Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold53
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: 4419549
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 41486 characters in sequence are not A, C, G, or T
File 4 of 28
Found at i:594573 original size:20 final size:20
Alignment explanation
Indices: 594531--594583 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
594521 TTTTACCCAG
* *
594531 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
*
594551 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
*
594571 ATGCATC-ATACAT
1 ATGTATCGATACAT
594584 TCTGTCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:594677 original size:71 final size:70
Alignment explanation
Indices: 594520--594726 Score: 301
Period size: 71 Copynumber: 2.9 Consensus size: 70
594510 AAAAGTCATA
* *
594520 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGCA-TCATACAT
1 TTTTTA-CCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATTGATACAT
*
594584 TCTGTC
65 TATGTC
*
594590 TTTTTACCTAGATGTATCGATAC-TATTTTCAATATATCGATACATGTATGAATGTATTGATACA
1 TTTTTACC-AGATGTATCGATACAT-TTTTCAATGTATCGATACATGTATGAATGTATTGATACA
*
594654 TTATGTT
64 TTATGTC
* *
594661 TTTTTAGCCAAATGTATCGATACATTTTTCAATGTATTGATACATGTATGAATGTATTGATACAT
1 TTTTTA-CCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATTGATACAT
594726 T
65 T
594727 CTTCAATGTA
Statistics
Matches: 124, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
69 3 0.02
70 49 0.40
71 69 0.56
72 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (70 bp):
TTTTTACCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATTGATACATT
ATGTC
Found at i:594696 original size:20 final size:20
Alignment explanation
Indices: 594671--594746 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
594661 TTTTTAGCCA
594671 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * *
594691 AATGTATTGATACATGTATG
1 AATGTATCGATACATTTTTC
* *
594711 AATGTATTGATACATTCTTC
1 AATGTATCGATACATTTTTC
594731 AATGTATCGATACATT
1 AATGTATCGATACATT
594747 ATGTCTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:594726 original size:40 final size:39
Alignment explanation
Indices: 594671--594749 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 39
594661 TTTTTAGCCA
* *
594671 AATGTATCGATACATTTTTCAATGTATTGATACATGTATG
1 AATGTATCGATACATTCTTCAATGTATCGATACAT-TATG
*
594711 AATGTATTGATACATTCTTCAATGTATCGATACATTATG
1 AATGTATCGATACATTCTTCAATGTATCGATACATTATG
594750 TCTTTTTACC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (39 bp):
AATGTATCGATACATTCTTCAATGTATCGATACATTATG
Found at i:596973 original size:24 final size:27
Alignment explanation
Indices: 596946--596996 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
596936 TATCAAAAAT
596946 TTTATTTATCA-A-G-GATACTCCAAC
1 TTTATTTATCAGAGGAGATACTCCAAC
*
596970 TTTATTTCTCAGAGGAGATACTCCAAC
1 TTTATTTATCAGAGGAGATACTCCAAC
596997 CCCGCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.43
25 1 0.04
26 1 0.04
27 11 0.48
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (27 bp):
TTTATTTATCAGAGGAGATACTCCAAC
Found at i:602930 original size:11 final size:11
Alignment explanation
Indices: 602914--602946 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
602904 TATTAATTGA
602914 AATAATATTTT
1 AATAATATTTT
602925 AATAATA-TTT
1 AATAATATTTT
602935 -ATAATATTTT
1 AATAATATTTT
602945 AA
1 AA
602947 ATATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.30
10 6 0.30
11 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATAATATTTT
Found at i:602949 original size:32 final size:32
Alignment explanation
Indices: 602881--602949 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 32
602871 TAAAATTGTA
* * *
602881 AAATAATATTTTGATAGCAATTATATTAATTG
1 AAATAATATTTTAATAACAATTATAATAATTG
* * * *
602913 AAATAATATTTTAATAATATTTATAATATTTT
1 AAATAATATTTTAATAACAATTATAATAATTG
602945 AAATA
1 AAATA
602950 TTTATATAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (32 bp):
AAATAATATTTTAATAACAATTATAATAATTG
Found at i:602959 original size:20 final size:20
Alignment explanation
Indices: 602915--602955 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
602905 ATTAATTGAA
602915 ATAATATTTTAATAATATTT
1 ATAATATTTTAATAATATTT
602935 ATAATATTTT-A-AATATTT
1 ATAATATTTTAATAATATTT
602953 ATA
1 ATA
602956 TAATTATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATATTTTAATAATATTT
Found at i:603041 original size:14 final size:14
Alignment explanation
Indices: 603018--603057 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
603008 AATATTTTAC
603018 CATT-AAATATTAT
1 CATTAAAATATTAT
603031 CATTAAAATATTAAT
1 CATTAAAATATT-AT
603046 -ATTAAAA-ATTAT
1 CATTAAAATATTAT
603058 TAGTTTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 7 0.28
14 14 0.56
15 2 0.08
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
CATTAAAATATTAT
Found at i:604001 original size:5 final size:5
Alignment explanation
Indices: 603993--604032 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
603983 AAAAAAGTAC
603993 CAAAA CAAAA CAAAA CAAGAA CAAGAA CAAAA CAAAA CAA
1 CAAAA CAAAA CAAAA CAA-AA CAA-AA CAAAA CAAAA CAA
604033 CTAACATGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.75, C:0.20, G:0.05, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:604128 original size:14 final size:13
Alignment explanation
Indices: 604108--604135 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
604098 TTACAAACAT
604108 GTTTTTTTTATTG
1 GTTTTTTTTATTG
604121 GTTTTTTTTATTG
1 GTTTTTTTTATTG
604134 GT
1 GT
604136 GGCAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.18, T:0.75
Consensus pattern (13 bp):
GTTTTTTTTATTG
Found at i:605168 original size:62 final size:62
Alignment explanation
Indices: 605071--605204 Score: 259
Period size: 62 Copynumber: 2.2 Consensus size: 62
605061 TTTTAAAGAA
605071 TTGGTGCAAAATAATTCGAAAGACAAAAGGAAGAAATAATCGACACAAAGGATTATAGAGGT
1 TTGGTGCAAAATAATTCGAAAGACAAAAGGAAGAAATAATCGACACAAAGGATTATAGAGGT
605133 TTGGTGCAAAATAATTCGAAAGACAAAAGGAAGAAATAATCGACACAAAGGATTATAGAGGT
1 TTGGTGCAAAATAATTCGAAAGACAAAAGGAAGAAATAATCGACACAAAGGATTATAGAGGT
*
605195 TTGGTCCAAA
1 TTGGTGCAAA
605205 TCGGCACCTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.20
Consensus pattern (62 bp):
TTGGTGCAAAATAATTCGAAAGACAAAAGGAAGAAATAATCGACACAAAGGATTATAGAGGT
Found at i:605833 original size:33 final size:32
Alignment explanation
Indices: 605795--605861 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
605785 GTTACAAGCT
*
605795 ATGTATCGATACAATTCAT-CATGTATCGATACA
1 ATGTATCAATAC-ATT-ATACATGTATCGATACA
605828 ATGTATCAATACATTATACCATGTATCGATACA
1 ATGTATCAATACATTATA-CATGTATCGATACA
605861 A
1 A
605862 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.10
33 26 0.84
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (32 bp):
ATGTATCAATACATTATACATGTATCGATACA
Found at i:605846 original size:20 final size:20
Alignment explanation
Indices: 605823--605860 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
605813 TCATGTATCG
605823 ATACAATGTATCAATACATT
1 ATACAATGTATCAATACATT
* *
605843 ATACCATGTATCGATACA
1 ATACAATGTATCAATACA
605861 AACAGTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCAATACATT
Found at i:605915 original size:20 final size:19
Alignment explanation
Indices: 605890--606021 Score: 133
Period size: 20 Copynumber: 6.7 Consensus size: 19
605880 CTGCTAACCT
**
605890 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
605910 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
**
605929 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
605949 CATGTATCGATACAATAAA
1 CATGTATCGATACAATGAA
*
605968 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
*
605989 -ATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
606009 -ATGTATCGATACA
1 CATGTATCGATACA
606022 TTCAAGGGTT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
19 33 0.33
20 66 0.66
21 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:605943 original size:39 final size:39
Alignment explanation
Indices: 605890--605982 Score: 177
Period size: 39 Copynumber: 2.4 Consensus size: 39
605880 CTGCTAACCT
*
605890 CATGTATCGATACAATTGTCCATGTATCGATACAATGAA
1 CATGTATCGATACAATTGTCCATGTATCGATACAATAAA
605929 CATGTATCGATACAATTGTCCATGTATCGATACAATAAA
1 CATGTATCGATACAATTGTCCATGTATCGATACAATAAA
605968 CATGTATCGATACAA
1 CATGTATCGATACAA
605983 AGCATAATGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (39 bp):
CATGTATCGATACAATTGTCCATGTATCGATACAATAAA
Found at i:605993 original size:39 final size:39
Alignment explanation
Indices: 605890--606002 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 39
605880 CTGCTAACCT
* * *
605890 CATGTATCGATACAATTGTCCATGTATCGATACAATGAA
1 CATGTATCGATACAATAGTCAATGTATCGATACAATAAA
* *
605929 CATGTATCGATACAATTGTCCATGTATCGATACAATAAA
1 CATGTATCGATACAATAGTCAATGTATCGATACAATAAA
605968 CATGTATCGATACAA-AG-CATAATGTATCGATACAA
1 CATGTATCGATACAATAGTC--AATGTATCGATACAA
606003 AGCATAATGT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 67 0.97
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (39 bp):
CATGTATCGATACAATAGTCAATGTATCGATACAATAAA
Found at i:605993 original size:59 final size:59
Alignment explanation
Indices: 605890--606002 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
605880 CTGCTAACCT
*** *
605890 CATGTATCGATACAATTGTCCATGTATCGATACAATGAACATGTATCGATACAATTGTC
1 CATGTATCGATACAATTAAACATGTATCGATACAAAGAACATGTATCGATACAATTGTC
605949 CATGTATCGATACAA-TAAACATGTATCGATACAAAGCATA-ATGTATCGATACAA
1 CATGTATCGATACAATTAAACATGTATCGATACAAAG-A-ACATGTATCGATACAA
606003 AGCATAATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 17 0.35
59 30 0.62
60 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (59 bp):
CATGTATCGATACAATTAAACATGTATCGATACAAAGAACATGTATCGATACAATTGTC
Found at i:606013 original size:59 final size:59
Alignment explanation
Indices: 605891--606021 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 59
605881 TGCTAACCTC
*** * * *
605891 ATGTATCGATACAATTGTCCATGTATCGATACAATGAACATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTAAACATGTATCGATACAAAGAACATGTATCGATACAATAGTCA
605950 ATGTATCGATACAA-TAAACATGTATCGATACAAAGCATA-ATGTATCGATACAA-AG-CATA
1 ATGTATCGATACAATTAAACATGTATCGATACAAAG-A-ACATGTATCGATACAATAGTC--A
606009 ATGTATCGATACA
1 ATGTATCGATACA
606022 TTCAAGGGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
57 1 0.02
58 18 0.29
59 42 0.68
60 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.29
Consensus pattern (59 bp):
ATGTATCGATACAATTAAACATGTATCGATACAAAGAACATGTATCGATACAATAGTCA
Found at i:606550 original size:22 final size:22
Alignment explanation
Indices: 606525--606572 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
606515 AGTTTTCATT
* *
606525 TTTCTTTCCC-TTAATTAAAGAA
1 TTTCTTCCCCTTTAATCAAA-AA
606547 TTTC-TCCCCTTTAATCAAAAA
1 TTTCTTCCCCTTTAATCAAAAA
606568 TTTCT
1 TTTCT
606573 CAAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTCTTCCCCTTTAATCAAAAA
Found at i:608697 original size:31 final size:30
Alignment explanation
Indices: 608638--608700 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
608628 AAACAGGCAT
* *
608638 AATTCATTCACACAACATAATAATCATCAA
1 AATTCATTCACACAACAAAAAAATCATCAA
608668 AATTCATTCA-ACAACAAAACAAAATCATCAA
1 AATTCATTCACACAAC-AAA-AAAATCATCAA
608699 AA
1 AA
608701 ATCACTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 12 0.41
31 12 0.41
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (30 bp):
AATTCATTCACACAACAAAAAAATCATCAA
Found at i:614760 original size:19 final size:20
Alignment explanation
Indices: 614716--614767 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
614706 CTACCAATCT
**
614716 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
614736 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
614755 CATGTATCAATAC
1 CATGTATCGATAC
614768 TGAAAGCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:615539 original size:13 final size:13
Alignment explanation
Indices: 615521--615545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
615511 AATTTGGGAC
615521 GTATCGATACATT
1 GTATCGATACATT
615534 GTATCGATACAT
1 GTATCGATACAT
615546 CTTGTGTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:615652 original size:20 final size:21
Alignment explanation
Indices: 615605--615657 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
615595 GCCAATCACC
*
615605 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
615626 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
615646 TGTATCGATACA
1 TGTATCGATACA
615658 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:615663 original size:13 final size:13
Alignment explanation
Indices: 615645--615669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
615635 ACATTTGGTC
615645 ATGTATCGATACA
1 ATGTATCGATACA
615658 ATGTATCGATAC
1 ATGTATCGATAC
615670 TGTGCATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:615702 original size:20 final size:19
Alignment explanation
Indices: 615679--615717 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
615669 CTGTGCATTC
615679 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
615699 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
615718 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:617697 original size:20 final size:22
Alignment explanation
Indices: 617655--617699 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
617645 GCTGTTAGTG
* *
617655 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCCACC
617677 TGGGGG-TG-CCGGTCGCCACC
1 TGGGGGCTGCCCGGTCGCCACC
617697 TGG
1 TGG
617700 TGAGTGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.04, C:0.31, G:0.47, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCCACC
Found at i:622696 original size:3 final size:3
Alignment explanation
Indices: 622688--622721 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
622678 TCTGAGTCAC
*
622688 CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
622722 GTCCTTGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:624325 original size:13 final size:13
Alignment explanation
Indices: 624307--624332 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
624297 CAATTTGGGA
624307 TGTATCGATACAT
1 TGTATCGATACAT
624320 TGTATCGATACAT
1 TGTATCGATACAT
624333 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:626015 original size:2 final size:2
Alignment explanation
Indices: 626008--626044 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
625998 ATGCTAGAGA
*
626008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
626045 GCTCACATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:629005 original size:2 final size:2
Alignment explanation
Indices: 628975--629026 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
628965 CTTCCATCTA
* * * *
628975 AT AT AT AC AT TT AT AT TT AT AT TT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
629017 AA AT AT AT AT
1 AT AT AT AT AT
629027 TTTAAATGTC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:629108 original size:3 final size:3
Alignment explanation
Indices: 629100--629130 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
629090 CCAACGCCAG
629100 CTT CTT CTT CTTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT
629131 TGCATATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:630691 original size:47 final size:42
Alignment explanation
Indices: 630619--630724 Score: 108
Period size: 47 Copynumber: 2.4 Consensus size: 42
630609 AATTTGACTA
630619 ATTAATTTTATCTTATTCATCTTCATTCATTATGTGCAATATAATAT
1 ATTAATTTTATCTTATTCA-CTTCATTCA--AT-T-CAATATAATAT
* *
630666 ATTAATTTTATCTTAGTTTCA-TTCATTGAATTTAATATAATAT
1 ATTAATTTTATCTTA--TTCACTTCATTCAATTCAATATAATAT
*
630709 ATTAATTTCAT-TTATT
1 ATTAATTTTATCTTATT
630725 GCTTTTTGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
40 2 0.04
42 3 0.06
43 20 0.37
44 1 0.02
45 2 0.04
47 22 0.41
49 4 0.07
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (42 bp):
ATTAATTTTATCTTATTCACTTCATTCAATTCAATATAATAT
Found at i:633001 original size:7 final size:7
Alignment explanation
Indices: 632989--633026 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
632979 ATTTTAACAT
632989 ATAAAAA
1 ATAAAAA
632996 ATAAAAA
1 ATAAAAA
633003 AT-AAAA
1 ATAAAAA
633009 AT-AAAA
1 ATAAAAA
633015 ATAAAAA
1 ATAAAAA
633022 ATAAA
1 ATAAA
633027 TGAAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:633008 original size:6 final size:6
Alignment explanation
Indices: 632992--633026 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
632982 TTAACATATA
632992 AAAAAT AAAAAAT AAAAAT AAAAAT AAAAAAT AAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT -AAAAAT AAA
633027 TGAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:633010 original size:13 final size:13
Alignment explanation
Indices: 632989--633026 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
632979 ATTTTAACAT
632989 ATAAAAAATAAAA
1 ATAAAAAATAAAA
633002 A-ATAAAAATAAAA
1 ATA-AAAAATAAAA
633015 ATAAAAAATAAA
1 ATAAAAAATAAA
633027 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:633033 original size:13 final size:12
Alignment explanation
Indices: 632991--633036 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
632981 TTTAACATAT
632991 AAAAAATAAAAA
1 AAAAAATAAAAA
633003 ATAAAAATAAAAA
1 A-AAAAATAAAAA
*
633016 TAAAAAATAAATGA
1 -AAAAAATAAA-AA
633030 AAAAAAT
1 AAAAAAT
633037 TGACAAAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 27 0.90
14 2 0.07
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAATAAAAA
Found at i:633033 original size:19 final size:18
Alignment explanation
Indices: 632991--633036 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
632981 TTTAACATAT
632991 AAAAAATAAAAAATAAAA
1 AAAAAATAAAAAATAAAA
633009 ATAAAAATAAAAAATAAATGA
1 A-AAAAATAAAAAATAAA--A
633030 AAAAAAT
1 AAAAAAT
633037 TGACAAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 6 0.24
21 2 0.08
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAAAATAAAAAATAAAA
Found at i:636366 original size:19 final size:19
Alignment explanation
Indices: 636341--636397 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
636331 TTATATCGAT
* *
636341 ACATTGTACCGATACATGT
1 ACATTGTATCGATACATGG
* *
636360 TCATTGTATCGATATATGG
1 ACATTGTATCGATACATGG
636379 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
636398 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:636473 original size:33 final size:32
Alignment explanation
Indices: 636426--636494 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
636416 CTCCCACTGT
* *
636426 TTGTATCGATACATGGTAC-ATTGTATCGATATA
1 TTGTATCGAGACAT-G-ACAATTGTATCGATACA
*
636459 TTGTATTGAGACATGACGAATTGTATCGATACA
1 TTGTATCGAGACATGAC-AATTGTATCGATACA
636492 TTG
1 TTG
636495 CTTCTAACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 2 0.06
32 1 0.03
33 28 0.90
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (32 bp):
TTGTATCGAGACATGACAATTGTATCGATACA
Found at i:639365 original size:20 final size:20
Alignment explanation
Indices: 639311--639365 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
639301 AATTTGCCTG
* *
639311 CATGTATCGATAC-ATTATT
1 CATGTATCGATACAATGATA
639330 CAATGTATCGATACAATGATA
1 C-ATGTATCGATACAATGATA
639351 CATGTATCGATACAA
1 CATGTATCGATACAA
639366 ACCTTATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 26 0.81
21 5 0.16
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:641392 original size:29 final size:27
Alignment explanation
Indices: 641333--641392 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
641323 AAAGAACTTT
** * *
641333 TATCGATACATCTGGGTTTTCTAGATG
1 TATCGATACATCTGGAATTTCCAGAAG
641360 TATCGATACATTCTAGGAATTTCCAGAAG
1 TATCGATACA-TCT-GGAATTTCCAGAAG
641389 TATC
1 TATC
641393 AATGTTAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 10 0.37
28 3 0.11
29 14 0.52
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (27 bp):
TATCGATACATCTGGAATTTCCAGAAG
Found at i:647396 original size:20 final size:20
Alignment explanation
Indices: 647371--647448 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
647361 GTTGGGCTCA
647371 ATGTATCGATACAATGCACT
1 ATGTATCGATACAATGCACT
* * * *
647391 ATGTATTGATATAATTCAAGT
1 ATGTATCGATACAATGC-ACT
*
647412 ATGTATCGAAAC-ATGCACAAT
1 ATGTATCGATACAATGCAC--T
*
647433 AATGTATCGATCCAAT
1 -ATGTATCGATACAAT
647449 TGTGAATTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.02
20 17 0.40
21 12 0.29
22 10 0.24
23 2 0.05
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGCACT
Found at i:647531 original size:13 final size:13
Alignment explanation
Indices: 647513--647537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
647503 TACCAGGAAC
647513 ATGTATCGATACA
1 ATGTATCGATACA
647526 ATGTATCGATAC
1 ATGTATCGATAC
647538 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:647984 original size:15 final size:16
Alignment explanation
Indices: 647964--648004 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
647954 GCTGAAAGGG
647964 GAAAAAACACA-TATA
1 GAAAAAACACAGTATA
647979 GAAAAAACA-AGTATA
1 GAAAAAACACAGTATA
*
647994 AAAAAAACACA
1 GAAAAAACACA
648005 AGCTTTCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (16 bp):
GAAAAAACACAGTATA
Found at i:649343 original size:4 final size:4
Alignment explanation
Indices: 649334--649420 Score: 62
Period size: 4 Copynumber: 23.0 Consensus size: 4
649324 AAGAGGAATC
*
649334 GAAA GAAA G-AA GAAA G-AA GAAA AAAA GAAA GAAA -AAA G-AA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
* * * *
649378 GGAAT GAGA G-AA -AAA GAAA GGAAA AAAA GAAA AAAA G-AA GAAA
1 -GAAA GAAA GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA
649421 AAGGGTTGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
3 18 0.28
4 39 0.61
5 7 0.11
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:649346 original size:7 final size:7
Alignment explanation
Indices: 649336--649420 Score: 60
Period size: 7 Copynumber: 12.9 Consensus size: 7
649326 GAGGAATCGA
649336 AAGAAAG
1 AAGAAAG
649343 AAGAAAG
1 AAGAAAG
*
649350 AAGAAAAA
1 AAG-AAAG
649358 AAGAAAG
1 AAGAAAG
*
649365 AAAAAAG
1 AAGAAAG
649372 AAGAAAG
1 AAGAAAG
*
649379 --GAATG
1 AAGAAAG
649384 AGAGAAA-
1 A-AGAAAG
649391 AAGAAAGG
1 AAGAAA-G
649399 AA-AAA-
1 AAGAAAG
649404 AAG-AA-
1 AAGAAAG
649409 AA-AAAG
1 AAGAAAG
649415 AAGAAA
1 AAGAAA
649421 AAGGGTTGCT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
5 12 0.19
6 7 0.11
7 32 0.52
8 11 0.18
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (7 bp):
AAGAAAG
Found at i:649350 original size:11 final size:11
Alignment explanation
Indices: 649334--649420 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 11
649324 AAGAGGAATC
649334 GAAAGAA-AGAA
1 GAAAGAAGA-AA
649345 GAAAGAAG-AA
1 GAAAGAAGAAA
649355 -AAA-AAGAAA
1 GAAAGAAGAAA
*
649364 GAAAAAAG-AA
1 GAAAGAAGAAA
*
649374 GAAAGGAATGAGA
1 GAAA-GAA-GAAA
649387 GAAA-AAGAAA
1 GAAAGAAGAAA
*
649397 GGAAAAAAAGAAA
1 -G-AAAGAAGAAA
*
649410 AAAAGAAGAAA
1 GAAAGAAGAAA
649421 AAGGGTTGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
8 3 0.05
9 5 0.08
10 14 0.23
11 24 0.39
12 4 0.07
13 11 0.18
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (11 bp):
GAAAGAAGAAA
Found at i:649353 original size:26 final size:24
Alignment explanation
Indices: 649324--649397 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 24
649314 TAGAATTGGA
649324 AAGAGGAATCGAAAGAAAGAAGAAAG
1 AAGAGGAAT-GAAAGAAA-AAGAAAG
** *
649350 AAGAAAAAAAGAAAGAAAAA-AGAAG
1 AAG-AGGAATGAAAGAAAAAGA-AAG
*
649375 AA-AGGAATGAGAGAAAAAGAAAG
1 AAGAGGAATGAAAGAAAAAGAAAG
649398 GAAAAAAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
23 15 0.39
24 2 0.05
25 7 0.18
26 11 0.29
27 3 0.08
ACGTcount: A:0.69, C:0.01, G:0.27, T:0.03
Consensus pattern (24 bp):
AAGAGGAATGAAAGAAAAAGAAAG
Found at i:649365 original size:19 final size:18
Alignment explanation
Indices: 649334--649420 Score: 72
Period size: 19 Copynumber: 4.8 Consensus size: 18
649324 AAGAGGAATC
*
649334 GAAAGAAAGAAGAAAGAA
1 GAAAAAAAGAAGAAAGAA
*
649352 GAAAAAAAGAAAGAAAAAA
1 GAAAAAAAG-AAGAAAGAA
* * *
649371 GAAGAAAGGAATGAGAGAA
1 GAAAAAAAGAA-GAAAGAA
*
649390 -AAAGAAAGGAA-AAA-AA
1 GAAA-AAAAGAAGAAAGAA
649406 GAAAAAAAGAAGAAA
1 GAAAAAAAGAAGAAA
649421 AAGGGTTGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
16 8 0.15
17 8 0.15
18 12 0.22
19 27 0.49
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (18 bp):
GAAAAAAAGAAGAAAGAA
Found at i:649392 original size:33 final size:29
Alignment explanation
Indices: 649334--649422 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 29
649324 AAGAGGAATC
649334 GAAAGAAAGAAGAAAGAAGAAAAAAAGAAA
1 GAAA-AAAGAAGAAAGAAGAAAAAAAGAAA
649364 GAAAAAAGAAGAAAGGAATGAGAGAAAAAGAAA
1 GAAAAAAGAAGAAA-GAA-GA-A-AAAAAGAAA
*
649397 GGAAAAAAAGAAAAAAAGAAGAAAAA
1 -G-AAAAAAG-AAGAAAGAAGAAAAA
649423 GGGTTGCTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
29 10 0.20
30 7 0.14
31 2 0.04
32 4 0.08
33 10 0.20
34 3 0.06
35 10 0.20
36 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (29 bp):
GAAAAAAGAAGAAAGAAGAAAAAAAGAAA
Found at i:649421 original size:11 final size:11
Alignment explanation
Indices: 649346--649422 Score: 63
Period size: 11 Copynumber: 7.1 Consensus size: 11
649336 AAGAAAGAAG
649346 AAAGAAGAAAA
1 AAAGAAGAAAA
649357 AAAGAA-AGAAA
1 AAAGAAGA-AAA
*
649368 AAAGAAGAAAGG
1 AAAGAAGAAA-A
* *
649380 AATG-AGAGAA
1 AAAGAAGAAAA
*
649390 AAAGAA-AGGAA
1 AAAGAAGA-AAA
649401 AAA-AAGAAAA
1 AAAGAAGAAAA
649411 AAAGAAGAAAA
1 AAAGAAGAAAA
649422 A
1 A
649423 GGGTTGCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 12 0.23
11 37 0.70
12 4 0.08
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (11 bp):
AAAGAAGAAAA
Found at i:650795 original size:50 final size:52
Alignment explanation
Indices: 650733--650855 Score: 205
Period size: 50 Copynumber: 2.4 Consensus size: 52
650723 CATAAAGTGT
* **
650733 TGTATCGATACATGCAGGCAAATTTGCTCAGATGTATCGATACA-T-TTTAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
650783 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
650835 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
650856 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 43 0.63
51 1 0.01
52 24 0.35
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:656546 original size:1 final size:1
Alignment explanation
Indices: 656480--656530 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
656470 CCTTCTCTTC
* * * * *
656480 AAAAAAAAAAAAAAAAAGAAAAAAAAAACAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
656531 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:657596 original size:55 final size:55
Alignment explanation
Indices: 657511--658847 Score: 2097
Period size: 55 Copynumber: 24.3 Consensus size: 55
657501 TCCGCTTTTT
*
657511 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
657566 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
657621 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
657676 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
657731 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
657786 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
657841 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
657896 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
657951 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
658006 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
658061 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
658116 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
658171 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
658225 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
658280 ATTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
658335 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
658390 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
658445 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
658500 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
658555 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
658610 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
658665 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
658720 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
658775 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
658830 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
658848 TACAATTTAT
Statistics
Matches: 1210, Mismatches: 39, Indels: 66
0.92 0.03 0.05
Matches are distributed among these distances:
53 6 0.00
54 78 0.06
55 1096 0.91
56 24 0.02
57 6 0.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:659417 original size:19 final size:19
Alignment explanation
Indices: 659393--659460 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
659383 AATTCAACAA
659393 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
659412 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
659427 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
659444 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
659461 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:659432 original size:13 final size:13
Alignment explanation
Indices: 659414--659438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
659404 ACATAAGTTT
659414 TGTATCGATACAA
1 TGTATCGATACAA
659427 TGTATCGATACA
1 TGTATCGATACA
659439 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:659436 original size:32 final size:32
Alignment explanation
Indices: 659395--659457 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
659385 TTCAACAATT
*
659395 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
659427 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
659458 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:659518 original size:13 final size:13
Alignment explanation
Indices: 659500--659525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
659490 CATTTTTCTG
659500 TGTATCGATACAT
1 TGTATCGATACAT
659513 TGTATCGATACAT
1 TGTATCGATACAT
659526 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:659522 original size:33 final size:33
Alignment explanation
Indices: 659480--659546 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
659470 GCCAAGGAAA
***
659480 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
659513 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
659546 T
1 T
659547 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:662073 original size:52 final size:51
Alignment explanation
Indices: 662000--662169 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
661990 TTATTTTCGA
*
662000 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
662052 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
662104 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
662156 GAGGATACTCCAAC
1 GGGGATACTCCAAC
662170 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:662189 original size:28 final size:28
Alignment explanation
Indices: 662153--662229 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
662143 ATTTTTCACA
* * *
662153 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
662181 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
662209 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
662230 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:664618 original size:52 final size:52
Alignment explanation
Indices: 664491--664631 Score: 146
Period size: 52 Copynumber: 2.7 Consensus size: 52
664481 TTTTATCGTT
* * *
664491 AAAACACTAATTTTTCCACAATCGGGGATACTCCCAA-TCCTGGTTTTATTTTC
1 AAAACACCAATTTTT-CACAATCGGGGATACT-CCAACTCCTGATTTTATTTCC
* *
664544 AAAACGCCAATTTCCTT--TAATCGGGGATACTCCAACTCC-GATTTTATTTCC
1 AAAACACCAATTT--TTCACAATCGGGGATACTCCAACTCCTGATTTTATTTCC
* *
664595 AAAAATACCAATTTTTCACAATCGAGGATACTCCAAC
1 -AAAACACCAATTTTTCACAATCGGGGATACTCCAAC
664632 CTCGTTATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
50 2 0.03
51 14 0.19
52 44 0.60
53 11 0.15
55 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
AAAACACCAATTTTTCACAATCGGGGATACTCCAACTCCTGATTTTATTTCC
Found at i:664645 original size:27 final size:28
Alignment explanation
Indices: 664615--664690 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
664605 ATTTTTCACA
*
664615 ATCGAGGATACTCCAACCTCGTTA-TTC
1 ATCGAGGATACTCCAACCCCGTTACTTC
*
664642 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGAGGATACTCCAACCCCGTTACTTC
664670 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
664691 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 22 0.51
28 19 0.44
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTACTTC
Found at i:664685 original size:28 final size:27
Alignment explanation
Indices: 664620--664690 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 27
664610 TCACAATCGA
* **
664620 GGATACTCCAACCTCGTTATTCATCGG
1 GGATACTCCAACCCCGTTATTCAGAGG
*
664647 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTA-TTCAGAGG
664675 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
664691 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 18 0.46
28 21 0.54
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTCAGAGG
Found at i:688987 original size:33 final size:33
Alignment explanation
Indices: 688895--689116 Score: 270
Period size: 33 Copynumber: 7.0 Consensus size: 33
688885 TTCAAAAGCC
* * *
688895 CACAAGTCAGTGGC-ATCTT-TTCCAAAG-CC-
1 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
* *
688924 CACAAGTCAGTGGTAACCTTC-TCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
688956 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
688989 CACAAGTCGGTGGCAACC--CTTCTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTCT-AAAGCCCA
689021 CACAAGTCGGTGGCAACCCTT-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCA
*
689054 CACAAGTTGGTGGCAACCATTC-TCTAAAGCCCA
1 CACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCA
*
689087 CACAAGTCGATGGCAACC--CTTCT-AAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
689117 ATATCGTTGG
Statistics
Matches: 173, Mismatches: 8, Indels: 23
0.85 0.04 0.11
Matches are distributed among these distances:
29 13 0.08
30 18 0.10
31 10 0.06
32 45 0.26
33 83 0.48
34 4 0.02
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
Found at i:689018 original size:65 final size:65
Alignment explanation
Indices: 688895--689116 Score: 296
Period size: 65 Copynumber: 3.5 Consensus size: 65
688885 TTCAAAAGCC
* * * * *
688895 CACAAGTCAGTGGC-ATCTTTTCCAAAG-CC-CACAAGTCAGTGGTAA-CCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
688956 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCC
1 CACAAGTCGGTGGCAACCTT-TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCC
689020 A
65 A
* *
689021 CACAAGTCGGTGGCAACCCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCC
1 CACAAGTCGGTGGCAA-CCTTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCC
689086 A
65 A
* *
689087 CACAAGTCGATGGCAACC-CTTCT-AAGCCCA
1 CACAAGTCGGTGGCAACCTTTTCTAAAGCCCA
689117 ATATCGTTGG
Statistics
Matches: 145, Mismatches: 9, Indels: 12
0.87 0.05 0.07
Matches are distributed among these distances:
61 13 0.09
62 4 0.03
63 14 0.10
64 6 0.04
65 74 0.51
66 34 0.23
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (65 bp):
CACAAGTCGGTGGCAACCTTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
Found at i:689056 original size:98 final size:97
Alignment explanation
Indices: 688895--689116 Score: 303
Period size: 98 Copynumber: 2.3 Consensus size: 97
688885 TTCAAAAGCC
* * ** *
688895 CACAAGTCAGTGGCATCTTTTC-CAAAG-CC-CACAAGTCAGTGGTAACCTTCTCTAAAGCCCAC
1 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCAGTGGCAACCTTCTCTAAAGCCCAC
688957 ACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCA
66 ACAAGTCGGTGGCAACCATTC-TCTAAAGCCCA
* *
688989 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCAGTGGCAA-CCTTCTCTAAAGCCCA
*
689054 CACAAGTTGGTGGCAACCATTCTCTAAAGCCCA
65 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCA
*
689087 CACAAGTCGATGGCAACCCTTCT--AAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCA
689117 ATATCGTTGG
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
94 18 0.16
95 5 0.04
96 9 0.08
97 14 0.12
98 65 0.57
99 3 0.03
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (97 bp):
CACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCAGTGGCAACCTTCTCTAAAGCCCAC
ACAAGTCGGTGGCAACCATTCTCTAAAGCCCA
Found at i:689216 original size:43 final size:43
Alignment explanation
Indices: 689155--689382 Score: 242
Period size: 43 Copynumber: 5.1 Consensus size: 43
689145 GCACTTTAAT
* *
689155 CTTTAAGTCCTATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
689198 CTTTAACTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG--CA-----C
* *
689248 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAA
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
** *
689293 CTCCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
689336 CTTTAAGTCCAATATCA-CTGGCCTTAAATCAGTATATTGGCGC
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCAC
689379 CTTT
1 CTTT
689383 GTCATCTTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
43 113 0.73
45 2 0.01
50 3 0.02
52 37 0.24
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:689268 original size:52 final size:51
Alignment explanation
Indices: 689198--689494 Score: 256
Period size: 52 Copynumber: 6.1 Consensus size: 51
689188 ACATTGGCAC
* *
689198 CTTTAACTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTT-CAT
*
689250 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-A----C-T
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTTCAT
* *
689295 C--CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG--CA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTTCAT
* * * * *
689336 CTTTAAGTCCAATATCA-CTGGCCTTAAATCAGTATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACATTT-TCAT
* * * *
689388 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGTC-TTTGTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC-ACATTT-TCAT
* * *
689440 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC--CTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTTCAT
689489 CTTTAA
1 CTTTAA
689495 CATTCCTAAG
Statistics
Matches: 208, Mismatches: 22, Indels: 33
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 65 0.31
45 3 0.01
46 1 0.00
49 10 0.05
50 2 0.01
51 2 0.01
52 121 0.58
53 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (51 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTTCAT
Found at i:689275 original size:95 final size:92
Alignment explanation
Indices: 689104--689485 Score: 400
Period size: 95 Copynumber: 4.0 Consensus size: 92
689094 CGATGGCAAC
* * * *
689104 CCTTCTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTTTAATCTTTAAGTCCTATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATG
689169 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
689197 CCTTTAACTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--TTT-CATCTTTAAGTCCAA
689262 TGTAGCTGGCCTTGAATCAGCACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
* ** * *
689292 ACTCCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGT
* * *
689351 CA-CTGGCCTTAAATCAGTATATTGGCGCCTTTGTCA
66 -AGCTGGCCTTGAATCAGCACATT---G-----G-CA
* * *
689387 TCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-TT-TCATCTTTAAGTCCAA
*
689452 TGTCGCTGGCCTTGAATCAGCACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
689482 CCTT
1 CCTT
689486 CATCTTTAAC
Statistics
Matches: 238, Mismatches: 28, Indels: 44
0.77 0.09 0.14
Matches are distributed among these distances:
86 32 0.13
87 1 0.00
88 1 0.00
89 1 0.00
92 36 0.15
93 4 0.02
94 4 0.02
95 124 0.52
96 1 0.00
101 1 0.00
102 1 0.00
104 32 0.13
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:690348 original size:13 final size:13
Alignment explanation
Indices: 690330--690356 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
690320 ACATAAAGTG
690330 TTGTATCGATACA
1 TTGTATCGATACA
690343 TTGTATCGATACA
1 TTGTATCGATACA
690356 T
1 T
690357 AAGTTTTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:690371 original size:32 final size:33
Alignment explanation
Indices: 690310--690374 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
690300 TTTCAACGAT
690310 TTGTATCGATACATAAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
*
690343 TTGTATCGATACAT-AAGTTTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
690375 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:690487 original size:51 final size:51
Alignment explanation
Indices: 690395--690543 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
690385 CTGCCAAAAA
* ** *
690395 ATGTATCGATACATTGATCTTTGTATT-GATACATGCAGGCAAATTTGCTCAG
1 ATGTATCGATACATTTAT-AATGT-TTCGATACATGCAGGCAAATTTGCCCAG
690447 ATGTATCGATACATTTATAATGTTTCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACATTTATAATGTTTCGATACATGCAGGCAAATTTGCCCAG
* * *
690498 ATGTATCGATACACTATAAAATGTGTCGATACATGCAGGCAAATTT
1 ATGTATCGATACA-TTTATAATGTTTCGATACATGCAGGCAAATTT
690544 TCATATTTCG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 2 0.02
51 40 0.45
52 46 0.52
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (51 bp):
ATGTATCGATACATTTATAATGTTTCGATACATGCAGGCAAATTTGCCCAG
Found at i:690543 original size:52 final size:51
Alignment explanation
Indices: 690422--690543 Score: 199
Period size: 51 Copynumber: 2.4 Consensus size: 51
690412 TCTTTGTATT
* * * *
690422 GATACATGCAGGCAAATTTGCTCAGATGTATCGATACATTTATAATGTTTC
1 GATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATAAAATGTGTC
690473 GATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTGTC
1 GATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TATAAAATGTGTC
690525 GATACATGCAGGCAAATTT
1 GATACATGCAGGCAAATTT
690544 TCATATTTCG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 37 0.56
52 29 0.44
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (51 bp):
GATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATAAAATGTGTC
Found at i:694613 original size:13 final size:14
Alignment explanation
Indices: 694595--694630 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
694585 ACACTTTTAA
694595 AAAATAAATAAA-T
1 AAAATAAATAAAGT
694608 AAAATAAATAAAGT
1 AAAATAAATAAAGT
*
694622 AAAAAAAAT
1 AAAATAAAT
694631 TTCCCTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAGT
Found at i:697370 original size:152 final size:156
Alignment explanation
Indices: 697166--697593 Score: 408
Period size: 155 Copynumber: 2.8 Consensus size: 156
697156 GTTTTGTAGG
* * **
697166 AAAATTACAAAAATGCTCC-TAAGGGA-TACTTTCGATGTAAAAGTACCCGATACCTTTAAAAGA
1 AAAATTACGAAAATGC-CCTTAAGGGATTCCTTTCGATGTAAAAGTACCCGATACCCATAAAAGA
* * * * *
697229 C-TGAAAAAAG-T-TTGACATGGGATGAACCTATCCTAACTGCCTACCTTTGGCATAAAAACGGA
65 CAT-AAAAAAGATAAT-ACATGAGATGAACCTATCCTAAATACCTACCTTTGGCATAAAAACAGA
* * *
697291 CCCGGT-GCAACCTAGGACTCAGTTCT-A
128 CCCGATAACAACCTAGGAATCAGTTCTAA
** *
697318 AAAATTACGAAAATGCCCTTAAGGGATTCCTTT-GATGTAAAAGTACTTGATACCCATAAAGGAC
1 AAAATTACGAAAATGCCCTTAAGGGATTCCTTTCGATGTAAAAGTACCCGATACCCATAAAAGAC
* * * * ** *
697382 ATAAAGAGGATAATATATGAGATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGTAGACTC
66 ATAAAAAAGATAATACATGAGATGAACCTATCCTAAATACCTACCTTTGGCATAAAAACAGACCC
* *
697447 GATAACAATCTAGGAATCGGTTCTAA
131 GATAACAACCTAGGAATCAGTTCTAA
* * * ** * * *
697473 AAAATTAGGAAAATACCCTTAAGGGATACC-TTCGACATAAAAGT-CCTCGGTACCCCTAAAGGA
1 AAAATTACGAAAATGCCCTTAAGGGATTCCTTTCGATGTAAAAGTACC-CGATACCCATAAAAGA
* * * * * *
697536 CTTAAAGAGGATAATAGATGAGATGAACCTATCCTAAATATCTATCTTTGGCATAAAA
65 CATAAAAAAGATAATACATGAGATGAACCTATCCTAAATACCTACCTTTGGCATAAAA
697594 GCAAGCCCGA
Statistics
Matches: 231, Mismatches: 36, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
151 2 0.01
152 53 0.23
153 51 0.22
154 20 0.09
155 105 0.45
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (156 bp):
AAAATTACGAAAATGCCCTTAAGGGATTCCTTTCGATGTAAAAGTACCCGATACCCATAAAAGAC
ATAAAAAAGATAATACATGAGATGAACCTATCCTAAATACCTACCTTTGGCATAAAAACAGACCC
GATAACAACCTAGGAATCAGTTCTAA
Found at i:697533 original size:155 final size:153
Alignment explanation
Indices: 697249--697604 Score: 453
Period size: 155 Copynumber: 2.3 Consensus size: 153
697239 TTTGACATGG
* ** * * * * *
697249 GATGAACCTATCCTAACTGCCTACCTTTGGCATAAAAACGGACCCGGTGCAACCTAGGACTCAGT
1 GATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAGACCCGATACAACCTAGGAATCAGT
* * * ** *
697314 TCTAAAAATTACGAAAATGCCCTTAAGGGATTCCTTTGATGTAAAAGTACTTGATACCCATAAAG
66 TCTAAAAATTACGAAAATACCCTTAAGGGATACCTTCGACATAAAAGTACTCGATACCCATAAAG
*
697379 GACATAAAGAGGATAATATATGA
131 GACATAAAGAGGATAATAGATGA
* * * *
697402 GATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGTAGACTCGATAACAATCTAGGAATCGG
1 GATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAGACCCGAT-ACAACCTAGGAATCAG
* * * *
697467 TTCTAAAAAATTAGGAAAATACCCTTAAGGGATACCTTCGACATAAAAGTCCTCGGTACCCCTAA
65 TTCT-AAAAATTACGAAAATACCCTTAAGGGATACCTTCGACATAAAAGTACTCGATACCCATAA
*
697532 AGGACTTAAAGAGGATAATAGATGA
129 AGGACATAAAGAGGATAATAGATGA
*
697557 GATGAACCTATCCTAAATATCTATCTTTGGCATAAAAGCA-AGCCCGAT
1 GATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAGA-CCCGAT
697605 GATAAAAATT
Statistics
Matches: 173, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
153 40 0.23
154 17 0.10
155 116 0.67
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (153 bp):
GATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAGACCCGATACAACCTAGGAATCAGT
TCTAAAAATTACGAAAATACCCTTAAGGGATACCTTCGACATAAAAGTACTCGATACCCATAAAG
GACATAAAGAGGATAATAGATGA
Found at i:699218 original size:165 final size:164
Alignment explanation
Indices: 699034--699740 Score: 750
Period size: 165 Copynumber: 4.3 Consensus size: 164
699024 ATGGGAGTTT
* * * * * * *
699034 AATAACAATATTATATGAATTTTAAAAATTTTAAATCCAGAAACATCCCCCCAAAAATATTTACG
1 AATAATAATATTTTATGAATTTTAAAAA-TTCAAAACAAGAAAAATCCCCCCAAAAA-AATTACG
* * ** * * *
699099 AAGTAGAAAACTCGGT-TTCTCGAAAATAG-GG-GTTTTCAAAGAAAAAATCCAAAACTCATGAA
64 AAGTAGAAAACTCCGTATTTTCGAAAA-AGAGGAAATTTC-AAGAAAAAATTCAAAATTTATGAA
* *
699161 AATGAATTAAATTTTT-AAAAATGATTTAATATGAAATA
127 AATGAA-TGAATTTTTGAAAAATGAATTAATATGAAATA
** **
699199 AATAATAATATTTTATGAATTTTAAAAATAAAAAACCAAGAAAAATCCCCTTGAAAAAAATTACG
1 AATAATAATATTTTATGAATTTTAAAAATTCAAAA-CAAGAAAAATCCCC-CCAAAAAAATTACG
* * *
699264 GAGTAGAAAAATCCATA-TTTCGAAAAAGAGGAAATTTCAAGAAAAAAATTCAAAATTTATGAAA
64 AAGTAGAAAACTCCGTATTTTCGAAAAAGAGGAAATTTCAAG-AAAAAATTCAAAATTTATGAAA
*
699328 ATGAATGAATTTTTG-AAAATGAATTTAATGTGAAATA
128 ATGAATGAATTTTTGAAAAATGAA-TTAATATGAAATA
* * *
699365 AATAATAATATTTGATGAATTTTAAAAAATCAAAACAAGAAAAATCCCCCCCAAAAAATTTACGA
1 AATAATAATATTTTATGAATTTTAAAAATTCAAAACAAGAAAAAT-CCCCCCAAAAAAATTACGA
* * * * * * *
699430 AGTAGAAAACTCCGTATTTTGGAAAAAAAAGGGAATTTTAAGGAAAAATTCAAAATTGATGGAAA
65 AGTAGAAAACTCCGTATTTTCG-AAAAAGAGGAAATTTCAAGAAAAAATTCAAAATTTATGAAAA
* *
699495 TAAATGAATTTTTGAAAACTGAATTAATATGAAATA
129 TGAATGAATTTTTGAAAAATGAATTAATATGAAATA
* * * * *
699531 AATAATAATATTTGATGAA-ATTAAGAAA-TCAAAAAAAGAAAAATCTCCCCTAAAAAAATTACA
1 AATAATAATATTTTATGAATTTTAA-AAATTCAAAACAAGAAAAATC-CCCCCAAAAAAATTACG
* * *
699594 AAGTAGAAAACTCCGTATTTTAGAAAAAGAGG-AATTTCAAGGAAAAAATTCAAAAATTATGGAA
64 AAGTAGAAAACTCCGTATTTTCGAAAAAGAGGAAATTTCAA-GAAAAAATTCAAAATTTATGAAA
* * *
699658 ATGAATGAATTTTTGAAAACTAAATTAATATGGAATA
128 ATGAATGAATTTTTGAAAAATGAATTAATATGAAATA
* * *
699695 AATAAT-ATTTTTTGATGAAGTTTAAAAATTAAAAACTAAGAAAAAT
1 AATAATAATATTTT-ATGAATTTTAAAAATTCAAAAC-AAGAAAAAT
699741 TCTCTCGAAA
Statistics
Matches: 461, Mismatches: 62, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
163 12 0.03
164 83 0.18
165 183 0.40
166 160 0.35
167 23 0.05
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (164 bp):
AATAATAATATTTTATGAATTTTAAAAATTCAAAACAAGAAAAATCCCCCCAAAAAAATTACGAA
GTAGAAAACTCCGTATTTTCGAAAAAGAGGAAATTTCAAGAAAAAATTCAAAATTTATGAAAATG
AATGAATTTTTGAAAAATGAATTAATATGAAATA
Found at i:699338 original size:18 final size:18
Alignment explanation
Indices: 699317--699351 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
699307 AAAAATTCAA
699317 AATTTATGAAAATGAATG
1 AATTTATGAAAATGAATG
*
699335 AATTTTTGAAAATGAAT
1 AATTTATGAAAATGAAT
699352 TTAATGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (18 bp):
AATTTATGAAAATGAATG
Found at i:699387 original size:166 final size:166
Alignment explanation
Indices: 699034--699759 Score: 753
Period size: 166 Copynumber: 4.4 Consensus size: 166
699024 ATGGGAGTTT
* ** * * * *
699034 AATAACAATATTAT-ATGAATTTTAAAAATTTTAAATCCAGAAACATCCCCCC-AAAAATATTTA
1 AATAATAATATT-TGATGAATTTTAAAAA-TAAAAAACAAGAAAAATCCCCCCGAAAAA-AATTA
* * * ** * * *
699097 CGAAGTAGAAAACTCGGT-TTCTCGAAAATAG-GGGTTTTCAA-AGAAAAAATCCAAAACTCATG
63 CGAAGTAGAAAACTCCGTATTTTAGAAAA-AGAGGAATTTCAAGA-AAAAAATTCAAAATTTATG
* *
699159 AAAATGAATTAAATTTTT-AAAAATG-ATTTAATATGAAATA
126 AAAATGAA-TGAATTTTTGAAAACTGAATTTAATATGAAATA
* **
699199 AATAATAATATTTTATGAATTTTAAAAATAAAAAACCAAGAAAAATCCCCTTGAAAAAAATTACG
1 AATAATAATATTTGATGAATTTTAAAAATAAAAAA-CAAGAAAAATCCCCCCGAAAAAAATTACG
* * * *
699264 GAGTAGAAAAATCCATA-TTTCGAAAAAGAGGAAATTTCAAGAAAAAAATTCAAAATTTATGAAA
65 AAGTAGAAAACTCCGTATTTTAGAAAAAGAGG-AATTTCAAGAAAAAAATTCAAAATTTATGAAA
*
699328 ATGAATGAATTTTTGAAAA-TGAATTTAATGTGAAATA
129 ATGAATGAATTTTTGAAAACTGAATTTAATATGAAATA
* * *
699365 AATAATAATATTTGATGAATTTTAAAAA-ATCAAAACAAGAAAAATCCCCCCCAAAAAATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATA-AAAAACAAGAAAAATCCCCCCGAAAAAAATTACG
* * * * * *
699429 AAGTAGAAAACTCCGTATTTTGGAAAAAAAAGGGAATTTTAAG-GAAAAATTCAAAATTGATGGA
65 AAGTAGAAAACTCCGTATTTTAG-AAAAAGA-GGAATTTCAAGAAAAAAATTCAAAATTTATGAA
*
699493 AATAAATGAATTTTTGAAAACTGAA-TTAATATGAAATA
128 AATGAATGAATTTTTGAAAACTGAATTTAATATGAAATA
* * * * *
699531 AATAATAATATTTGATGAA-ATTAAGAAATCAAAAA-AAGAAAAATCTCCCCTAAAAAAATTACA
1 AATAATAATATTTGATGAATTTTAA-AAATAAAAAACAAGAAAAATCCCCCCGAAAAAAATTACG
* * *
699594 AAGTAGAAAACTCCGTATTTTAGAAAAAGAGGAATTTCAAGGAAAAAATTCAAAAATTATGGAAA
65 AAGTAGAAAACTCCGTATTTTAGAAAAAGAGGAATTTCAAGAAAAAAATTCAAAATTTATGAAAA
* *
699659 TGAATGAATTTTTGAAAACT-AAATTAATATGGAATA
130 TGAATGAATTTTTGAAAACTGAATTTAATATGAAATA
* * * * * * * *
699695 AATAATATTTTTTGATGAAGTTTAAAAATTAAAAACTAAGAAAAATTCTCTCGAAAAAATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATAAAAAAC-AAGAAAAATCCCCCCGAAAAAAATTACG
699760 GAGAAGGAAA
Statistics
Matches: 476, Mismatches: 64, Indels: 41
0.82 0.11 0.07
Matches are distributed among these distances:
163 12 0.03
164 90 0.19
165 169 0.36
166 184 0.39
167 19 0.04
168 2 0.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.28
Consensus pattern (166 bp):
AATAATAATATTTGATGAATTTTAAAAATAAAAAACAAGAAAAATCCCCCCGAAAAAAATTACGA
AGTAGAAAACTCCGTATTTTAGAAAAAGAGGAATTTCAAGAAAAAAATTCAAAATTTATGAAAAT
GAATGAATTTTTGAAAACTGAATTTAATATGAAATA
Found at i:699662 original size:330 final size:327
Alignment explanation
Indices: 699034--699759 Score: 865
Period size: 330 Copynumber: 2.2 Consensus size: 327
699024 ATGGGAGTTT
* * * * *
699034 AATAACAATATTAT-ATGAATTTTAAAAATTTTAAATCCAGAAACATCCCCCCAAAAATATTTAC
1 AATAATAATATT-TGATGAATTTTAAAAA-TTAAAAACAAGAAAAATCCCCCCAAAAA-ATTTAC
* * *
699098 GAAGTAGAAAACTCGGTTTCTCGAAAATAGGGGTTTTCAAAGAAAAAATCCAAAACTCATGAAAA
63 GAAGTAGAAAACTCCGTTTCTCGAAAAAAGGGATTTT-AAAGAAAAAATCCAAAACTCATGAAAA
* * * *
699163 TGAATTAAATTTTTAAAAATGATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAAT
127 TGAAATAAATTTTTAAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATATTAAAAAT
* ** *
699228 AAAAAACCAAGAAAAATCCCCTTGAAAAAAATTACGGAGTAGAAAAATCCATATTTCGAAAAAGA
192 AAAAAA-CAAGAAAAATCCCCCTGAAAAAAATTACAAAGTAGAAAAATCCATATTTAGAAAAAGA
* *
699293 GGAAATTTCAAGAAAAAAATTCAAAATTTATGAAAATGAATGAATTTTTGAAAA-TGAATTTAAT
256 GGAAATTTCAAGAAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTGAAAACT-AAATTAAT
*
699357 GTGAAATA
320 ATGAAATA
* *
699365 AATAATAATATTTGATGAATTTTAAAAAATCAAAACAAGAAAAATCCCCCCCAAAAAATTTACGA
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACAAGAAAAAT-CCCCCCAAAAAATTTACGA
* * * * * * *
699430 AGTAGAAAACTCCGTATTTTGGAAAAAAAAGGGAATTTT-AAGGAAAAATTCAAAATTGATGGAA
65 AGTAGAAAACTCCGT-TTCTCG--AAAAAAGGG-ATTTTAAAGAAAAAATCCAAAACTCATGAAA
* *
699494 AT-AAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAA-ATTAAGA
126 ATGAAATAAATTTTT-AAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATATTAA-A
* * *
699557 AATCAAAAA-AAGAAAAATCTCCCCT-AAAAAAATTACAAAGTAGAAAACTCCGTATTTTAGAAA
189 AATAAAAAACAAGAAAAATC-CCCCTGAAAAAAATTACAAAGTAGAAAAATCCATA-TTTAGAAA
* *
699620 AAGAGG-AATTTCAAGGAAAAAATTCAAAAATTATGGAAATGAATGAATTTTTGAAAACTAAATT
252 AAGAGGAAATTTCAAGAAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTGAAAACTAAATT
*
699684 AATATGGAATA
317 AATATGAAATA
* * * * * *
699695 AATAATATTTTTTGATGAAGTTTAAAAATTAAAAACTAAGAAAAATTCTCTCGAAAAAATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAAC-AAGAAAAA-TCCCCCCAAAAAATTTACG
699760 GAGAAGGAAA
Statistics
Matches: 339, Mismatches: 43, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
330 162 0.48
331 95 0.28
332 70 0.21
333 8 0.02
334 4 0.01
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.28
Consensus pattern (327 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACAAGAAAAATCCCCCCAAAAAATTTACGAA
GTAGAAAACTCCGTTTCTCGAAAAAAGGGATTTTAAAGAAAAAATCCAAAACTCATGAAAATGAA
ATAAATTTTTAAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATATTAAAAATAAAA
AACAAGAAAAATCCCCCTGAAAAAAATTACAAAGTAGAAAAATCCATATTTAGAAAAAGAGGAAA
TTTCAAGAAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAA
TA
Found at i:699836 original size:330 final size:328
Alignment explanation
Indices: 699170--699880 Score: 780
Period size: 330 Copynumber: 2.1 Consensus size: 328
699160 AAATGAATTA
* * *
699170 AATTTTTAAAAATGATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAATAAAAAAC
1 AATTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATATTAAAAATAAAAAA-
* ** *
699235 CAAGAAAAATCCCCTTGAAAAAAATTACGGAGTAGAAAAATCCATATTTCGAAAAAGAGGAAATT
65 CAAGAAAAATCCCCCTGAAAAAAATTACAAAGTAGAAAAATCCATATTTAGAAAAAGAGGAAATT
* * *
699300 TCAAGAAAAAAATTCAAAATTTATGAAAATGAATGAATTTTTGAAAATGAATTTAATGTGAAATA
130 TCAAGAAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTGAAAATGAAATTAATATGAAATA
* *
699365 AATAATAATATTTGATGAATTTTAAAAAATCAAAACAAGAAAAATCCCCCCCAAAAAATTTACGA
195 AATAATAATATTTGATGAAGTTTAAAAAATAAAAACAAGAAAAATCCCCCCCAAAAAATTTACGA
* * * ** *
699430 AGTAGAAAACTCCGTATTTTGGAAAAAAAAGGGAATTTTAAGGAAAAATTCAAAATTGATGGAAA
260 AGAAGAAAACTCCGTAATTTGGAAAAAAAAGGGAA-TTTAAGGAAAAAATCAAAATCCA-GAAAA
*
699495 TAAATG
323 TAAAGG
* *
699501 AATTTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAA-ATTAAGAAATCAAAA
1 AATTTTT-AAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATATTAA-AAATAAAAA
* *
699565 A-AAGAAAAATCTCCCCT-AAAAAAATTACAAAGTAGAAAACTCCGTATTTTAGAAAAAGAGG-A
64 ACAAGAAAAATC-CCCCTGAAAAAAATTACAAAGTAGAAAAATCCATA-TTTAGAAAAAGAGGAA
* * *
699627 ATTTCAAGGAAAAAATTCAAAAATTATGGAAATGAATGAATTTTTGAAAACT-AAATTAATATGG
127 ATTTCAAGAAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTGAAAA-TGAAATTAATATGA
* * * * * * *
699691 AATAAATAATATTTTTTGATGAAGTTTAAAAATTAAAAACTAAGAAAAATTCTCTCGAAAAAATT
191 AATAAATAATAATATTTGATGAAGTTTAAAAAATAAAAAC-AAGAAAAATCCCCCCCAAAAAATT
* * * * * * *
699756 TACGGAGAAGGAAAC-CTTGTAATTT-G-AAAATAGGAGGAA-TTCA-GAAAGAAGATCACTAAC
255 TACGAAGAAGAAAACTC-CGTAATTTGGAAAAAAAAG-GGAATTTAAGGAAA-AA-ATCA--AAA
699816 TCCA-AAAATAAAAGG
314 TCCAGAAAAT-AAAGG
* * * *
699831 AATTTTTCAAAACTGATTTGATGA-GAATTAAATGATAATATTTGAGGAAT
1 AATTTTT-AAAACTGATTTAAT-ATGAAATAAATAATAATATTTGATGAAT
699881 TTTGATGTAT
Statistics
Matches: 319, Mismatches: 46, Indels: 30
0.81 0.12 0.08
Matches are distributed among these distances:
327 4 0.01
328 5 0.02
329 13 0.04
330 178 0.56
331 72 0.23
332 47 0.15
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (328 bp):
AATTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATATTAAAAATAAAAAAC
AAGAAAAATCCCCCTGAAAAAAATTACAAAGTAGAAAAATCCATATTTAGAAAAAGAGGAAATTT
CAAGAAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTGAAAATGAAATTAATATGAAATAA
ATAATAATATTTGATGAAGTTTAAAAAATAAAAACAAGAAAAATCCCCCCCAAAAAATTTACGAA
GAAGAAAACTCCGTAATTTGGAAAAAAAAGGGAATTTAAGGAAAAAATCAAAATCCAGAAAATAA
AGG
Found at i:702729 original size:78 final size:78
Alignment explanation
Indices: 702528--702907 Score: 251
Period size: 79 Copynumber: 4.8 Consensus size: 78
702518 CATTTTGGTG
* * * *
702528 AAAATCAAGGTTGGAGTATTCCC-TCA-AAGATGGTGGGGTTGGAGTATCCCTAA-GATGAAAAT
1 AAAAACAAGGTTGGAGTA-TCCCTTCAGAA-ATGATGGGGTTAGAGTATCCC-AATGGTGAAAA-
* * * **
702590 TTTAATATTTTAAAAGT
62 ATTGAGATTTTGGAAGT
* * * * * * *
702607 AAAAACAGGGTTGTACTAT-CCTCTCA-AAACGGATGGGGTT-GAGTATCATCGATGGTGAAACA
1 AAAAACAAGGTTGGAGTATCCCT-TCAGAAA-TGATGGGGTTAGAGTATC-CCAATGGTGAAAAA
702669 TTGAGATTTTGGAAGT
63 TTGAGATTTTGGAAGT
** * * *
702685 AAAAA-TGGGATTGGAGTATCTCC-TCGGAAA-GATGGAGTTAGAGTATTCCCTATGGTGAAAAA
1 AAAAACAAGG-TTGGAGTATC-CCTTCAGAAATGATGGGGTTAGAGTA-TCCCAATGGTGAAAAA
* *
702747 TTGATATTTTGGAAAT
63 TTGAGATTTTGGAAGT
*
702763 AAAAAACAAGGTTGGAGTATCCCTTCAGAAATGATGGGGTTAGAGTATCCCCAATGGAGAAAAAT
1 -AAAAACAAGGTTGGAGTATCCCTTCAGAAATGATGGGGTTAGAGTAT-CCCAATGGTGAAAAAT
**
702828 CAAGATTTTGGAAGT
64 TGAGATTTTGGAAGT
* * ** * * *
702843 AAAAGA-GAGGTTGGAGTATTCCC-TCAGAAACGATAAGATTGGAGTATTCCCGATGGTGAAAAA
1 AAAA-ACAAGGTTGGAGTA-TCCCTTCAGAAATGATGGGGTTAGAGTA-TCCCAATGGTGAAAAA
702906 TT
63 TT
702908 TAATGCTTTT
Statistics
Matches: 238, Mismatches: 44, Indels: 38
0.74 0.14 0.12
Matches are distributed among these distances:
77 13 0.05
78 68 0.29
79 108 0.45
80 49 0.21
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (78 bp):
AAAAACAAGGTTGGAGTATCCCTTCAGAAATGATGGGGTTAGAGTATCCCAATGGTGAAAAATTG
AGATTTTGGAAGT
Found at i:702904 original size:79 final size:76
Alignment explanation
Indices: 702656--702907 Score: 256
Period size: 79 Copynumber: 3.2 Consensus size: 76
702646 TGAGTATCAT
* * *
702656 CGATGGTGAAACATTGAGATTTTGGAAGTAAAAATG-GGATTGGAGTATCTCCTCGGAAAGATGG
1 CGATGGTGAAAAATTGAGATTTTGGAAGTAAAAACGAGG-TTGGAGTATC-CCTCAGAAAGATGG
702720 AGTTAGAGTATTCC
64 A-TTAGAGTATTCC
* * * *
702734 CTATGGTGAAAAATTGATATTTTGGAAATAAAAAACAAGGTTGGAGTATCCCTTCAGAAATGATG
1 CGATGGTGAAAAATTGAGATTTTGGAAGT-AAAAACGAGGTTGGAGTATCCC-TCAGAAA-GAT-
* *
702799 GGGTTAGAGTATCCC
62 GGATTAGAGTATTCC
* * **
702814 CAATGGAGAAAAATCAAGATTTTGGAAGTAAAAGA-GAGGTTGGAGTATTCCCTCAGAAACGATA
1 CGATGGTGAAAAATTGAGATTTTGGAAGTAAAA-ACGAGGTTGGAGTA-TCCCTCAGAAA-GAT-
* *
702878 AGATTGGAGTATTCC
62 GGATTAGAGTATTCC
702893 CGATGGTGAAAAATT
1 CGATGGTGAAAAATT
702908 TAATGCTTTT
Statistics
Matches: 142, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
78 27 0.19
79 69 0.49
80 44 0.31
81 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (76 bp):
CGATGGTGAAAAATTGAGATTTTGGAAGTAAAAACGAGGTTGGAGTATCCCTCAGAAAGATGGAT
TAGAGTATTCC
Found at i:705258 original size:32 final size:32
Alignment explanation
Indices: 705222--705293 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
705212 GAAGAATATC
705222 TCGATACATTTGGGTAAAAAACCCAGAATGTA
1 TCGATACATTTGGGTAAAAAACCCAGAATGTA
* *
705254 TCGATGCATTTGGGTTAAAAACCCAGAATGTA
1 TCGATACATTTGGGTAAAAAACCCAGAATGTA
705286 TCGATACA
1 TCGATACA
705294 ATGAGAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (32 bp):
TCGATACATTTGGGTAAAAAACCCAGAATGTA
Found at i:705436 original size:20 final size:20
Alignment explanation
Indices: 705395--705450 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
705385 ACAGGGTCCA
705395 GTATCGATACAATTCAAACAT
1 GTATCGATAC-ATTCAAACAT
**
705416 GTATCGATACATTCATTCAT
1 GTATCGATACATTCAAACAT
705436 GTATCGATACATTCA
1 GTATCGATACATTCA
705451 CTTATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 23 0.70
21 10 0.30
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
GTATCGATACATTCAAACAT
Found at i:712381 original size:19 final size:18
Alignment explanation
Indices: 712357--712408 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
712347 TATCGATACA
* *
712357 GTGTATCAATACATAATGT
1 GTGTATCGATACA-AATAT
*
712376 GTGTATCGATACAATTAT
1 GTGTATCGATACAAATAT
712394 GTGTATCGATACAAA
1 GTGTATCGATACAAA
712409 AAGTTAAGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (18 bp):
GTGTATCGATACAAATAT
Found at i:713095 original size:22 final size:22
Alignment explanation
Indices: 713068--713110 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
713058 TTTTCTTTTC
713068 TCTCCCCCTTAATCATAAAATT
1 TCTCCCCCTTAATCATAAAATT
713090 TCTCCCCCTTAATCATAAAAT
1 TCTCCCCCTTAATCATAAAAT
713111 AATTTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (22 bp):
TCTCCCCCTTAATCATAAAATT
Found at i:714482 original size:21 final size:21
Alignment explanation
Indices: 714451--714502 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
714441 GCTGCTAGTG
*
714451 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
714473 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGGTCGCGACC
714493 TGGTGGGTGC
1 TGG-GGGTGC
714503 TGCCTAGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 14 0.52
21 7 0.26
22 6 0.22
ACGTcount: A:0.04, C:0.27, G:0.50, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:721140 original size:13 final size:13
Alignment explanation
Indices: 721122--721179 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
721112 ACATTTTGGG
721122 ATGTATCGATACA
1 ATGTATCGATACA
721135 ATGTATCGATACATA
1 ATGTATCGATAC--A
721150 ATGTGTGTATCGATACA
1 A----TGTATCGATACA
721167 ATGTATCGATACA
1 ATGTATCGATACA
721180 TAATGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:721160 original size:19 final size:19
Alignment explanation
Indices: 721136--721198 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
721126 ATCGATACAA
721136 TGTATCGATACATAATGTG
1 TGTATCGATACATAATGTG
721155 TGTATCGATAC--AA----
1 TGTATCGATACATAATGTG
721168 TGTATCGATACATAATGTG
1 TGTATCGATACATAATGTG
721187 TGTATCGATACA
1 TGTATCGATACA
721199 AACAGTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAATGTG
Found at i:721164 original size:32 final size:32
Alignment explanation
Indices: 721123--721199 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
721113 CATTTTGGGA
721123 TGTATCGATACAATGTATCGATACATAATGTG
1 TGTATCGATACAATGTATCGATACATAATGTG
721155 TGTATCGATACAATGTATCGATACATAATGTG
1 TGTATCGATACAATGTATCGATACATAATGTG
721187 TGTATCGATACAA
1 TGTATCGATACAA
721200 ACAGTTAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAATGTATCGATACATAATGTG
Found at i:724586 original size:28 final size:28
Alignment explanation
Indices: 724546--724721 Score: 172
Period size: 28 Copynumber: 6.3 Consensus size: 28
724536 GCTGGCATTC
* * *
724546 GAGTCAAAACCCATACTAGCTAGCACCT
1 GAGTCAAAGCCCACACTTGCTAGCACCT
* * ** * *
724574 AAGTTAAAGCCCATGCTTGATGGCACCT
1 GAGTCAAAGCCCACACTTGCTAGCACCT
* *
724602 GAGTCAAAGCCCACACTTGCTTGCACGT
1 GAGTCAAAGCCCACACTTGCTAGCACCT
* *
724630 GAGTCAAAGCCTACACTTGCTAGCACGT
1 GAGTCAAAGCCCACACTTGCTAGCACCT
* * * *
724658 GAGTCAAAGCCTACACTTGTTGGCACTT
1 GAGTCAAAGCCCACACTTGCTAGCACCT
* *
724686 GAGTCAAAGCCCACAGTTGCTAGTACCT
1 GAGTCAAAGCCCACACTTGCTAGCACCT
*
724714 AAGTCAAA
1 GAGTCAAA
724722 AACCATATTA
Statistics
Matches: 122, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 122 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (28 bp):
GAGTCAAAGCCCACACTTGCTAGCACCT
Found at i:724667 original size:84 final size:84
Alignment explanation
Indices: 724546--724738 Score: 206
Period size: 84 Copynumber: 2.3 Consensus size: 84
724536 GCTGGCATTC
* * **
724546 GAGTCAAAACCCATACTAGCTAGCACCTAAGTTAAAGCCCATGCTTGATGGCACCTGAGTCAAAG
1 GAGTCAAAACCCACACTAGCTAGCACCTAAGTCAAAGCCCACACTTGATGGCACCTGAGTCAAAG
724611 CCCACACTTGCTTGCACGT
66 CCCACACTTGCTTGCACGT
* * * * * * * *
724630 GAGTCAAAGCCTACACTTGCTAGCACGTGAGTCAAAGCCTACACTTGTTGGCACTTGAGTCAAAG
1 GAGTCAAAACCCACACTAGCTAGCACCTAAGTCAAAGCCCACACTTGATGGCACCTGAGTCAAAG
* * * *
724695 CCCACAGTTGCTAGTACCT
66 CCCACACTTGCTTGCACGT
* * * *
724714 AAGTCAAAAACCATATTAGCTAGCA
1 GAGTCAAAACCCACACTAGCTAGCA
724739 TTCGAGTCAA
Statistics
Matches: 86, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (84 bp):
GAGTCAAAACCCACACTAGCTAGCACCTAAGTCAAAGCCCACACTTGATGGCACCTGAGTCAAAG
CCCACACTTGCTTGCACGT
Found at i:724834 original size:28 final size:28
Alignment explanation
Indices: 724802--724924 Score: 124
Period size: 28 Copynumber: 4.4 Consensus size: 28
724792 GCACCTGAGT
724802 AAGCCCATATTAGTTGGCATCTAAGTCA
1 AAGCCCATATTAGTTGGCATCTAAGTCA
* * * *
724830 AAGCCCACATTTA-CTAGCACCTAAGTCA
1 AAGCCCATA-TTAGTTGGCATCTAAGTCA
* * ** *
724858 AAACCTATATTAGTTGGCATCCGAGTTA
1 AAGCCCATATTAGTTGGCATCTAAGTCA
*
724886 AAGCCCATATTTGTTGGCA-CTTAAGTCA
1 AAGCCCATATTAGTTGGCATC-TAAGTCA
724914 AAGCCCATATT
1 AAGCCCATATT
724925 CATTGCCACC
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
27 4 0.05
28 66 0.90
29 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (28 bp):
AAGCCCATATTAGTTGGCATCTAAGTCA
Found at i:724834 original size:54 final size:56
Alignment explanation
Indices: 724752--724878 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 56
724742 GAGTCAATGT
* * * *
724752 CCATATTAGCTGGCA-CTTAAGTATAAGCCAACA-CTAGCTGGCACCTGAGT-AAGC
1 CCATATTAGTTGGCATCTTAAGTATAAGCCAACATCTA-CTAGCACCTAAGTAAAAC
* *
724806 CCATATTAGTTGGCATC-TAAGTCA-AAGCCCACATTTACTAGCACCTAAGTCAAAAC
1 CCATATTAGTTGGCATCTTAAGT-ATAAGCCAACATCTACTAGCACCTAAGT-AAAAC
*
724862 CTATATTAGTTGGCATC
1 CCATATTAGTTGGCATC
724879 CGAGTTAAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
54 38 0.62
55 4 0.07
56 19 0.31
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (56 bp):
CCATATTAGTTGGCATCTTAAGTATAAGCCAACATCTACTAGCACCTAAGTAAAAC
Found at i:724889 original size:56 final size:56
Alignment explanation
Indices: 724805--724924 Score: 150
Period size: 56 Copynumber: 2.1 Consensus size: 56
724795 CCTGAGTAAG
*
724805 CCCATATTAGTTGGCATCTAAGTCAAAGCCCACATTTACTAGCACCTAAGTCAAAA
1 CCCATATTAGTTGGCATCCAAGTCAAAGCCCACATTTACTAGCACCTAAGTCAAAA
* * * * ** * * *
724861 CCTATATTAGTTGGCATCCGAGTTAAAGCCCATATTTGTTGGCACTTAAGTCAAAG
1 CCCATATTAGTTGGCATCCAAGTCAAAGCCCACATTTACTAGCACCTAAGTCAAAA
724917 CCCATATT
1 CCCATATT
724925 CATTGCCACC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (56 bp):
CCCATATTAGTTGGCATCCAAGTCAAAGCCCACATTTACTAGCACCTAAGTCAAAA
Found at i:725171 original size:28 final size:28
Alignment explanation
Indices: 724752--725168 Score: 107
Period size: 28 Copynumber: 15.2 Consensus size: 28
724742 GAGTCAATGT
*
724752 CCATATTAGCTGGCACTTAAG-TATAAGC
1 CCATATTAGTTGGCACTTAAGTTA-AAGC
* * * * * *
724780 CAACACTAGCTGGCACCTGAG-T-AAGC
1 CCATATTAGTTGGCACTTAAGTTAAAGC
*
724806 CCATATTAGTTGGCA-TCTAAGTCAAAGC
1 CCATATTAGTTGGCACT-TAAGTTAAAGC
* * * * * *
724834 CCACATTTA-CTAGCACCTAAGTCAAAAC
1 CCATA-TTAGTTGGCACTTAAGTTAAAGC
* **
724862 CTATATTAGTTGGCA-TCCGAGTTAAAGC
1 CCATATTAGTTGGCACT-TAAGTTAAAGC
* *
724890 CCATATTTGTTGGCACTTAAGTCAAAGC
1 CCATATTAGTTGGCACTTAAGTTAAAGC
* *
724918 CCATATTCA-TTGCCACCTAA--T-AAG-
1 CCATATT-AGTTGGCACTTAAGTTAAAGC
** * *
724942 --ATATTAAAAT--C-TTATAGAGTTTAAGC
1 CCATATT-AGTTGGCACT-TA-AGTTAAAGC
* * * * *
724968 CTACACTAGCTGGCACTTAAGTTAAGGC
1 CCATATTAGTTGGCACTTAAGTTAAAGC
* *
724996 CCATATTAGCTGGCA-TTCGAGTTAAAGC
1 CCATATTAGTTGGCACTT-AAGTTAAAGC
* * * * * *
725024 CCACATTTGTTGGCACCTAAATCAAGGC
1 CCATATTAGTTGGCACTTAAGTTAAAGC
* * * *
725052 CCACATTAGTTGGCA-TCCAAGTCAATGC
1 CCATATTAGTTGGCACT-TAAGTTAAAGC
* * * *
725080 CCATATTAGCTAGCA-TTCATGTTAAAGG
1 CCATATTAGTTGGCACTT-AAGTTAAAGC
* * * * *
725108 CCATGTTAGTTAGCACATGAGTTAAAGT
1 CCATATTAGTTGGCACTTAAGTTAAAGC
* * * *
725136 CTACACTAGTTGGCACTTAAGTCAAAGC
1 CCATATTAGTTGGCACTTAAGTTAAAGC
725164 CCATA
1 CCATA
725169 CTAGCTAGCA
Statistics
Matches: 274, Mismatches: 89, Indels: 52
0.66 0.21 0.13
Matches are distributed among these distances:
21 3 0.01
22 7 0.03
23 1 0.00
24 1 0.00
25 6 0.02
26 18 0.07
27 7 0.03
28 221 0.81
29 9 0.03
30 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (28 bp):
CCATATTAGTTGGCACTTAAGTTAAAGC
Found at i:726271 original size:15 final size:15
Alignment explanation
Indices: 726203--726271 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
726193 TGGAACCAGA
726203 AAAGAAAAATAGAAGG
1 AAAGAAAAA-AGAAGG
726219 AAGGAGGAAAAAAGAA-G
1 AA--A-GAAAAAAGAAGG
**
726236 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAGG
*
726251 AAAGAAAAAGGAAGG
1 AAAGAAAAAAGAAGG
*
726266 AGAGAA
1 AAAGAA
726272 GAATAAAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
14 10 0.23
15 18 0.41
16 2 0.05
17 3 0.07
18 5 0.11
19 6 0.14
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (15 bp):
AAAGAAAAAAGAAGG
Found at i:727302 original size:110 final size:110
Alignment explanation
Indices: 727107--727533 Score: 479
Period size: 109 Copynumber: 3.9 Consensus size: 110
727097 TGGGATTTAA
* * * * * * *
727107 TTGCATTAATTATC-TAGTATTTAGGCATTAAAAGATTAGCCTCAAAATAGGTCATTGGCTAGAG
1 TTGCATAAATTA-CATAGTATTTGGGCACTAAGAGATTGGCCTCGAAATAGGTCATTGTCTAGAG
* *
727171 TCATAAAGTGGCATACTAATGCCCTTTATATAGGATAATTTATTTT
65 TCATAAAGTGGCATACAAATGCCCTTTATATAGGATAATTCATTTT
* * *
727217 TTGCATAAATTACATGGTGTTTGGGCACTAAGAGATTGGCCTCGAAATAGGTCATTGTATAGAGT
1 TTGCATAAATTACATAGTATTTGGGCACTAAGAGATTGGCCTCGAAATAGGTCATTGTCTAGAGT
* **
727282 CATAAAATGGCATATGAATG-CCTTCTATATAGGATAATTCA-TTT
66 CATAAAGTGGCATACAAATGCCCTT-TATATAGGATAATTCATTTT
* * * * *
727326 TTGCATAAATTACATAGTATTTGGACACCAAGGGATTGGCCCCGAAATAGGTTATTGTCTAGAGT
1 TTGCATAAATTACATAGTATTTGGGCACTAAGAGATTGGCCTCGAAATAGGTCATTGTCTAGAGT
* * *
727391 CATAAAGTGGCATACAAACGCCATTTATATAGAATAATTCATTTTT
66 CATAAAGTGGCATACAAATGCCCTTTATATAGGATAATTCA-TTTT
* *** * *
727437 TTGCATAAATTATATAGTATTCAAGCACTAAGGGATTGGCC-CTGAAATAGG-C-TAGTCTAGAG
1 TTGCATAAATTACATAGTATTTGGGCACTAAGAGATTGGCCTC-GAAATAGGTCATTGTCTAGAG
* * * *
727499 TTATAAAGTAGCATACAAATGTCCTTTGTATAGGA
65 TCATAAAGTGGCATACAAATGCCCTTTATATAGGA
727534 AAATATATTT
Statistics
Matches: 268, Mismatches: 43, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
109 133 0.50
110 89 0.33
111 46 0.17
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (110 bp):
TTGCATAAATTACATAGTATTTGGGCACTAAGAGATTGGCCTCGAAATAGGTCATTGTCTAGAGT
CATAAAGTGGCATACAAATGCCCTTTATATAGGATAATTCATTTT
Found at i:727584 original size:219 final size:219
Alignment explanation
Indices: 727151--727585 Score: 493
Period size: 219 Copynumber: 2.0 Consensus size: 219
727141 ATTAGCCTCA
* * * * *
727151 AAATAGGTCATTGGCTAGAGTCATAAAGTGGCATACTAATGCCCTTTATATAGGATAATTTATTT
1 AAATAGGTCATTGGCTAGAGTCATAAAGTGGCATACAAACGCCATTTATATAGAATAATTCATTT
* * *** *
727216 TTTGCATAAATTACATGGTGTTTGGGCACTAAGAGATTGGCCTCGAAATAGGTCATTGTATAGAG
66 TTTGCATAAATTACATAGTATTCAAGCACTAAGAGATTGGCCTCGAAATAGGTCATAGTATAGAG
* ** * * * *
727281 TCATAAAATGGCATATGAATGCCTTCTATATAGGATAATTCATTTTTGCATAAATTACATAGTAT
131 TCATAAAATAGCATACAAATGCCTTCTATATAGGAAAATTCATTTTTGCATAAATCACATAATAC
*
727346 TTGGACACCAAGGGATTGGCCCCG
196 TTGGACACCAAGAGATTGGCCCCG
* *
727370 AAATAGGTTATTGTCTAGAGTCATAAAGTGGCATACAAACGCCATTTATATAGAATAATTCATTT
1 AAATAGGTCATTGGCTAGAGTCATAAAGTGGCATACAAACGCCATTTATATAGAATAATTCA-TT
* * *
727435 TTTTGCATAAATTATATAGTATTCAAGCACTAAGGGATTGGCC-CTGAAATAGG-C-TAGTCTAG
65 TTTTGCATAAATTACATAGTATTCAAGCACTAAGAGATTGGCCTC-GAAATAGGTCATAGTATAG
* * * * * **
727497 AGTTATAAAGTAGCATACAAATGTCCTT-TGTATAGGAAAATAT-ATTTTTCTCATTAATCATGT
129 AGTCATAAAATAGCATACAAATG-CCTTCTATATAGGAAAAT-TCATTTTT-GCATAAATCACAT
* *
727560 AATACTTGGGCACCAATAGATTGGCC
191 AATACTTGGACACCAAGAGATTGGCC
727586 ATAATATAGG
Statistics
Matches: 178, Mismatches: 33, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
218 41 0.23
219 91 0.51
220 46 0.26
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (219 bp):
AAATAGGTCATTGGCTAGAGTCATAAAGTGGCATACAAACGCCATTTATATAGAATAATTCATTT
TTTGCATAAATTACATAGTATTCAAGCACTAAGAGATTGGCCTCGAAATAGGTCATAGTATAGAG
TCATAAAATAGCATACAAATGCCTTCTATATAGGAAAATTCATTTTTGCATAAATCACATAATAC
TTGGACACCAAGAGATTGGCCCCG
Found at i:736469 original size:55 final size:55
Alignment explanation
Indices: 736385--736493 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
736375 GAGACATTCG
736385 AATGTCTCAAAGAATATCCAATTGGCTCCCACGTAACTAACCCTTTTAGACTCAA
1 AATGTCTCAAAGAATATCCAATTGGCTCCCACGTAACTAACCCTTTTAGACTCAA
736440 AATGTCTCAAAGAATATCCAATTGGCTCCCACGTAACTAACCCTTTTAGACTCA
1 AATGTCTCAAAGAATATCCAATTGGCTCCCACGTAACTAACCCTTTTAGACTCA
736494 GACCAAGACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.28
Consensus pattern (55 bp):
AATGTCTCAAAGAATATCCAATTGGCTCCCACGTAACTAACCCTTTTAGACTCAA
Found at i:736720 original size:81 final size:79
Alignment explanation
Indices: 736580--736823 Score: 296
Period size: 81 Copynumber: 3.1 Consensus size: 79
736570 AACATTAAAA
* * * * *
736580 GGGGATACTTAAACCCCACCATTTCAAAGAGGATACTCCAACTCTATTTTTACTTCTAAAAATAT
1 GGGGATA-TTAAACCCCACCATTTCTAAGGGGATACTCCAACCCCATTTTTACTCCTAAAAATAT
*
736645 -TAAATTTTCCATTTAC
65 CAAAATTTT-CATTT-C
*
736661 GGGGATATTAGAACCCCACCATTTCTAAGGGGATACTTCAACCCCATTTTTACTCCTAAAAATAT
1 GGGGATATTA-AACCCCACCATTTCTAAGGGGATACTCCAACCCCATTTTTACTCCTAAAAATAT
736726 CAAAATTTTCATTTTC
65 CAAAATTTTCA-TTTC
* ** * * *
736742 GAGGATACTCCAA-CCCACAATTTCTAAGGGGATACTCCAACCCC-GTTTTACTCCAAAAAATAT
1 GGGGATA-TTAAACCCCACCATTTCTAAGGGGATACTCCAACCCCATTTTTACTCCTAAAAATAT
736805 CAAAATTTTCATTTC
65 CAAAATTTTCATTTC
736820 GGGG
1 GGGG
736824 GATACTCCAA
Statistics
Matches: 144, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
78 7 0.05
79 28 0.19
80 32 0.22
81 66 0.46
82 11 0.08
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (79 bp):
GGGGATATTAAACCCCACCATTTCTAAGGGGATACTCCAACCCCATTTTTACTCCTAAAAATATC
AAAATTTTCATTTC
Found at i:736818 original size:79 final size:80
Alignment explanation
Indices: 736594--736916 Score: 327
Period size: 79 Copynumber: 4.0 Consensus size: 80
736584 ATACTTAAAC
* * *** * *
736594 CCCACCATTTCAAAGAGGATACTCCAACTCTATTTTTACTTCTAAAAATAT-TAAATTTTCCATT
1 CCCACCATTTCTAAGGGGATACTCCAAC-CCCGTTTTACTCCTAAAAATATCAAAATTTTCCATT
* * * **
736658 TACGGGGATATTAGAA
65 TTCGAGGATACTCCAA
* *
736674 CCCCACCATTTCTAAGGGGATACTTCAACCCCATTTTTACTCCTAAAAATATCAAAATTTT-CAT
1 -CCCACCATTTCTAAGGGGATACTCCAACCCC-GTTTTACTCCTAAAAATATCAAAATTTTCCAT
736738 TTTCGAGGATACTCCAA
64 TTTCGAGGATACTCCAA
* *
736755 CCCACAATTTCTAAGGGGATACTCCAACCCCGTTTTACTCCAAAAAATATCAAAATTTT-CA-TT
1 CCCACCATTTCTAAGGGGATACTCCAACCCCGTTTTACTCCTAAAAATATCAAAATTTTCCATTT
*
736818 TCGGGGGATACTCCAA
66 TC-GAGGATACTCCAA
* ** * * *
736834 CCCACC-TTTTTCAAGCAGATACTCGAACCCGGTTTTACTCTTTAAAAATATC-AAATTTTCCAT
1 CCCACCATTTCT-AAGGGGATACTCCAACCCCGTTTTACTC-CTAAAAATATCAAAATTTTCCAT
736897 CTTT-GAGGATACTCCAA
64 -TTTCGAGGATACTCCAA
736914 CCC
1 CCC
736917 CATTTTTGCT
Statistics
Matches: 208, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
78 8 0.04
79 76 0.37
80 56 0.27
81 58 0.28
82 10 0.05
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (80 bp):
CCCACCATTTCTAAGGGGATACTCCAACCCCGTTTTACTCCTAAAAATATCAAAATTTTCCATTT
TCGAGGATACTCCAA
Found at i:737015 original size:135 final size:132
Alignment explanation
Indices: 736771--737043 Score: 309
Period size: 135 Copynumber: 2.0 Consensus size: 132
736761 ATTTCTAAGG
* * * *
736771 GGATACTCCAACCCCGTTTTACTCCAAAAAATATCAAAATTTTCATTTCGGGGGATACTCCAACC
1 GGATACTCCAACCCCGTTTTACTACAAAAAATATCAAAATTTCCATTTAGGGGAATACTCCAACC
* * * * * *
736836 CACCTTTTTCAAGCAGATACTCGAACCCGGTTTTACTCTTTAAAAATATCAAATTTTCCATCTTT
66 CACCTTTCTAAAGCAGATACTCGAACCCAGTTTTACTCTCTAAAAATATCAAACTTTCCATCTTC
*
736901 GA
131 AA
* * * *
736903 GGATACTCCAACCCCATTTTTGCTACTAAAAATATCAAAAGTTTCCATTTATGGGAATACTCCAA
1 GGATACTCCAACCCC-GTTTTACTACAAAAAATATCAAAA-TTTCCATTTAGGGGAATACTCCAA
* * *
736968 CACCACCATTTCTAAAG-GGATACTAC-AACCCCATTTTTACT-TCTAAAAATATCAAGCTTTCC
64 C-CCACC-TTTCTAAAGCAGATACT-CGAA-CCCAGTTTTACTCTCTAAAAATATCAAACTTTCC
737030 ATCTTCAA
125 ATCTTCAA
737038 GGATAC
1 GGATAC
737044 CGCAACTCTG
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
132 15 0.13
133 20 0.17
134 21 0.18
135 43 0.37
136 18 0.15
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.32
Consensus pattern (132 bp):
GGATACTCCAACCCCGTTTTACTACAAAAAATATCAAAATTTCCATTTAGGGGAATACTCCAACC
CACCTTTCTAAAGCAGATACTCGAACCCAGTTTTACTCTCTAAAAATATCAAACTTTCCATCTTC
AA
Found at i:737086 original size:81 final size:78
Alignment explanation
Indices: 736902--737160 Score: 252
Period size: 81 Copynumber: 3.2 Consensus size: 78
736892 TCCATCTTTG
* *
736902 AGGATACTCCAACCCCATTTTTGCTACTAAAAATATCAAAAGTTTCCAT-TTATGGGAATACTCC
1 AGGATACTCCAACCCCATTTTTACTTCTAAAAATATC--AAGTTTCCATCTTA-GGG-ATACTCC
*
736966 AACACCACCATTTCTAA
62 AACACCACCATTTCGAA
* *
736983 AGGGATACTACAACCCCATTTTTACTTCTAAAAATATCAAGCTTTCCATCTTCAAGGATAC-CGC
1 A-GGATACTCCAACCCCATTTTTACTTCTAAAAATATCAAG-TTTCCATCTT-AGGGATACTC-C
* **
737047 AACTCTGCCATTTCCGAA
62 AACACCACCATTT-CGAA
* * * *
737065 AGGATACTCCAACCCCGTTTTTACTTCTAAAAATGTCAAATTTTCCATCTTTAGGGATACTTCAA
1 AGGATACTCCAACCCCATTTTTACTTCTAAAAATATC-AAGTTTCCATC-TTAGGGATACTCCAA
* * *
737130 CCCCACTATCTCTGAA
64 CACCACCATTTC-GAA
*
737146 GGGATACTCCAACCC
1 AGGATACTCCAACCC
737161 TGTTTCTTCT
Statistics
Matches: 148, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
80 5 0.03
81 97 0.66
82 45 0.30
83 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (78 bp):
AGGATACTCCAACCCCATTTTTACTTCTAAAAATATCAAGTTTCCATCTTAGGGATACTCCAACA
CCACCATTTCGAA
Found at i:740337 original size:19 final size:20
Alignment explanation
Indices: 740313--740352 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
740303 ATCCATACAA
740313 ATCCATGA-GATGTATCGAT
1 ATCCATGATGATGTATCGAT
*
740332 ATCCATTATGATGTATCGAT
1 ATCCATGATGATGTATCGAT
740352 A
1 A
740353 CATGGCCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
ATCCATGATGATGTATCGAT
Found at i:746545 original size:33 final size:33
Alignment explanation
Indices: 746508--746574 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
746498 TTCAATGATT
746508 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
746541 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
746574 T
1 T
746575 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:746546 original size:13 final size:13
Alignment explanation
Indices: 746528--746552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746518 CATAAAATGT
746528 TGTATCGATACAA
1 TGTATCGATACAA
746541 TGTATCGATACA
1 TGTATCGATACA
746553 TATTTTTTTG
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:746635 original size:13 final size:13
Alignment explanation
Indices: 746617--746641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746607 ATTACTCACA
746617 TGTATCGATACAT
1 TGTATCGATACAT
746630 TGTATCGATACA
1 TGTATCGATACA
746642 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:746767 original size:52 final size:52
Alignment explanation
Indices: 746650--746774 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
746640 CACTGATCTT
* *
746650 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
746702 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
746754 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
746775 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:750288 original size:25 final size:25
Alignment explanation
Indices: 750254--750317 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
750244 ATTTTACCTA
* *
750254 AATGTATCGATACAATATATAATTT
1 AATGTATCGATACAATACATAATTC
*
750279 AATGTATCGATACAATACATTATTC
1 AATGTATCGATACAATACATAATTC
750304 AATGTATCGATACA
1 AATGTATCGATACA
750318 TGCAGGCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (25 bp):
AATGTATCGATACAATACATAATTC
Found at i:756988 original size:20 final size:20
Alignment explanation
Indices: 756944--756997 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
756934 ATTTCAACGA
756944 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATAAAAT
* ***
756964 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATAAAAT
756984 TTTGTATCGATACA
1 TTTGTATCGATACA
756998 ATGTAAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTGTATCGATACATAAAAT
Found at i:757060 original size:13 final size:13
Alignment explanation
Indices: 757042--757066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
757032 ATTACTCACA
757042 TGTATCGATACAT
1 TGTATCGATACAT
757055 TGTATCGATACA
1 TGTATCGATACA
757067 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:757131 original size:52 final size:52
Alignment explanation
Indices: 757075--757199 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
757065 CACTGATCTT
*
757075 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
757127 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
757179 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
757200 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:768056 original size:116 final size:116
Alignment explanation
Indices: 767852--768088 Score: 456
Period size: 116 Copynumber: 2.0 Consensus size: 116
767842 TTCGAGAAAG
* *
767852 ATCTTGAAGAACACCTAAAGAACATTCATGTTGTAGGTTATCAGAGGCATCTTTCGCCCAAACAT
1 ATCTTAAAGAACACCTAAAGAACATTCATGTTGCAGGTTATCAGAGGCATCTTTCGCCCAAACAT
767917 CATTACTTTTGCCACCCAATCACTTGTTTGTCAAATAGTATACCAAGTTGT
66 CATTACTTTTGCCACCCAATCACTTGTTTGTCAAATAGTATACCAAGTTGT
767968 ATCTTAAAGAACACCTAAAGAACATTCATGTTGCAGGTTATCAGAGGCATCTTTCGCCCAAACAT
1 ATCTTAAAGAACACCTAAAGAACATTCATGTTGCAGGTTATCAGAGGCATCTTTCGCCCAAACAT
768033 CATTACTTTTGCCACCCAATCACTTGTTTGTCAAATAGTATACCAAGTTGT
66 CATTACTTTTGCCACCCAATCACTTGTTTGTCAAATAGTATACCAAGTTGT
768084 ATCTT
1 ATCTT
768089 TCCATTAACA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (116 bp):
ATCTTAAAGAACACCTAAAGAACATTCATGTTGCAGGTTATCAGAGGCATCTTTCGCCCAAACAT
CATTACTTTTGCCACCCAATCACTTGTTTGTCAAATAGTATACCAAGTTGT
Found at i:775436 original size:19 final size:19
Alignment explanation
Indices: 775412--775484 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
775402 AGCGATACAT
775412 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
*
775431 TGTATCGATACAACACTTA
1 TGTATCGATACAATACTTA
* *
775450 TGTATCGATACAGTTACTTGTT
1 TGTATCGATACA-ATAC-T-TA
775472 TGTATCGATACAA
1 TGTATCGATACAA
775485 ATTGTTGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 30 0.65
20 2 0.04
21 1 0.02
22 13 0.28
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAATACTTA
Found at i:776311 original size:33 final size:32
Alignment explanation
Indices: 776269--776330 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
776259 TACAAGCCAA
776269 TGTATCGATACAAT-TTGGGATGTATCGATAGAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATAGAT
*
776302 TGTATCGATACATCTTGTGTGTATCGATA
1 TGTATCGATACATCTTGGGTGTATCGATA
776331 TAAAACAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATAGAT
Found at i:776422 original size:20 final size:21
Alignment explanation
Indices: 776375--776427 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
776365 GCCAATCACC
*
776375 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
776396 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
776416 TGTATCGATACA
1 TGTATCGATACA
776428 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Done.