAAGGAAAAAGACATAATAATAATGCTACCACTAATAA
259 CTACTAACGTTT-TAGTAGTATCATT-AAA--AAAAACACATAATAAT-A--CTA--A-TAATAA
* * *
726569 TGAGGTAATCTGAG-ACCTCAAGAAATTTGAATATATTGAGTTTACAACATACC-GAA-ATGTAA
314 AGAAGTAATCTG-GCACCTCAAGAAATTTAAATATATTGAGTTTACAACATACCGGAAGA-G-AA
* *
726631 GGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTTCAA-GTTCGATGGCACCTAATA
376 GGAAATTCAATCAAACTTTCACACCCAATACAAGAAAGGATTTCAAGGTT-GATGGCACCTAATA
* * *
726695 AATTAGGGAGT-TTGCTTAAGTTCTTGCAACCATCAAGACAAATTCT-TCGTAAATTGACAAGAT
440 AATTAGGGA-TCTTCCTTAAATTCTTGCAACCATCAAGACAAATT-TGTCGTAAATTAACAAGAT
726758 CCTAAACAATGGAA-ATGTAAAATAAACTTAAAGTGGAAAAAAAAACATAATAATAATA
503 CCTAAACAAT-GAATATGTAAAATAAACTTAAAGTGGAAAAAAAAACATAATAATAATA
* * *
726816 ATAATAATAATGATAATAATAATAAAGTAATCTAGGATCTCATGAAATTTGAATTTCTTCAGTGT
1 ATAATAATAATAATAATAATAATAAAGTAATCTAGGACCTCAAGAAATTTGAATTTCTTCAGTGT
726881 ACAACATACCGAGAGGCAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTTCAA
66 ACAACATACCGAGAGGCAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTTCAA
* * * * *
726946 GTTTGATGTCTCCTAATAGATTAGGGATCTTCATTAAGTTCTTGCAACCATCAAGGCATATTCGT
131 GGTTGATGGCTCCTAATAGATTAGGAATCTTCATTAAATTCTTGCAACCATCAAGGCAAATTCGT
* * * *
727011 CTTAAATTAACAAAATCCTGGGCAATGAAAATGTAAAATAATTATATAACTTCAAAGCATCGTCT
196 CTTAAATTAACAAAATCCTAGGCAATGAAAATGTAAAATAACTATATAACTTCAAAACATCATCT
* *
727076 ACTAACGTTTTGGTAGTATCATTAAAAAAAACACATAATAATACTAATAATAAAGAAGTAATTTG
261 ACTAACGTTTTAGTAGTATCATTAAAAAAAACACATAATAATACTAATAATAAAGAAGTAATCTG
** * * * *
727141 GCACCTTGAGAAATTTAAATTTCTTGAGTTTACAACTTACCGGAAGAGAAGGAAATTCAATTAAA
326 GCACCTCAAGAAATTTAAATATATTGAGTTTACAACATACCGGAAGAGAAGGAAATTCAATCAAA
* * * * * *
727206 CTTTCGCACCCAATGCAGGAAAGGATTTCAAGGTTGCTGGCTCCTAATAGATTAGGGATCTTCCT
391 CTTTCACACCCAATACAAGAAAGGATTTCAAGGTTGATGGCACCTAATAAATTAGGGATCTTCCT
* * * * * **
727271 TAAATTGTTGCAACCATCAAGGCAAATTTGTCTTAAATTAATAAGATCCTGAGTAATGAATATGT
456 TAAATTCTTGCAACCATCAAGACAAATTTGTCGTAAATTAACAAGATCCTAAACAATGAATATGT
727336 AAAATAA
521 AAAATAA
727343 CTACATATTA
Statistics
Matches: 459, Mismatches: 58, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
559 6 0.01
560 171 0.37
561 8 0.02
562 1 0.00
563 3 0.01
565 1 0.00
566 15 0.03
568 6 0.01
569 245 0.53
570 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (560 bp):
ATAATAATAATAATAATAATAATAAAGTAATCTAGGACCTCAAGAAATTTGAATTTCTTCAGTGT
ACAACATACCGAGAGGCAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTTCAA
GGTTGATGGCTCCTAATAGATTAGGAATCTTCATTAAATTCTTGCAACCATCAAGGCAAATTCGT
CTTAAATTAACAAAATCCTAGGCAATGAAAATGTAAAATAACTATATAACTTCAAAACATCATCT
ACTAACGTTTTAGTAGTATCATTAAAAAAAACACATAATAATACTAATAATAAAGAAGTAATCTG
GCACCTCAAGAAATTTAAATATATTGAGTTTACAACATACCGGAAGAGAAGGAAATTCAATCAAA
CTTTCACACCCAATACAAGAAAGGATTTCAAGGTTGATGGCACCTAATAAATTAGGGATCTTCCT
TAAATTCTTGCAACCATCAAGACAAATTTGTCGTAAATTAACAAGATCCTAAACAATGAATATGT
AAAATAAACTTAAAGTGGAAAAAAAAACATAATAATAATA
Found at i:727045 original size:269 final size:271
Alignment explanation
Indices: 726544--727051 Score: 711
Period size: 269 Copynumber: 1.9 Consensus size: 271
726534 GGAAAAAGAC
* * * *
726544 ATAATAATAATGCTACCACTAATAATGAGGTAATCTGAGACCTCAAGAAATTTGAATATATTGAG
1 ATAATAATAATGATA-CACTAATAATAAAGTAATCTGAGACCTCAAGAAATTTGAATATATTCAG
* * *
726609 TTTACAACATACCGAAATGTAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTT
65 TGTACAACATACCGAAAGGCAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTT
726674 CAAGTTCGATGGCACCTAATAAATTAGGGAGTTTGCTTAAGTTCTTGCAACCATCAAGACAAATT
130 CAAGTTCGATGGCACCTAATAAATTAGGGAGTTTGCTTAAGTTCTTGCAACCATCAAGACAAATT
* * * *
726739 CTTCGTAAATTGACAAGATCCTAAACAATGGAAATGTAAAATAAACTTAAAGTGGAAAAAAAAAC
195 CGTCGTAAATTAACAAAATCCTAAACAATGAAAATGTAAAATAAACTTAAAGTGGAAAAAAAAAC
726804 ATAATAATAATA
260 ATAATAATAATA
* * * *
726816 ATAATAATAATGATA-A-TAATAATAAAGTAATCT-AGGATCTCATGAAATTTGAATTTCTTCAG
1 ATAATAATAATGATACACTAATAATAAAGTAATCTGA-GACCTCAAGAAATTTGAATATATTCAG
*
726878 TGTACAACATACCGAGAGGCAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTT
65 TGTACAACATACCGAAAGGCAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTT
* * * * * *
726943 CAAGTTTGATGTCTCCTAATAGATTAGGGA-TCTT-CATTAAGTTCTTGCAACCATCAAGGCATA
130 CAAGTTCGATGGCACCTAATAAATTAGGGAGT-TTGC-TTAAGTTCTTGCAACCATCAAGACAAA
* ***
727006 TTCGTCTTAAATTAACAAAATCCTGGGCAATGAAAATGTAAAATAA
193 TTCGTCGTAAATTAACAAAATCCTAAACAATGAAAATGTAAAATAA
727052 TTATATAACT
Statistics
Matches: 207, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
268 3 0.01
269 189 0.91
270 1 0.00
272 14 0.07
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (271 bp):
ATAATAATAATGATACACTAATAATAAAGTAATCTGAGACCTCAAGAAATTTGAATATATTCAGT
GTACAACATACCGAAAGGCAAGGAAGTTCAATCAAACTTTCACACCCAATACAAGAAAGGGTTTC
AAGTTCGATGGCACCTAATAAATTAGGGAGTTTGCTTAAGTTCTTGCAACCATCAAGACAAATTC
GTCGTAAATTAACAAAATCCTAAACAATGAAAATGTAAAATAAACTTAAAGTGGAAAAAAAAACA
TAATAATAATA
Found at i:728050 original size:3 final size:3
Alignment explanation
Indices: 728036--728078 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
728026 CATGATGGTG
*
728036 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
728079 AGTAATTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:731599 original size:21 final size:22
Alignment explanation
Indices: 731556--731601 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
731546 AATAATTTTA
731556 TTTTATAATTAAATTTAAATAAT
1 TTTTATAATTAAA-TTAAATAAT
731579 TTTTATTAATTAAA-T-AATAAT
1 TTTTA-TAATTAAATTAAATAAT
731600 TT
1 TT
731602 AATTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.36
22 1 0.05
23 5 0.23
24 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTATAATTAAATTAAATAAT
Found at i:731699 original size:2 final size:2
Alignment explanation
Indices: 731692--731722 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
731682 TTTCATAAAT
*
731692 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
731723 GAATTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:737072 original size:3 final size:3
Alignment explanation
Indices: 737059--737111 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
737049 TTGGTCGTAC
*
737059 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
737107 AAT AA
1 AAT AA
737112 AAGTAATTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:740106 original size:25 final size:25
Alignment explanation
Indices: 740070--740117 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
740060 TTTGCTTCCA
740070 TTATAAATATAAATATAAATAAATT
1 TTATAAATATAAATATAAATAAATT
* *
740095 TTATATAA-ATAAATTTATATAAA
1 TTATA-AATATAAATATAAATAAA
740118 AATAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATAAATATAAATATAAATAAATT
Found at i:740113 original size:14 final size:15
Alignment explanation
Indices: 740082--740117 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
740072 ATAAATATAA
740082 ATATAAATAAATTTT
1 ATATAAATAAATTTT
740097 ATATAAATAAA-TTT
1 ATATAAATAAATTTT
740111 ATATAAA
1 ATATAAA
740118 AATAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATAAATAAATTTT
Found at i:741049 original size:13 final size:14
Alignment explanation
Indices: 741018--741052 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
741008 TATATATATG
741018 ATAAATAATTAATA
1 ATAAATAATTAATA
*
741032 TTAAATAA-TAATA
1 ATAAATAATTAATA
741045 ATAAATAA
1 ATAAATAA
741053 ATATAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAATAATTAATA
Found at i:741885 original size:3 final size:3
Alignment explanation
Indices: 741870--741916 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
741860 AGTCTAAGTA
*
741870 ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
741917 AGGTATTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:745131 original size:19 final size:19
Alignment explanation
Indices: 745107--745174 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
745097 AATTCAACGA
745107 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
745126 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
745141 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
745158 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
745175 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:745145 original size:32 final size:32
Alignment explanation
Indices: 745109--745171 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
745099 TTCAACGATT
*
745109 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
745141 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
745172 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:745146 original size:13 final size:13
Alignment explanation
Indices: 745128--745152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
745118 ACATAAGTTT
745128 TGTATCGATACAA
1 TGTATCGATACAA
745141 TGTATCGATACA
1 TGTATCGATACA
745153 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:745232 original size:13 final size:13
Alignment explanation
Indices: 745214--745239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
745204 CATTTTTCTG
745214 TGTATCGATACAT
1 TGTATCGATACAT
745227 TGTATCGATACAT
1 TGTATCGATACAT
745240 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:745236 original size:33 final size:33
Alignment explanation
Indices: 745194--745260 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
745184 GCCAAGGAAA
***
745194 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
745227 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
745260 T
1 T
745261 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:747710 original size:53 final size:50
Alignment explanation
Indices: 747593--747717 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 50
747583 ATCAATTCTC
* * *
747593 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT
1 CACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
* * *
747643 CTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
1 C-ACAATCGAGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAA-TTTT
747697 CACAATCGAGGATACTCCAAC
1 CACAATCGAGGATACTCCAAC
747718 CTCGTTATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
50 1 0.02
51 30 0.48
53 26 0.42
54 5 0.08
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (50 bp):
CACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
Found at i:747737 original size:28 final size:28
Alignment explanation
Indices: 747701--747777 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
747691 ATTTTTCACA
* * *
747701 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
747729 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
747757 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
747778 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:755497 original size:271 final size:270
Alignment explanation
Indices: 754930--755685 Score: 1177
Period size: 271 Copynumber: 2.8 Consensus size: 270
754920 CATATGCTTG
* * * *
754930 AAGCAAGGAAGTTCAACCAAACTTTCGCACCCACTACAGG-AAAG-TTCGTTGAGGTTGATGGC-
1 AAGCAAGGAAGCTCAACCAAACTTTCGCACCCACAACAGGAAAAGATT--TCGAGGTTAAT-GCT
* * * * * *
754992 TCCTAACAGATTAGAGATCTCCCCTAAATTCTTGCATCCATCAAGTGCAATATTCCTTAAATTAG
63 TCCTGATAGATTAGGGATCTTCCTTAAATTCTTGCATCCATCAAGTGCAATATTGCTTAAATTAG
755057 TAAGACCCTGGGCAATGAAAATGT-AAAAAACTATATTACTTCAAAGCATCATCTACTAATTTTT
128 TAAGACCCTGGGCAATGAAAATGTAAAAAAACTATATTACTTCAAAGCATCATCTACTAATTTTT
755121 TGGTCG--TATAATAATAATAATAAAGTAATCTGGGACCTTAATAAGTTTCAATTTCTTGAGTTT
193 TGGTCGTATATAATAATAATAATAAAGTAATCTGGGACCTTAATAAGTTTCAATTTCTTGAGTTT
755184 ACAACATACCGAA
258 ACAACATACCGAA
* *
755197 AAGCAAGGGAGCTCAACCAAACTTTCGCACCCACGACAGGAAAAGATTTCGAGGTTAATGCTTCC
1 AAGCAAGGAAGCTCAACCAAACTTTCGCACCCACAACAGGAAAAGATTTCGAGGTTAATGCTTCC
755262 TGATAGATTAGGGATCTTCCTTAAATTCTTGCATCCATCAAGTGCAATATTGCTTAAATTAGTAA
66 TGATAGATTAGGGATCTTCCTTAAATTCTTGCATCCATCAAGTGCAATATTGCTTAAATTAGTAA
755327 GACCCTGGGCAATGAAAATGTAAAAAAACTATATTACTTCAAAGCATCATCTACTAATTTTTTGG
131 GACCCTGGGCAATGAAAATGTAAAAAAACTATATTACTTCAAAGCATCATCTACTAATTTTTTGG
755392 TCGTATAATAATAATAATAATAAAGTAATCTGGGACCTTAATAAGTTTCAATTTCTTGAGTTTAC
196 TCGTAT-ATAATAATAATAATAAAGTAATCTGGGACCTTAATAAGTTTCAATTTCTTGAGTTTAC
755457 AACATACCGAA
260 AACATACCGAA
* *
755468 AAGCAAGGAAGCTCAACCAAACTTTCGCACTCAAAACAGGAAAAGATTTCGAGGTTAATGCTTCC
1 AAGCAAGGAAGCTCAACCAAACTTTCGCACCCACAACAGGAAAAGATTTCGAGGTTAATGCTTCC
* *
755533 TGATAGATTAGGGATCTTCCTTAAATTCTTGCAACCATCGAGTG-AA-ATTCGCCTTAAATTAGT
66 TGATAGATTAGGGATCTTCCTTAAATTCTTGCATCCATCAAGTGCAATATT-G-CTTAAATTAGT
* * * * * * *
755596 AAGATCCTGGGTAATGAAAATGTAAAATAATTATATTACTTAAAAGCATCATCTATTAACTTTTT
129 AAGACCCTGGGCAATGAAAATGTAAAAAAACTATATTACTTCAAAGCATCATCTACTAATTTTTT
*
755661 GGTAGTAGTATAATAATAATAATAA
194 GGTCGTA-TATAATAATAATAATAA
755686 TAATAATAAT
Statistics
Matches: 454, Mismatches: 25, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
266 2 0.00
267 129 0.28
268 50 0.11
269 5 0.01
270 4 0.01
271 263 0.58
272 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (270 bp):
AAGCAAGGAAGCTCAACCAAACTTTCGCACCCACAACAGGAAAAGATTTCGAGGTTAATGCTTCC
TGATAGATTAGGGATCTTCCTTAAATTCTTGCATCCATCAAGTGCAATATTGCTTAAATTAGTAA
GACCCTGGGCAATGAAAATGTAAAAAAACTATATTACTTCAAAGCATCATCTACTAATTTTTTGG
TCGTATATAATAATAATAATAAAGTAATCTGGGACCTTAATAAGTTTCAATTTCTTGAGTTTACA
ACATACCGAA
Found at i:755676 original size:3 final size:3
Alignment explanation
Indices: 755670--755724 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
755660 TGGTAGTAGT
755670 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
755718 ATA ATA A
1 ATA ATA A
755725 AGTAATATGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:758287 original size:3 final size:3
Alignment explanation
Indices: 758279--758306 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
758269 CAGTCGAGGG
758279 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
758307 CCATGAGAGA
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:759298 original size:33 final size:32
Alignment explanation
Indices: 759261--759332 Score: 74
Period size: 33 Copynumber: 2.2 Consensus size: 32
759251 TTTTTATTAA
*
759261 TTTTAATTATAT-ATATTTACAATATTTTAAATT
1 TTTTAATTATATCATATTT-CAA-ATTCTAAATT
* * *
759294 TTTTATTTTTATGCATATTTCAAATTCTAATTT
1 TTTTAATTATAT-CATATTTCAAATTCTAAATT
759327 TTTTAA
1 TTTTAA
759333 AATAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
33 23 0.72
34 3 0.09
35 6 0.19
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (32 bp):
TTTTAATTATATCATATTTCAAATTCTAAATT
Found at i:759422 original size:20 final size:20
Alignment explanation
Indices: 759379--759422 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
759369 TTTTACAGTT
* * * *
759379 TTTTGAATTTTATTTTTATC
1 TTTTGAAATTTATATATATA
759399 TTTTGAAATTTATATATATA
1 TTTTGAAATTTATATATATA
759419 TTTT
1 TTTT
759423 TCAAAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTGAAATTTATATATATA
Found at i:759423 original size:21 final size:20
Alignment explanation
Indices: 759378--759436 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
759368 GTTTTACAGT
* *
759378 TTTTTG-AATTTTATTTTTA
1 TTTTTGAAATTTTATATATA
759397 TCTTTTGAAATTTATATATATA
1 T-TTTTGAAATTT-TATATATA
*
759419 TTTTTCAAAATTTTATAT
1 TTTTT-GAAATTTTATAT
759437 TGTTTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 5 0.15
21 14 0.42
22 13 0.39
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTGAAATTTTATATATA
Found at i:759505 original size:8 final size:8
Alignment explanation
Indices: 759479--759513 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
759469 ATGAATTATA
759479 TTTAAATTT
1 TTTAAA-TT
759488 TTTAATATT
1 TTTAA-ATT
759497 TTTAAATT
1 TTTAAATT
759505 TTTAAATT
1 TTTAAATT
759513 T
1 T
759514 AATAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.48
9 12 0.48
10 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTAAATT
Found at i:759652 original size:17 final size:18
Alignment explanation
Indices: 759622--759659 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
759612 ATAAAATTAT
*
759622 AATTTAAATATTTATTTA
1 AATTAAAATATTTATTTA
759640 AATTAAAAT-TTTATTTA
1 AATTAAAATATTTATTTA
759657 AAT
1 AAT
759660 ATATAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTAAAATATTTATTTA
Found at i:759658 original size:29 final size:30
Alignment explanation
Indices: 759613--759670 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
759603 ATATATTTCA
* *
759613 TAAAATTATAATTTAAATATTTATTTAAAT
1 TAAAATTATAATTTAAATATATAATTAAAT
*
759643 TAAAATT-TTATTTAAATATATAATTAAA
1 TAAAATTATAATTTAAATATATAATTAAA
759671 AAATAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TAAAATTATAATTTAAATATATAATTAAAT
Found at i:760748 original size:18 final size:19
Alignment explanation
Indices: 760722--760762 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
760712 TTTTTTTTTA
*
760722 TCTCTTCTCCTTTCTCTT-
1 TCTCGTCTCCTTTCTCTTC
*
760740 TCTCGTCTCTTTTCTCTTC
1 TCTCGTCTCCTTTCTCTTC
760759 TCTC
1 TCTC
760763 TTTTCAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.59
Consensus pattern (19 bp):
TCTCGTCTCCTTTCTCTTC
Found at i:760876 original size:23 final size:22
Alignment explanation
Indices: 760849--760898 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
760839 TTGATTTTTT
* **
760849 TTTTCGATCCTTTTTTCCTTTC
1 TTTTCCATCCTTTCCTCCTTTC
*
760871 TCTTTCCTTCCTTTCCTCCTTTC
1 T-TTTCCATCCTTTCCTCCTTTC
760894 TTTTC
1 TTTTC
760899 ATTTCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.02, C:0.34, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTCCATCCTTTCCTCCTTTC
Found at i:761046 original size:9 final size:9
Alignment explanation
Indices: 761034--761072 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
761024 TATTTTAATG
761034 TTTTTAAAT
1 TTTTTAAAT
761043 TTTTTATAAT
1 TTTTTA-AAT
*
761053 TTTTTGAAT
1 TTTTTAAAT
*
761062 TTTTAAAAT
1 TTTTTAAAT
761071 TT
1 TT
761073 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:761163 original size:18 final size:18
Alignment explanation
Indices: 761142--761178 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
761132 AATTTTATAT
*
761142 TTTTTATTATATTTAAAA
1 TTTTTAATATATTTAAAA
*
761160 TTTTTAATATTTTTAAAA
1 TTTTTAATATATTTAAAA
761178 T
1 T
761179 ATTAAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTAATATATTTAAAA
Found at i:761462 original size:4 final size:4
Alignment explanation
Indices: 761455--761482 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
761445 TTTTCTTTCT
761455 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
761483 CTGATCAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:762138 original size:3 final size:3
Alignment explanation
Indices: 762130--762190 Score: 52
Period size: 3 Copynumber: 18.7 Consensus size: 3
762120 AGGTATACAT
*
762130 ATA ATA ATAA ATA ATTA A-A ATT ATA ACTA TATCA AATA ATA ATA ATA
1 ATA ATA AT-A ATA A-TA ATA ATA ATA A-TA -AT-A A-TA ATA ATA ATA
762177 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
762191 TGATAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 2 0.04
3 32 0.65
4 12 0.24
5 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:762243 original size:21 final size:21
Alignment explanation
Indices: 762213--762252 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
762203 ATTTTATATT
762213 TAAAAATT-AAAAAATAAATA
1 TAAAAATTAAAAAAATAAATA
762233 TAAAACATTAAAAAAATAAA
1 TAAAA-ATTAAAAAAATAAA
762253 GAAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAATTAAAAAAATAAATA
Found at i:762263 original size:18 final size:18
Alignment explanation
Indices: 762213--762266 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
762203 ATTTTATATT
762213 TAAAAATTAAAAAATAAATA
1 TAAAAATT-AAAAA-AAATA
762233 TAAAACATT-AAAAAAATA
1 TAAAA-ATTAAAAAAAATA
762251 -AAGAAATTAAAAAAAA
1 TAA-AAATTAAAAAAAA
762267 ATGAAGGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.16
18 14 0.45
19 4 0.13
20 5 0.16
21 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
TAAAAATTAAAAAAAATA
Found at i:762264 original size:19 final size:19
Alignment explanation
Indices: 762213--762268 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
762203 ATTTTATATT
762213 TAAAAATTAAAAAATAAATA
1 TAAAAATTAAAAAA-AAATA
762233 TAAAACATT--AAAAAAATA
1 TAAAA-ATTAAAAAAAAATA
762251 -AAGAAATTAAAAAAAAAT
1 TAA-AAATTAAAAAAAAAT
762269 GAAGGAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
17 5 0.16
18 7 0.22
19 12 0.38
20 5 0.16
21 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
TAAAAATTAAAAAAAAATA
Found at i:767136 original size:21 final size:21
Alignment explanation
Indices: 767105--767146 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
767095 CTATACACTT
767105 GAAAAATTATAAAAG-AGAAA
1 GAAAAATTATAAAAGAAGAAA
*
767125 GAAAATATTATAGAAGAAGAAA
1 GAAAA-ATTATAAAAGAAGAAA
767147 ATTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (21 bp):
GAAAAATTATAAAAGAAGAAA
Found at i:774540 original size:4 final size:4
Alignment explanation
Indices: 774527--774605 Score: 72
Period size: 4 Copynumber: 20.0 Consensus size: 4
774517 TACGTTTGGT
* * *
774527 GAAA -AAA GAAA GAAA GAAG GAAA GAAA AAAA GAAA GACA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
* * * *
774574 GAAA -AGA GAAA AAAA AAAA GGAGA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA -GAAA GAAA GAAA
774606 AAATATATAT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
3 5 0.08
4 53 0.88
5 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:774558 original size:24 final size:24
Alignment explanation
Indices: 774528--774578 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
774518 ACGTTTGGTG
*
774528 AAAAAAGAAAGAAAGAAGGAAAGA
1 AAAAAAGAAAGAAAGAAAGAAAGA
*
774552 AAAAAAGAAAGACAGAAAGAAAGA
1 AAAAAAGAAAGAAAGAAAGAAAGA
774576 AAA
1 AAA
774579 GAGAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAAGAAAGAAAGAAAGA
Found at i:774574 original size:32 final size:32
Alignment explanation
Indices: 774533--774605 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
774523 TGGTGAAAAA
*
774533 AGAAAGAAAGAAGGAA-AGAAAAAAAGAAA-GAC
1 AGAAAGAAAGAA--AAGAGAAAAAAAAAAAGGAC
*
774565 AGAAAGAAAGAAAAGAGAAAAAAAAAAAGGAG
1 AGAAAGAAAGAAAAGAGAAAAAAAAAAAGGAC
774597 AGAAAGAAA
1 AGAAAGAAA
774606 AAATATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 2 0.05
31 12 0.32
32 23 0.62
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (32 bp):
AGAAAGAAAGAAAAGAGAAAAAAAAAAAGGAC
Found at i:774598 original size:17 final size:16
Alignment explanation
Indices: 774549--774608 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
774539 AAAGAAGGAA
* *
774549 AGAAAAAAAGAAAGAC
1 AGAAAAAAAAAAAGAG
*
774565 AGAAAGAAAGAAAAGAG
1 AGAAA-AAAAAAAAGAG
*
774582 A-AAAAAAAAAAGGAG
1 AGAAAAAAAAAAAGAG
774597 AGAAAGAAAAAA
1 AGAAA-AAAAAA
774609 TATATATTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.28
16 11 0.31
17 15 0.42
ACGTcount: A:0.77, C:0.02, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAAGAG
Found at i:774708 original size:26 final size:25
Alignment explanation
Indices: 774619--774714 Score: 86
Period size: 27 Copynumber: 3.5 Consensus size: 25
774609 TATATATTGG
774619 TATTTATTTTATTTTTTATTTAAAATATTA
1 TATTTATTTTATTTTTTA--T---ATATTA
774649 TATTT-TTATATATTTTTTATATATTAA
1 TATTTATT-T-TATTTTTTATATATT-A
774676 TAATTTATTTTATTTTTTATATATGTA
1 T-ATTTATTTTATTTTTTATATAT-TA
*
774703 TATTTATATTAT
1 TATTTATTTTAT
774715 GTACATATCA
Statistics
Matches: 59, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
26 15 0.25
27 18 0.31
28 6 0.10
29 5 0.08
30 6 0.10
31 9 0.15
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (25 bp):
TATTTATTTTATTTTTTATATATTA
Found at i:775617 original size:12 final size:12
Alignment explanation
Indices: 775600--775648 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
775590 TATTTATATC
775600 ATATTTATTTTT
1 ATATTTATTTTT
775612 ATATTT-TGTTTT
1 ATATTTAT-TTTT
775624 A-A-TTATTTTT
1 ATATTTATTTTT
*
775634 ATATCATATTTTT
1 ATAT-TTATTTTT
775647 AT
1 AT
775649 TTTTCGTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
10 7 0.23
11 4 0.13
12 11 0.35
13 9 0.29
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
ATATTTATTTTT
Found at i:775645 original size:22 final size:22
Alignment explanation
Indices: 775604--775645 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
775594 TATATCATAT
** *
775604 TTATTTTTATATTTTGTTTTAA
1 TTATTTTTATATCATATTTTAA
775626 TTATTTTTATATCATATTTT
1 TTATTTTTATATCATATTTT
775646 TATTTTTCGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTATTTTTATATCATATTTTAA
Found at i:776492 original size:17 final size:15
Alignment explanation
Indices: 776472--776514 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
776462 TTATGTCAGG
776472 TTTAAATTTTATTTTAA
1 TTTAAA-TTTATTTT-A
776489 TTTATAATTTATTTTA
1 TTTA-AATTTATTTTA
776505 TTT-AATTTAT
1 TTTAAATTTAT
776515 CATAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.28
16 4 0.16
17 12 0.48
18 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAAATTTATTTTA
Found at i:776502 original size:22 final size:22
Alignment explanation
Indices: 776477--776533 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
776467 TCAGGTTTAA
*
776477 ATTTTATTTTAATTTATAAT-TT
1 ATTTTA-TTTAATTTATAATAAT
*
776499 ATTTTATTTAATTTATCATAAT
1 ATTTTATTTAATTTATAATAAT
776521 ATTTTAATTTAAT
1 ATTTT-ATTTAAT
776534 AAAAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 12 0.39
22 12 0.39
23 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTATTTAATTTATAATAAT
Found at i:779813 original size:73 final size:73
Alignment explanation
Indices: 779693--779836 Score: 234
Period size: 73 Copynumber: 2.0 Consensus size: 73
779683 AAAAGAAAAA
* *
779693 AAAAATGAAAAGTTTTGAATTGATCACAACCTTGACTTTTAACACCAGAAATTTTGTGGGGGCTT
1 AAAAATGAAAAGTTTCGAATTGATCACAACCTTGACTTTTAACACCAGAAATTTCGTGGGGGCTT
779758 TTTCTTCT
66 TTTCTTCT
* * * *
779766 AAAAATGAGAAGTTTCGCATTGATCATAACCTTGACTTTTAAGACCAGAAATTTCGTGGGGGCTT
1 AAAAATGAAAAGTTTCGAATTGATCACAACCTTGACTTTTAACACCAGAAATTTCGTGGGGGCTT
779831 TTTCTT
66 TTTCTT
779837 TTCCTTTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (73 bp):
AAAAATGAAAAGTTTCGAATTGATCACAACCTTGACTTTTAACACCAGAAATTTCGTGGGGGCTT
TTTCTTCT
Found at i:786224 original size:22 final size:23
Alignment explanation
Indices: 786181--786226 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
786171 AATATTTTTA
786181 TTTTATAATTAAATTTATATAATT
1 TTTTATAATTAAA-TTATATAATT
786205 TTTTATCAATTAAA-TA-ATAATT
1 TTTTAT-AATTAAATTATATAATT
786227 CAATTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 6 0.29
25 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTATAATTAAATTATATAATT
Found at i:786539 original size:11 final size:12
Alignment explanation
Indices: 786525--786565 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
786515 TAATTTAATA
786525 TTAAAATTAT-T
1 TTAAAATTATAT
*
786536 TTAAAA-AATAT
1 TTAAAATTATAT
*
786547 TTAAAATTTTAT
1 TTAAAATTATAT
786559 TTAAAAT
1 TTAAAAT
786566 AATTGATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAAAATTATAT
Found at i:786925 original size:2 final size:2
Alignment explanation
Indices: 786918--786952 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
786908 AAAGAAATAC
786918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
786953 AATCATTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:787491 original size:2 final size:2
Alignment explanation
Indices: 787484--787523 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
787474 TCATATCAAT
787484 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
787524 ACATTACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:788171 original size:28 final size:27
Alignment explanation
Indices: 788139--788207 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
788129 CACTACATGT
*
788139 AATATTCATTTAATATTAAATTTTAAAA
1 AATATT-ATTTAATATTAAATTTAAAAA
* **
788167 AATATATATTTAAAATTTTATTTAAAAA
1 AATAT-TATTTAATATTAAATTTAAAAA
788195 AAT-TTAATTTAAT
1 AATATT-ATTTAAT
788208 TAATTGAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 1 0.03
27 7 0.21
28 25 0.74
29 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
AATATTATTTAATATTAAATTTAAAAA
Found at i:788807 original size:2 final size:2
Alignment explanation
Indices: 788800--788836 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
788790 CACCATGATT
788800 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
788837 GAATTGGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:794075 original size:3 final size:3
Alignment explanation
Indices: 794067--794097 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
794057 TTTTGATCCT
*
794067 ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
794098 AGTAATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:802803 original size:23 final size:24
Alignment explanation
Indices: 802761--802805 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
802751 ATAAATTTAT
**
802761 ATATTATTAATAAATTATATAATA
1 ATATTATTAATAAAAAATATAATA
802785 ATATT-TTAATAAAAAATATAA
1 ATATTATTAATAAAAAATATAA
802806 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATTATTAATAAAAAATATAATA
Found at i:802823 original size:16 final size:17
Alignment explanation
Indices: 802794--802826 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
802784 AATATTTTAA
802794 TAAAAAATATAAAATTT
1 TAAAAAATATAAAATTT
802811 TAAAAAATA-AAAATTT
1 TAAAAAATATAAAATTT
802827 ATATTTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAATATAAAATTT
Found at i:810910 original size:30 final size:30
Alignment explanation
Indices: 810874--810933 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
810864 GAACTTTTTG
810874 TTTTTACTTCTAGATGTATAACTGAGTGGT
1 TTTTTACTTCTAGATGTATAACTGAGTGGT
810904 TTTTTACTTCTAGATGTATAACTGAGTGGT
1 TTTTTACTTCTAGATGTATAACTGAGTGGT
810934 GAAGGCAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (30 bp):
TTTTTACTTCTAGATGTATAACTGAGTGGT
Found at i:814644 original size:42 final size:40
Alignment explanation
Indices: 814598--814675 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
814588 TTAAAATATA
*
814598 ATATAAA-AAATAAATTATAAAATTTATATCAATATAATCAAC
1 ATATAAATAAAT-AATTA-AAAAATTAT-TCAATATAATCAAC
* *
814640 ATATAAATAAATTATTAAAAAATTATTTAATATAAT
1 ATATAAATAAATAATTAAAAAATTATTCAATATAAT
814676 TATAATATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 9 0.28
41 8 0.25
42 11 0.34
43 4 0.12
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (40 bp):
ATATAAATAAATAATTAAAAAATTATTCAATATAATCAAC
Found at i:820071 original size:18 final size:18
Alignment explanation
Indices: 820029--820077 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
820019 TTGTTTTTCG
820029 ATTAAAA-TA-TAAATAT
1 ATTAAAATTATTAAATAT
820045 -TATATAAATTATTAAATAT
1 AT-TA-AAATTATTAAATAT
820064 ATTAAAATT-TTAAA
1 ATTAAAATTATTAAA
820078 AGTGAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 1 0.04
16 2 0.07
17 8 0.29
18 7 0.25
19 9 0.32
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAAATTATTAAATAT
Found at i:820406 original size:34 final size:34
Alignment explanation
Indices: 820367--820433 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
820357 ATGAAGGTGA
* *
820367 TATTTTAAAAAATA-TATTTATAATTAATATATAT
1 TATTTTAAAAAATATTA-ATAAAATTAATATATAT
**
820401 TATTTTTTAAAATATTAATAAAATTAATATATA
1 TATTTTAAAAAATATTAATAAAATTAATATATA
820434 AAATAGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TATTTTAAAAAATATTAATAAAATTAATATATAT
Found at i:821613 original size:2 final size:2
Alignment explanation
Indices: 821606--821630 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
821596 CCACCCCCAC
821606 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
821631 TGAAATGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:822301 original size:19 final size:19
Alignment explanation
Indices: 822279--822377 Score: 80
Period size: 17 Copynumber: 5.3 Consensus size: 19
822269 ATAAAAGTTT
822279 TATATAAATATATTATAAA
1 TATATAAATATATTATAAA
822298 TATATAAATATATTA-AAA
1 TATATAAATATATTATAAA
* * * *
822316 T-TATATATATTTTTTAAG
1 TATATAAATATATTATAAA
*
822334 TATAATAATATAAAATTATAAA
1 TAT-ATAA-AT-ATATTATAAA
* *
822356 AATAT-AATATA-TATATA
1 TATATAAATATATTATAAA
822373 TATAT
1 TATAT
822378 GTATTGTCAA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
17 19 0.31
18 9 0.15
19 18 0.29
20 4 0.06
21 4 0.06
22 8 0.13
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (19 bp):
TATATAAATATATTATAAA
Found at i:822314 original size:17 final size:17
Alignment explanation
Indices: 822279--822326 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
822269 ATAAAAGTTT
822279 TATATAAATATATTATAAA
1 TATATAAATATA-T-TAAA
822298 TATATAAATATATTAAA
1 TATATAAATATATTAAA
*
822315 -AT-TATATATATT
1 TATATAAATATATT
822327 TTTTAAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 9 0.32
16 2 0.07
17 4 0.14
18 1 0.04
19 12 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATATAAATATATTAAA
Found at i:823074 original size:3 final size:3
Alignment explanation
Indices: 823066--823091 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
823056 GAAGTTCAAA
823066 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
823092 AATTTGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:825200 original size:18 final size:16
Alignment explanation
Indices: 825158--825206 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
825148 GTTTTACACG
825158 TAAAAAT-ATAAATAA
1 TAAAAATAATAAATAA
* *
825173 TACAATTAATAAATATA
1 TAAAAATAATAAATA-A
825190 TTAAAAATAATAAATAA
1 -TAAAAATAATAAATAA
825207 AAAGATAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 5 0.19
16 7 0.26
17 2 0.07
18 13 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAATAATAAATAA
Found at i:825321 original size:16 final size:16
Alignment explanation
Indices: 825302--825347 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
825292 ATATTTAAAT
825302 ATTAATATAAAATATA
1 ATTAATATAAAATATA
825318 ATTAAT-TAAATATATA
1 ATTAATATAAA-ATATA
**
825334 AAAAATATAAAATA
1 ATTAATATAAAATA
825348 ATTTAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAATATAAAATATA
Found at i:825353 original size:27 final size:27
Alignment explanation
Indices: 825284--825359 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 27
825274 AATGTTTAAA
*
825284 ATAAATATATATTTAAATATTAATATAAAAT
1 ATAAA-ATA-ATTTAAATA-T-ATAAAAAAT
*
825315 AT-AATTAA-TTAAATATATAAAAAAT
1 ATAAAATAATTTAAATATATAAAAAAT
*
825340 ATAAAATAATTTAACTATAT
1 ATAAAATAATTTAAATATAT
825360 TTATATTGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 10 0.26
26 6 0.15
27 16 0.41
28 1 0.03
29 2 0.05
30 2 0.05
31 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (27 bp):
ATAAAATAATTTAAATATATAAAAAAT
Found at i:828628 original size:22 final size:22
Alignment explanation
Indices: 828603--828645 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
828593 ATCTACTTAT
828603 TAAATTAAT-TTTATATTTAATA
1 TAAATTAATATTTA-ATTTAATA
*
828625 TAAATTATTATTTAATTTAAT
1 TAAATTAATATTTAATTTAAT
828646 GATTGATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAATTAATATTTAATTTAATA
Found at i:829390 original size:21 final size:21
Alignment explanation
Indices: 829347--829396 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
829337 AATTAATGAA
* **
829347 TTAAAAAT-TATTAATTATTT
1 TTAAAAATAAATTAATTAAAT
*
829367 TTAATAATAAATTAATTAAAT
1 TTAAAAATAAATTAATTAAAT
829388 TTAAAAATA
1 TTAAAAATA
829397 TTGCGAAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAAAATAAATTAATTAAAT
Found at i:838862 original size:2 final size:2
Alignment explanation
Indices: 838855--838880 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
838845 ATATAAGTTT
838855 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
838881 GAACATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:839630 original size:15 final size:16
Alignment explanation
Indices: 839597--839631 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
839587 ATTAACGTGA
839597 AATATAAATATAAATTT
1 AATATAAATAT-AATTT
839614 AATATAAATAT-ATTT
1 AATATAAATATAATTT
839629 AAT
1 AAT
839632 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
17 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATAAATATAATTT
Found at i:839693 original size:11 final size:11
Alignment explanation
Indices: 839677--839706 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
839667 ACATTAATTT
839677 TTAAAAATATA
1 TTAAAAATATA
839688 TTAAAAATATA
1 TTAAAAATATA
839699 TATAAAAA
1 T-TAAAAA
839707 ATTAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAAAATATA
Found at i:839701 original size:13 final size:13
Alignment explanation
Indices: 839679--839726 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
839669 ATTAATTTTT
839679 AAAA-ATATATTA
1 AAAATATATATTA
*
839691 AAAATATATATAA
1 AAAATATATATTA
*
839704 AAAATTAATATTTTA
1 AAAA-T-ATATATTA
839719 AAAATATA
1 AAAATATA
839727 AAAAATCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.13
13 14 0.47
14 2 0.07
15 10 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAATATATATTA
Found at i:840677 original size:12 final size:12
Alignment explanation
Indices: 840660--840690 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
840650 GAACAAAAAA
*
840660 AAAAAAAAAGGT
1 AAAAAAAAAGGC
840672 AAAAAAAAAGGC
1 AAAAAAAAAGGC
840684 AAAAAAA
1 AAAAAAA
840691 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAGGC
Found at i:841003 original size:2 final size:2
Alignment explanation
Indices: 840998--841023 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
840988 TATTATGTGT
840998 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
841024 AACCATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:843979 original size:2 final size:2
Alignment explanation
Indices: 843972--843998 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
843962 AATTAAAATA
843972 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
843999 AATGTAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:844102 original size:25 final size:26
Alignment explanation
Indices: 844052--844102 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
844042 TTTAATTTAA
844052 TAAAATAATAAGTAAAATATAATTTTTT
1 TAAAATAATAAG-AAAATAT-ATTTTTT
*
844080 TAAAATAATAA-ACAA-ATATTTTT
1 TAAAATAATAAGAAAATATATTTTT
844103 AAATCAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 3 0.14
28 11 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
TAAAATAATAAGAAAATATATTTTTT
Found at i:844354 original size:16 final size:17
Alignment explanation
Indices: 844330--844398 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 17
844320 TTATTTTTTT
*
844330 ATATTAATTT-ATATAA
1 ATATAAATTTAATATAA
844346 ATATAAATTTAATATAA
1 ATATAAATTTAATATAA
* *
844363 TTATTAAATAT-AT-TAA
1 ATA-TAAATTTAATATAA
*
844379 A-AT--TTTTAATATAA
1 ATATAAATTTAATATAA
844393 ATATAA
1 ATATAA
844399 TATATTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
12 2 0.05
13 2 0.05
14 5 0.12
15 3 0.08
16 12 0.30
17 10 0.25
18 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAAATTTAATATAA
Found at i:844889 original size:2 final size:2
Alignment explanation
Indices: 844884--844913 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
844874 TTGGATTGGA
844884 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
844914 GTGCTTCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:849516 original size:17 final size:16
Alignment explanation
Indices: 849489--849543 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
849479 TAATCATTCG
*
849489 ATATTATATATATTAA
1 ATATAATATATATTAA
*
849505 CATTTAATATATATTTAA
1 -ATATAATATATA-TTAA
849523 ATATAA-ATATATT-A
1 ATATAATATATATTAA
849537 ATATAAT
1 ATATAAT
849544 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 5 0.15
17 15 0.45
18 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATATATATTAA
Found at i:849591 original size:19 final size:17
Alignment explanation
Indices: 849557--849609 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
849547 TAAAAATTTT
849557 TTAAATATATAATTATA
1 TTAAATATATAATTATA
849574 TTAAATATATAACTT-TA
1 TTAAATATATAA-TTATA
* * *
849591 TTAAAAAAATATTTATA
1 TTAAATATATAATTATA
849608 TT
1 TT
849610 TAAAACTCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATATATAATTATA
Found at i:854620 original size:31 final size:31
Alignment explanation
Indices: 854585--854651 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
854575 AAATATTTTA
854585 AAAAATAAAAAATTAAAATAATTTTAACCTC
1 AAAAATAAAAAATTAAAATAATTTTAACCTC
** *
854616 AAAAATAAAAGGTTGAAATAATTTTAACCTC
1 AAAAATAAAAAATTAAAATAATTTTAACCTC
854647 AAAAA
1 AAAAA
854652 GAAGCTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (31 bp):
AAAAATAAAAAATTAAAATAATTTTAACCTC
Done.