Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 43 of 45
Found at i:7581209 original size:21 final size:21
Alignment explanation
Indices: 7581185--7581238 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
7581175 GGTGATAGTG
*
7581185 AAATTAATTATTATAATTGTA
1 AAATTAAATATTATAATTGTA
*
7581206 AAATTAAATATTATAATTGTG
1 AAATTAAATATTATAATTGTA
*
7581227 AGATTAAA-ATTA
1 AAATTAAATATTA
7581239 ATGATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
AAATTAAATATTATAATTGTA
Found at i:7581363 original size:26 final size:29
Alignment explanation
Indices: 7581321--7581397 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 29
7581311 ATATTCGATT
7581321 AAAAT-AATT-ATATATAATAAATA-ATTA
1 AAAATAAATTAATA-ATAATAAATACATTA
* **
7581348 AAAAT-TATTAA-AATAATATTTACATTA
1 AAAATAAATTAATAATAATAAATACATTA
7581375 AAAATAAATTAATAA-AATAAATA
1 AAAATAAATTAATAATAATAAATA
7581398 TAAAAAACTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
26 8 0.20
27 18 0.45
28 12 0.30
29 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATAAATTAATAATAATAAATACATTA
Found at i:7581489 original size:16 final size:16
Alignment explanation
Indices: 7581468--7581500 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7581458 CTGATCCCTC
7581468 AATGCTCTAGTCATTG
1 AATGCTCTAGTCATTG
7581484 AATGCTCTAGTCATTG
1 AATGCTCTAGTCATTG
7581500 A
1 A
7581501 TTGAAGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (16 bp):
AATGCTCTAGTCATTG
Found at i:7585912 original size:16 final size:16
Alignment explanation
Indices: 7585893--7586010 Score: 119
Period size: 16 Copynumber: 7.4 Consensus size: 16
7585883 CCGAAACTTA
*
7585893 AAATAATTCGAACTCG
1 AAATGATTCGAACTCG
* **
7585909 AAATGAGTCGAACTTA
1 AAATGATTCGAACTCG
*
7585925 AAATGATCCGAACTCG
1 AAATGATTCGAACTCG
* *
7585941 AAATAATTCGAACCCG
1 AAATGATTCGAACTCG
*
7585957 AAATGATCCGAACTCG
1 AAATGATTCGAACTCG
* * *
7585973 AAATAATTCAAACCCG
1 AAATGATTCGAACTCG
* *
7585989 AAATGATCCGAACCCG
1 AAATGATTCGAACTCG
7586005 AAATGA
1 AAATGA
7586011 CCCGAATAAT
Statistics
Matches: 81, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 81 1.00
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.19
Consensus pattern (16 bp):
AAATGATTCGAACTCG
Found at i:7585991 original size:48 final size:48
Alignment explanation
Indices: 7585893--7586016 Score: 142
Period size: 48 Copynumber: 2.6 Consensus size: 48
7585883 CCGAAACTTA
* * * * *
7585893 AAATAATTCGAACTCGAAATGAGT-CGAACTTAAAATGATCCGAACTCG
1 AAATAATTCGAACCCGAAATGA-TCCGAACTCAAAATAATCCAAACCCG
* *
7585941 AAATAATTCGAACCCGAAATGATCCGAACTCGAAATAATTCAAACCCG
1 AAATAATTCGAACCCGAAATGATCCGAACTCAAAATAATCCAAACCCG
* * *
7585989 AAATGATCCGAACCCGAAATGACCCGAA
1 AAATAATTCGAACCCGAAATGATCCGAA
7586017 TAATTAACTC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.02
48 64 0.98
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (48 bp):
AAATAATTCGAACCCGAAATGATCCGAACTCAAAATAATCCAAACCCG
Found at i:7586840 original size:53 final size:53
Alignment explanation
Indices: 7586720--7586840 Score: 136
Period size: 53 Copynumber: 2.3 Consensus size: 53
7586710 TCTAAACTTA
* **
7586720 AAATGACTTGAACTCAATTTAACTTGAATGTTAAACCCAACTGACCCAAATCC
1 AAATGACATGAACTCAATTTAACCCGAATGTTAAACCCAACTGACCCAAATCC
** * * * *
7586773 AGAATGACCCGAACTCGA-TTAACCCGAGTGTTAAACCCAATTGACCCGAATCC
1 A-AATGACATGAACTCAATTTAACCCGAATGTTAAACCCAACTGACCCAAATCC
7586826 GAAATGACATGAACT
1 -AAATGACATGAACT
7586841 TGAAATGATC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 42 0.75
54 14 0.25
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (53 bp):
AAATGACATGAACTCAATTTAACCCGAATGTTAAACCCAACTGACCCAAATCC
Found at i:7586854 original size:32 final size:31
Alignment explanation
Indices: 7586818--7586903 Score: 91
Period size: 32 Copynumber: 2.6 Consensus size: 31
7586808 CCCAATTGAC
*
7586818 CCGAATCCGAAATGACATGAACTTGAAATGAT
1 CCGAA-CCGAAATGACATGAACTCGAAATGAT
* **
7586850 CCGAACCTGAAATAACCCGAACTCGAAATGAT
1 CCGAACC-GAAATGACATGAACTCGAAATGAT
*
7586882 CCGAACCCGAAAATGACTTGAA
1 CCGAA-CCG-AAATGACATGAA
7586904 AATTTTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
31 2 0.05
32 31 0.70
33 11 0.25
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (31 bp):
CCGAACCGAAATGACATGAACTCGAAATGAT
Found at i:7586855 original size:16 final size:16
Alignment explanation
Indices: 7586836--7586887 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
7586826 GAAATGACAT
7586836 GAACTTGAAATGATCC
1 GAACTTGAAATGATCC
* * *
7586852 GAACCTGAAATAACCC
1 GAACTTGAAATGATCC
*
7586868 GAACTCGAAATGATCC
1 GAACTTGAAATGATCC
7586884 GAAC
1 GAAC
7586888 CCGAAAATGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (16 bp):
GAACTTGAAATGATCC
Found at i:7586892 original size:16 final size:16
Alignment explanation
Indices: 7586842--7586893 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
7586832 ACATGAACTT
*
7586842 GAAATGATCCGAACCT
1 GAAATGATCCGAACCC
* * *
7586858 GAAATAACCCGAACTC
1 GAAATGATCCGAACCC
7586874 GAAATGATCCGAACCC
1 GAAATGATCCGAACCC
7586890 GAAA
1 GAAA
7586894 ATGACTTGAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.42, C:0.27, G:0.17, T:0.13
Consensus pattern (16 bp):
GAAATGATCCGAACCC
Found at i:7587251 original size:2 final size:2
Alignment explanation
Indices: 7587244--7587295 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
7587234 TACATATACC
7587244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7587286 TA TA TA TA TA
1 TA TA TA TA TA
7587296 GTCCTTTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7594459 original size:14 final size:14
Alignment explanation
Indices: 7594440--7594479 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
7594430 TTAAAATATT
*
7594440 AAAAAAAACAAAGC
1 AAAAAAAACAAAAC
7594454 AAAAAAAA-AAAAC
1 AAAAAAAACAAAAC
7594467 AAAAAAAATCAAA
1 AAAAAAAA-CAAA
7594480 TGAAAATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 12 0.52
14 8 0.35
15 3 0.13
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:7598545 original size:25 final size:27
Alignment explanation
Indices: 7598494--7598546 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
7598484 TTTAAAATTA
* *
7598494 TAAAAATAATTAAAATAAAATATTATT
1 TAAAAATAATTAAAATAAAAGAATATT
*
7598521 TAAAAAT-A-TAAAATATAAGAATATT
1 TAAAAATAATTAAAATAAAAGAATATT
7598546 T
1 T
7598547 GTTAAATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 15 0.65
26 1 0.04
27 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAAAATAATTAAAATAAAAGAATATT
Found at i:7598944 original size:4 final size:4
Alignment explanation
Indices: 7598935--7598969 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
7598925 TATTTTTAAT
* *
7598935 TTTA TTTA TTTA TTGA TGTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
7598970 TTAATTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:7599153 original size:16 final size:16
Alignment explanation
Indices: 7599128--7599164 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
7599118 ATTTTTAATC
*
7599128 TAAATTTAAAAATA-T
1 TAAATTTTAAAATACT
7599143 TAAATTTTAAAATACT
1 TAAATTTTAAAATACT
7599159 TAAATT
1 TAAATT
7599165 AATTGATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTTTAAAATACT
Found at i:7600650 original size:13 final size:13
Alignment explanation
Indices: 7600632--7600662 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7600622 ACAATTCATC
*
7600632 ATGTATCGATATA
1 ATGTATCGATACA
7600645 ATGTATCGATACA
1 ATGTATCGATACA
7600658 ATGTA
1 ATGTA
7600663 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7600653 original size:33 final size:33
Alignment explanation
Indices: 7600611--7600678 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
7600601 TGTCACAAGC
*
7600611 AATGTATCGATACAAT-TCATCATGTATCGATAT
1 AATGTATCGATACAATGT-ACCATGTATCGATAT
7600644 AATGTATCGATACAATGTACCATGTATCGATAT
1 AATGTATCGATACAATGTACCATGTATCGATAT
7600677 AA
1 AA
7600679 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACAATGTACCATGTATCGATAT
Found at i:7601082 original size:20 final size:20
Alignment explanation
Indices: 7601057--7601112 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
7601047 TTTACCCAGA
7601057 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGTT-CAT
* * *
7601077 TGTATCAATTCATTGTTTAT
1 TGTATCGATACATTGTTCAT
7601097 TGTATCGATACATTGT
1 TGTATCGATACATTGT
7601113 ATCGATACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:7601111 original size:13 final size:13
Alignment explanation
Indices: 7601095--7601122 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7601085 TTCATTGTTT
7601095 ATTGTATCGATAC
1 ATTGTATCGATAC
7601108 ATTGTATCGATAC
1 ATTGTATCGATAC
7601121 AT
1 AT
7601123 GGCTTATTGT
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:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:7601130 original size:33 final size:33
Alignment explanation
Indices: 7601074--7601143 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
7601064 ATACATTTTG
* * *
7601074 CATTGTATCAATTCATTGTTTATTGTATCGATA
1 CATTGTATCAATACATGGCTTATTGTATCGATA
*
7601107 CATTGTATCGATACATGGCTTATTGTATCGATA
1 CATTGTATCAATACATGGCTTATTGTATCGATA
7601140 CATT
1 CATT
7601144 TTATAATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.44
Consensus pattern (33 bp):
CATTGTATCAATACATGGCTTATTGTATCGATA
Found at i:7603605 original size:79 final size:79
Alignment explanation
Indices: 7603471--7603772 Score: 372
Period size: 79 Copynumber: 3.8 Consensus size: 79
7603461 TTTTCATCTC
* * ** * * * * *
7603471 GGGGATACTCAAATCCCGGTTCCATTTCCAAAACGTCAATTTTTCTTAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
7603536 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * ** * * *
7603550 GGAGATACTTCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
* *
7603615 CCCGTCATTTTCAA
66 CCCGTTATTTTCGA
*
7603629 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
*
7603694 CCCGTTATTTTTGA
66 CCCGTTATTTTCGA
* * * *
7603708 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAA-TTCTCCACAATCGGGGATATTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCT-CATAATCGGGGATACTCCAA
7603772 C
65 C
7603773 TCCGATTTTA
Statistics
Matches: 188, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
78 3 0.02
79 185 0.98
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:7603759 original size:158 final size:158
Alignment explanation
Indices: 7603471--7603771 Score: 415
Period size: 158 Copynumber: 1.9 Consensus size: 158
7603461 TTTTCATCTC
* * * *
7603471 GGGGATACTCAAATCCCGGTTCCATTTCCAAAACGTCAATTTTTCTTAATTGGGGATACTCCAAC
1 GGGGATACTCAAACCCCGGTTCCATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* * ** *
7603536 CCCGTTATTTTCGAGGAGATACTTCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATC
66 CCCGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATC
7603601 GGGGATACTCCAATCCCGTCATTTTCAA
131 GGGGATACTCCAATCCCGTCATTTTCAA
* ** *
7603629 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCAAACCCCGGTTCCATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* * * **
7603694 CCCGTTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAA-TTCTCCACAAT
66 CCCGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCT-CACAAT
*
7603758 CGGGGATATTCCAA
130 CGGGGATACTCCAA
7603772 CTCCGATTTT
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
157 4 0.03
158 119 0.97
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (158 bp):
GGGGATACTCAAACCCCGGTTCCATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATC
GGGGATACTCCAATCCCGTCATTTTCAA
Found at i:7603812 original size:50 final size:51
Alignment explanation
Indices: 7603708--7603823 Score: 164
Period size: 50 Copynumber: 2.3 Consensus size: 51
7603698 TTATTTTTGA
*
7603708 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTCTCCACAATC
* * * *
7603759 GGGGATATTCCAA-CTCCGATTTTATTTC-AAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCT-CGATTTTATTTCTAAAACACCAATTCTCCACAATC
7603809 GGGGATACTCCAACC
1 GGGGATACTCCAACC
7603824 CCGTCATTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 33 0.58
51 24 0.42
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTCTCCACAATC
Found at i:7603844 original size:28 final size:28
Alignment explanation
Indices: 7603812--7603881 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
7603802 CACAATCGGG
7603812 GATACTCCAACCCCGTCA-TTTC-ATTGGA
1 GATACTCCAACCCCGTCATTTTCGA--GGA
* * *
7603840 GATACTCCGACCCCGTTATTTTCGAGGG
1 GATACTCCAACCCCGTCATTTTCGAGGA
7603868 GATACTCCAACCCC
1 GATACTCCAACCCC
7603882 AGCTTTAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 31 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (28 bp):
GATACTCCAACCCCGTCATTTTCGAGGA
Found at i:7603913 original size:157 final size:158
Alignment explanation
Indices: 7603683--7603983 Score: 358
Period size: 157 Copynumber: 1.9 Consensus size: 158
7603673 CATAATCGGG
* * * * * *
7603683 GATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAAT
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTAGTTCCAAAACACCAAT
* * * * *
7603748 TCTCCACAATCGGGGATATTCCAA-CTCCGATTTTATTTC-AAAACA-CTAATTTTTCACAATCG
66 TCTCCACAATCAGAGATACTCCAATC-CCGACTTTATTTCTAAAACATC-AATTTCTCACAATCG
7603810 GGGATACTCCAACCCCGTCATTTCATTGGA
129 GGGATACTCCAACCCCGTCATTTCATTGGA
* * ***
7603840 GATACTCCGACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTAGTTCCAAAATATTGAT
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTAGTTCCAAAACACCAAT
* * * * *
7603905 T-TCTCACAATCAGAGATACTCCAATCCCGGCTTTATTTCTAAAATATCGATTTCTCATAATTGG
66 TCTC-CACAATCAGAGATACTCCAATCCCGACTTTATTTCTAAAACATCAATTTCTCACAATCGG
7603969 GGATACTCCAACCCC
130 GGATACTCCAACCCC
7603984 ATTATTTTCA
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
156 2 0.02
157 83 0.70
158 33 0.28
159 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (158 bp):
GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTAGTTCCAAAACACCAAT
TCTCCACAATCAGAGATACTCCAATCCCGACTTTATTTCTAAAACATCAATTTCTCACAATCGGG
GATACTCCAACCCCGTCATTTCATTGGA
Found at i:7603949 original size:51 final size:51
Alignment explanation
Indices: 7603868--7603984 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
7603858 TTTTCGAGGG
*
7603868 GATACTCCAACCCCAGCTTTAGTTCCAAAATATTGATTTCTCACAATCAGA
1 GATACTCCAACCCCAGCTTTAGTTCCAAAATATCGATTTCTCACAATCAGA
* * * * * ** *
7603919 GATACTCCAATCCCGGCTTTATTTCTAAAATATCGATTTCTCATAATTGGG
1 GATACTCCAACCCCAGCTTTAGTTCCAAAATATCGATTTCTCACAATCAGA
7603970 GATACTCCAACCCCA
1 GATACTCCAACCCCA
7603985 TTATTTTCAC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
GATACTCCAACCCCAGCTTTAGTTCCAAAATATCGATTTCTCACAATCAGA
Found at i:7614943 original size:20 final size:19
Alignment explanation
Indices: 7614879--7614955 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
7614869 TTTTACCCAG
*
7614879 ATGTATCGATACATTTTTCA
1 ATGTATCGATATA-TTTTCA
* * *
7614899 ATATATGGAT-TCATGTTTGA
1 ATGTATCGATAT-AT-TTTCA
7614919 ATGTATCGATATATTCTTCA
1 ATGTATCGATATATT-TTCA
*
7614939 ATGTATCGATACATTTT
1 ATGTATCGATATATTTT
7614956 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
19 4 0.09
20 40 0.89
21 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (19 bp):
ATGTATCGATATATTTTCA
Found at i:7622020 original size:16 final size:17
Alignment explanation
Indices: 7622001--7622053 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
7621991 AAAAAAAGTC
*
7622001 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCAAAA
7622017 AAAATG-AAAAG-AAAA
1 AAAATGCAAAAGCAAAA
7622032 AAAATGCAAAAGCAAAA
1 AAAATGCAAAAGCAAAA
7622049 TAAAA
1 -AAAA
7622054 AGGGAACAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.28
16 14 0.44
17 5 0.16
18 4 0.12
ACGTcount: A:0.74, C:0.09, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAATGCAAAAGCAAAA
Found at i:7623515 original size:28 final size:28
Alignment explanation
Indices: 7623389--7624300 Score: 977
Period size: 27 Copynumber: 33.3 Consensus size: 28
7623379 TGGCATTTCT
7623389 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
7623417 TTTT-AAGTCCACAATTCCATGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
7623444 TTTTAAAGTCTACAACT-CATGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7623471 TTTT-AAGTCCACGACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7623498 TTTTAAAGTCCACAACTCCGTGGCTTCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
7623526 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
7623554 TTTTAAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * **
7623581 CTTTAAAGTCCATAACTCTATGGCA-CAC
1 TTTTAAAGTCCACAACTCCGTGGCATC-C
* * *
7623609 TTTT-AAGTCTACATCTCCGTGGCA-AC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7623635 TTTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
7623662 ATTTT-AAGTCCACAACTCCGTGGCA-CTC
1 -TTTTAAAGTCCACAACTCCGTGGCATC-C
* * * *
7623690 TTTTAAAGTCCACGATTCAGTGGCATTTCT
1 TTTTAAAGTCCACAACTCCGTGGCA--TCC
*
7623720 TTTTAAAGTCTACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7623748 TTTT-AAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
7623775 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
7623803 TTTT-AAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
7623830 TTTT-AAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* *
7623856 TTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
7623884 TTTT-AAGTCCACAACTCCGTGGCA-CTC
1 TTTTAAAGTCCACAACTCCGTGGCATC-C
7623911 TTTT-AAGTCCACAACTCCGTGGCA-CTC
1 TTTTAAAGTCCACAACTCCGTGGCATC-C
* * * * *
7623938 TTTTAAAGTCCATAATTTCG-GGTACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7623965 TTTT-AAGTCCACAACCCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7623991 TTTT-AAGTCCACAACCCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * *
7624017 CTTT-AAGTCCACAACCCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7624044 TTTT-AAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7624071 TTTT-AAGTCCATAACTCCGTGGCA-CTC
1 TTTTAAAGTCCACAACTCCGTGGCATC-C
* *
7624098 TTTTGAATTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
*
7624126 TTTT-AAGTCCATAACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * * *
7624152 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * * * *
7624180 TTCTCAAAGCCCATAAGTCAGTGGCAT-C
1 TT-TTAAAGTCCACAACTCCGTGGCATCC
* * * *
7624208 TTTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTT-AAAGTCCACAACTCCGTGGCATCC
* * * *
7624237 TTTCAAAGCCCACAAGTCAGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCATCC
* * * *
7624264 ATTTCAAAGCCCACAAGTCAGTGGCATCC
1 -TTTTAAAGTCCACAACTCCGTGGCATCC
*
7624293 TTTCAAAG
1 TTTTAAAG
7624301 CTCACAAGTT
Statistics
Matches: 793, Mismatches: 62, Indels: 58
0.87 0.07 0.06
Matches are distributed among these distances:
26 90 0.11
27 382 0.48
28 269 0.34
29 30 0.04
30 21 0.03
31 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
TTTTAAAGTCCACAACTCCGTGGCATCC
Found at i:7623534 original size:82 final size:80
Alignment explanation
Indices: 7623389--7624295 Score: 1005
Period size: 82 Copynumber: 11.0 Consensus size: 80
7623379 TGGCATTTCT
* *
7623389 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAATTCCATGGCATCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTC
* *
7623454 TACAACT-CATGGCATCC
63 CACAACTCCGTGGCATCC
* *
7623471 TTTTAAGTCCACGACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCTTCCTTTTAAAGTC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTT-AAGTCCACAACTCCGTGGC-ACCTTTTAAAGTC
7623536 CACAACTCCGTGGCATCC
63 CACAACTCCGTGGCATCC
* * **
7623554 TTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCATAACTCTATGGCACACTTTT-AAGTC
1 TTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTC
* * * *
7623618 TACATCTCCGTGGCAACT
63 CACAACTCCGTGGCATCC
7623636 TTTTAAGTCCACAACTCCGTGGCACCATTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACC-TTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCC
* * * *
7623701 ACGATTCAGTGGCATTTCT
64 ACAACTCCGTGGCA--TCC
* *
7623720 TTTTAAAGTCTACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTC
7623785 CACAACTCCGTGGCATCC
63 CACAACTCCGTGGCATCC
*
7623803 TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCA
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCA
*
7623868 CAACTCCGTGGCACCC
65 CAACTCCGTGGCATCC
7623884 TTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCC
1 TTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCC
* * * * *
7623949 ATAATTTCG-GGTACCC
64 ACAACTCCGTGGCATCC
* * *
7623965 TTTTAAGTCCACAACCCCGTGGCACCTTTTAAGTCCACAACCCCGTGGCACCCTTT-AAGTCCAC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCAC
* *
7624029 AACCCCGTGGCACCC
66 AACTCCGTGGCATCC
* * *
7624044 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACTCTTTTGAATTCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCC
7624109 ACAACTCCGTGGCATCC
64 ACAACTCCGTGGCATCC
* * * * * * *
7624126 TTTTAAGTCCATAACTCCGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTT-TAAGTCCACAACTCCGTGGCA-CCTT-TTAAAGTC
* * *
7624191 CATAAGTCAGTGGCAT-C
63 CACAACTCCGTGGCATCC
* * * * * * * * *
7624208 TTTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAG
1 TTTT--AAGTCCACAACTCCGTGGCA-CCTTT-TAAGTCCACAACTCCGTGGCACC-TTTTAAAG
* * *
7624273 CCCACAAGTCAGTGGCATCC
61 TCCACAACTCCGTGGCATCC
7624293 TTT
1 TTT
7624296 CAAAGCTCAC
Statistics
Matches: 724, Mismatches: 75, Indels: 49
0.85 0.09 0.06
Matches are distributed among these distances:
78 11 0.02
79 33 0.05
80 53 0.07
81 189 0.26
82 207 0.29
83 58 0.08
84 72 0.10
85 98 0.14
86 3 0.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (80 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCAC
AACTCCGTGGCATCC
Found at i:7624306 original size:28 final size:28
Alignment explanation
Indices: 7623393--7624838 Score: 534
Period size: 28 Copynumber: 51.4 Consensus size: 28
7623383 ATTTCTTTTT
* * *
7623393 AAAGTCCACAACTCCGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
7623420 TAAGTCCACAATTCCA-TGGCATCCTTTT
1 AAAGCCCACAAGT-CAGTGGCATCCTTTC
* * *
7623448 AAAGTCTACAACTCA-TGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * * *
7623474 TAAGTCCACGACTCCGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
7623502 AAAGTCCACAACTCCGTGGCTTCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
7623530 AAAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
7623558 AAAGTCCACAACTCCGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
7623585 AAAGTCCATAACTCTA-TGGCA-CACTTT-
1 AAAGCCCACAAGTC-AGTGGCATC-CTTTC
* * * ** * * *
7623612 TAAGTCTACATCTCCGTGGCA-ACTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
7623639 TAAGTCCACAACTCCGTGGCA-CCATTT-
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* * * * *
7623666 TAAGTCCACAACTCCGTGGCA-CTCTTTT
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
* * * * *
7623694 AAAGTCCACGATTCAGTGGCATTTCTTTTT
1 AAAGCCCACAAGTCAGTGGCA--TCCTTTC
* * * *
7623724 AAAGTCTACAACTCCGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
7623751 TAAGTCCACAACTCTGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
7623779 AAAGTCCACAACTCCGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
7623806 TAAGTCCACAACTCCGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
7623833 TAAGTCCACAACTCCGTGGCA-CCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
7623860 TAAGTCCACAACTCCGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
7623887 TAAGTCCACAACTCCGTGGCA-CTCTTT-
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
* * * * *
7623914 TAAGTCCACAACTCCGTGGCA-CTCTTTT
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
* * * * *
7623942 AAAGTCCATAATTTC-G-GGTACCCTTT-
1 AAAGCCCACAA-GTCAGTGGCATCCTTTC
* * ** *
7623968 TAAGTCCACAACCCCGTGGCA-CCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * ** * *
7623994 TAAGTCCACAACCCCGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* ** * *
7624021 -AAGTCCACAACCCCGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
7624047 TAAGTCCACAACTCCGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * * *
7624074 TAAGTCCATAACTCCGTGGCA-CTCTTTT
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
* ** * *
7624102 GAATTCCACAACTCCGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
7624129 TAAGTCCATAACTCCGTGGCA-CCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
7624156 AAAGCCCACAAGTCAGTGGCATCCTTCTC
1 AAAGCCCACAAGTCAGTGGCATCCTT-TC
* *
7624185 AAAGCCCATAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
7624213 AAAGCCCATAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
7624241 AAAGCCCACAAGTCAGTGGCA-CCATTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
7624269 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
7624297 AAAGCTCACAAGTTAATGGCATCAC-TTC
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
* * *
7624325 AAAGCCCACACAAGTCGGTGGAACCCTTTC
1 AAAG-CC-CACAAGTCAGTGGCATCCTTTC
* * *
7624355 AAAGCCCACAAAAGTCGGTGGCAACTCATTTG
1 AAAGCCCAC--AAGTCAGTGGC-A-TCCTTTC
** *
7624387 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
* *
7624419 AAAGCCCACAGAAG-CTGGTGGCAACCTATTTC
1 AAAGCCCAC--AAGTC-AGTGGCATCC--TTTC
** * *
7624451 AAAGCCCACACAAGTTGGTGGCAACCCATTTG
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
* * *
7624483 AAAGCCCACACAAGTCGGTGACAACTCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TCCTTTC
* ** *
7624515 AAAGCCCAAATAAGTTGGTGGCAACCCATTTC
1 AAAGCCC--ACAAGTCAGTGGC-ATCC-TTTC
* *
7624547 AAAGCCCACACAAGTCGGTGGCATCTTTTC
1 AAAG-CC-CACAAGTCAGTGGCATCCTTTC
* *
7624577 AAAGCCCACAAGTCAGTTGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
7624605 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * ** *
7624633 AATGTCCACAAGTTGGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * *
7624661 AAGGCCCACAAGTCAATAGTATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * * * *
7624689 CAAGCCCACAAGTCAATGGTAACTTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
7624717 AAAGCCCACGAGTCAGTGGCAACTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
7624745 AAAGCCAACGAGTTAGTGGCATCCTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
7624773 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
7624801 AAAACCAACAAGTTAGTGGCATCTCTTT-
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
7624829 AAAGCCCACA
1 AAAGCCCACA
7624839 GAAGTTAGCG
Statistics
Matches: 1214, Mismatches: 146, Indels: 117
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.00
26 90 0.07
27 372 0.31
28 499 0.41
29 42 0.03
30 62 0.05
31 13 0.01
32 118 0.10
33 10 0.01
34 7 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:7624396 original size:32 final size:32
Alignment explanation
Indices: 7624209--7624614 Score: 367
Period size: 32 Copynumber: 13.4 Consensus size: 32
7624199 AGTGGCATCT
* * *
7624209 TTTCAAAG-CC-CATAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
7624237 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
7624265 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *** *
7624293 TTTCAAAG--CTCACAAGTTAATGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
7624321 CTTCAAAGCCCACACAAGTCGGTGG-AACCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
7624351 TTTCAAAGCCCACAAAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
7624383 TTTGAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
7624415 TTTCAAAGCCCACAGAAG-CTGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTC-GGTGGCAACCCA
*
7624447 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
7624479 TTTGAAAGCCCACACAAGTCGGTGACAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
7624511 TTTCAAAGCCCAAATAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
7624543 TTTCAAAGCCCACACAAGTCGGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
7624573 TTTCAAAG-CC-CACAAGTCAGTTGC-ACCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
7624601 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
7624615 AGTTAGTGGC
Statistics
Matches: 321, Mismatches: 42, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.01
28 98 0.31
29 7 0.02
30 46 0.14
31 6 0.02
32 160 0.50
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:7624988 original size:45 final size:47
Alignment explanation
Indices: 7624930--7625038 Score: 132
Period size: 49 Copynumber: 2.3 Consensus size: 47
7624920 AAATATGACA
* *
7624930 TCGCTAGCATTGAATCAACATATTGGT-ACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAACATATTGGTCACCTTTCATTAGCCCAATG
* * * *
7624975 TCGCTGGCCTTGAATCAGCATATTGGTCCACTTTTCCCTTAGTCCAATG
1 TCGCTGGCCTTGAATCAACATATTGGT-CACCTTT-CATTAGCCCAATG
7625024 TCGCTGGCCTTGAAT
1 TCGCTGGCCTTGAAT
7625039 TGGCACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
45 24 0.44
47 5 0.09
49 25 0.46
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAACATATTGGTCACCTTTCATTAGCCCAATG
Found at i:7625490 original size:20 final size:19
Alignment explanation
Indices: 7625426--7625502 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
7625416 TTTTACCCAG
*
7625426 ATGTATCGATACATTTTTCA
1 ATGTATCGATATA-TTTTCA
* * *
7625446 ATATATGGAT-TCATGTTTGA
1 ATGTATCGATAT-AT-TTTCA
7625466 ATGTATCGATATATTCTTCA
1 ATGTATCGATATATT-TTCA
*
7625486 ATGTATCGATACATTTT
1 ATGTATCGATATATTTT
7625503 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
19 4 0.09
20 40 0.89
21 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (19 bp):
ATGTATCGATATATTTTCA
Found at i:7629796 original size:20 final size:19
Alignment explanation
Indices: 7629767--7629842 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
7629757 AAAAAGACAT
7629767 AATGTATCGATACATTGTA
1 AATGTATCGATACATTGTA
* *
7629786 GAATATATCGATACATTCATA
1 -AATGTATCGATACATT-GTA
* * *
7629807 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-TA
7629827 AATGTATCGATACATT
1 AATGTATCGATACATT
7629843 AGGGTATGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATTGTA
Found at i:7629835 original size:40 final size:39
Alignment explanation
Indices: 7629764--7629842 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
7629754 GGTAAAAAGA
* *
7629764 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
7629803 CATACATGTATCGATATATTGAAAAATGTATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACATT
7629843 AGGGTATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:7631338 original size:29 final size:29
Alignment explanation
Indices: 7630373--7631338 Score: 1315
Period size: 28 Copynumber: 33.7 Consensus size: 29
7630363 GGGTTGTCAT
*
7630373 TGACTTGCATGGGCTTTAAAAGG-GTGCCAC
1 TGACTTG--TGGGCTTTGAAAGGAGTGCCAC
* *
7630403 TGACTTGCGTGGGCTTTGAAA-AAATGCCAC
1 TGACTT--GTGGGCTTTGAAAGGAGTGCCAC
* * *
7630433 TAACTCGTGGGCTTTGAAAGGA-TGCAAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7630461 TGACTTGTGGGCTTTGAAA-GAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7630489 TGACTTGTGGGCTTTGAAAAG-GTACCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7630517 TGACTTACGTGAGCTTTAAAAGGAGTGCCAC
1 TGACTT--GTGGGCTTTGAAAGGAGTGCCAC
* *
7630548 TGACTTGTGTGGGCTTTAAAATG-GTGCCAC
1 TGAC-T-TGTGGGCTTTGAAAGGAGTGCCAC
7630578 TGACTTGTGGGCTTTGAAA-GAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * * * *
7630606 TGAATTATGGGCTTCGCAATG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7630634 TAACTTGTGGGCTTCGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7630662 TGACTTGTGGGCTCTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7630690 TAACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7630718 TGACTTGTGGGCTTTAAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
7630747 TGATTTGTGGGCTTTGAAAAGAGTGCCAT
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7630776 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7630805 TGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
7630833 TAACTCGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7630862 TGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7630891 TAACTTGTGGGCTTTGAAAGGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7630920 TGACTTGTGCGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7630948 TAAGTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7630976 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7631005 TGATTTGTGGGCTTTGAAAGGAGTGCCAT
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7631034 TGACTTATGGGCTTTGAAAGGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7631063 TGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7631091 TAACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7631119 TAACTTGTGGGCTTTGAAAGGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7631148 TAACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7631176 TGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7631204 TGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7631232 TGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
7631260 TGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
7631289 TAATTTGTGGGCTTTGAAAGGAGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGAGTGCCAC
7631318 TGACTTGTGGGCTTTGAAAGG
1 TGACTTGTGGGCTTTGAAAGG
7631339 GATGAACATT
Statistics
Matches: 845, Mismatches: 73, Indels: 37
0.88 0.08 0.04
Matches are distributed among these distances:
27 3 0.00
28 445 0.53
29 321 0.38
30 50 0.06
31 23 0.03
32 2 0.00
33 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGACTTGTGGGCTTTGAAAGGAGTGCCAC
Found at i:7632576 original size:11 final size:11
Alignment explanation
Indices: 7632560--7632610 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
7632550 GACCCTTCTA
7632560 TTTTTTGCTATT
1 TTTTTTGCT-TT
7632572 TTTTTCT-CTTT
1 TTTTT-TGCTTT
7632583 TTTTTTG-TTT
1 TTTTTTGCTTT
*
7632593 TTTTTTGGTTT
1 TTTTTTGCTTT
7632604 TTTTTTG
1 TTTTTTG
7632611 GGTGTAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 11 0.31
11 17 0.47
12 7 0.19
13 1 0.03
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.82
Consensus pattern (11 bp):
TTTTTTGCTTT
Found at i:7646680 original size:39 final size:39
Alignment explanation
Indices: 7646610--7646684 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
7646600 GGTAAAAAGA
* *
7646610 CATAATGTATCGATACATTGTAGAATATATCGATACGTT
1 CATAATGTATCGATACATTGAAAAATATATCGATACGTT
* * *
7646649 CATACTGTATCGATATATTGAAAAATGTATCGATAC
1 CATAATGTATCGATACATTGAAAAATATATCGATAC
7646685 ATCAGGGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACGTT
Found at i:7648716 original size:26 final size:26
Alignment explanation
Indices: 7648686--7648742 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
7648676 ATATTGAAAT
7648686 AATATCGAGTCAAAACCAATGAAACC
1 AATATCGAGTCAAAACCAATGAAACC
7648712 AATATCGAGTCAAAACCAATGAAACC
1 AATATCGAGTCAAAACCAATGAAACC
7648738 AATAT
1 AATAT
7648743 TTATTGGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.51, C:0.21, G:0.11, T:0.18
Consensus pattern (26 bp):
AATATCGAGTCAAAACCAATGAAACC
Found at i:7651259 original size:13 final size:13
Alignment explanation
Indices: 7651227--7651273 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
7651217 TTCTTCTTTT
*
7651227 AAAAAAAACAGAA
1 AAAAAAAACACAA
7651240 AACAAAAAACACAA
1 AA-AAAAAACACAA
7651254 AAAAAATAAC-CAA
1 AAAAAA-AACACAA
7651267 AAAAAAA
1 AAAAAAA
7651274 CAAAACGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 15 0.48
14 15 0.48
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAAAAAACACAA
Found at i:7651754 original size:13 final size:13
Alignment explanation
Indices: 7651736--7651760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7651726 AGTAACCCAG
7651736 GTATCGATACAAT
1 GTATCGATACAAT
7651749 GTATCGATACAA
1 GTATCGATACAA
7651761 GGAATGTTGT
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:7657922 original size:16 final size:16
Alignment explanation
Indices: 7657897--7657966 Score: 74
Period size: 16 Copynumber: 4.3 Consensus size: 16
7657887 TTATAGCCGT
*
7657897 TACAAGCATGTATCGA
1 TACAATCATGTATCGA
7657913 TACAATCATGTATCGA
1 TACAATCATGTATCGA
7657929 TAC-A--ATGTATCGA
1 TACAATCATGTATCGA
7657942 TACAATGTACCATGTATCGA
1 TACAA--T--CATGTATCGA
7657962 TACAA
1 TACAA
7657967 ACAATGGTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
13 12 0.26
14 1 0.02
15 1 0.02
16 18 0.39
20 14 0.30
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (16 bp):
TACAATCATGTATCGA
Found at i:7657938 original size:13 final size:13
Alignment explanation
Indices: 7657904--7657950 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 13
7657894 CGTTACAAGC
7657904 ATGTATCGATACAA
1 ATGTATCGATAC-A
7657918 TCATGTATCGATACA
1 --ATGTATCGATACA
7657933 ATGTATCGATACA
1 ATGTATCGATACA
7657946 ATGTA
1 ATGTA
7657951 CCATGTATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.58
15 1 0.03
16 12 0.39
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7657961 original size:33 final size:29
Alignment explanation
Indices: 7657904--7657966 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 29
7657894 CGTTACAAGC
7657904 ATGTATCGATACAATCATGTATCGATACA
1 ATGTATCGATACAATCATGTATCGATACA
7657933 ATGTATCGATACAATGTACCATGTATCGATACA
1 ATGTATCGATACAA--T--CATGTATCGATACA
7657966 A
1 A
7657967 ACAATGGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 14 0.47
31 1 0.03
33 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (29 bp):
ATGTATCGATACAATCATGTATCGATACA
Found at i:7658184 original size:32 final size:32
Alignment explanation
Indices: 7658143--7658206 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
7658133 AAGTATGTTT
7658143 GCCTTAAAAACATTTGAATTAAGGTTTCAAAA
1 GCCTTAAAAACATTTGAATTAAGGTTTCAAAA
7658175 GCCTTAAAAACATTTGAATTAAGGTTTCAAAA
1 GCCTTAAAAACATTTGAATTAAGGTTTCAAAA
7658207 ACATTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (32 bp):
GCCTTAAAAACATTTGAATTAAGGTTTCAAAA
Found at i:7659297 original size:31 final size:30
Alignment explanation
Indices: 7659259--7659323 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
7659249 TCATTATATA
* *
7659259 ACTTGTAGCTACAATC-CTTTCTCAAAAAAT
1 ACTTGTAGCAACAAGCTCTTT-TCAAAAAAT
7659289 CACTTGTAGCAACAAGCTCTTTTCAAAAAAT
1 -ACTTGTAGCAACAAGCTCTTTTCAAAAAAT
7659320 ACTT
1 ACTT
7659324 TGTGATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 4 0.13
31 23 0.74
32 4 0.13
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (30 bp):
ACTTGTAGCAACAAGCTCTTTTCAAAAAAT
Found at i:7660554 original size:2 final size:2
Alignment explanation
Indices: 7660541--7660575 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7660531 AAGATCCTTA
*
7660541 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7660576 GTCCTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7660922 original size:20 final size:18
Alignment explanation
Indices: 7660890--7660927 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
7660880 TTTATATTGA
7660890 TATTTATATATTTATATC
1 TATTTATATATTTATATC
7660908 TATTTATATTAATTTATATC
1 TATTTATA-T-ATTTATATC
7660928 GATCTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATATATTTATATC
Found at i:7660935 original size:20 final size:20
Alignment explanation
Indices: 7660899--7660936 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7660889 ATATTTATAT
* *
7660899 ATTTATATCTATTTATATTA
1 ATTTATATCGATCTATATTA
7660919 ATTTATATCGATCTATAT
1 ATTTATATCGATCTATAT
7660937 CGATTGATAT
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:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTTATATCGATCTATATTA
Found at i:7660936 original size:30 final size:28
Alignment explanation
Indices: 7660880--7660953 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
7660870 ATTTCAAATT
* *
7660880 TTTATATTGATATTTATATATTTATATCTA
1 TTTATATT-A-ATTTATATATCTATATCGA
7660910 TTTATATTAATTTATATCGATCTATATCGA
1 TTTATATTAATTTATAT--ATCTATATCGA
*
7660940 TTGATATATAATTT
1 TTTATAT-TAATTT
7660954 TAATTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 8 0.21
29 1 0.03
30 23 0.61
31 6 0.16
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTATATTAATTTATATATCTATATCGA
Found at i:7661650 original size:11 final size:13
Alignment explanation
Indices: 7661620--7661644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7661610 TCAAGTTTTT
7661620 TATTTATAATATA
1 TATTTATAATATA
7661633 TATTTATAATAT
1 TATTTATAATAT
7661645 TTTTATTATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTATAATATA
Found at i:7661763 original size:6 final size:6
Alignment explanation
Indices: 7661749--7661786 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
7661739 ATAAGTTTCA
*
7661749 CCCATT CCCACT CCCACT CCCACT CCCACT CCCACT CC
1 CCCACT CCCACT CCCACT CCCACT CCCACT CCCACT CC
7661787 ATTCCTAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.66, G:0.00, T:0.18
Consensus pattern (6 bp):
CCCACT
Found at i:7663054 original size:58 final size:56
Alignment explanation
Indices: 7662921--7663120 Score: 168
Period size: 58 Copynumber: 3.5 Consensus size: 56
7662911 CAAGCGTGAT
* * * *
7662921 CCTAAAATACATGAAATCACATAAATGGTCATAAAACATGAAAAA-AGACTAAAATAA
1 CCTAAAATGCATGAAATTACATAAAT-ATCATAAATCATGAAAAATA-ACTAAAATAA
* * * * * *
7662978 CTTGAAAGTGCGTAAAATTATATAAATCATCGTAAATCATGAAAAATAACTAAAATAA
1 CCT-AAAATGCATGAAATTACATAAAT-ATCATAAATCATGAAAAATAACTAAAATAA
* ** * * *
7663036 CCCTAAAATGCATGAAATTGCATGCATAGTCCTAAATCATGAAAAATGACTAGAATAA
1 -CCTAAAATGCATGAAATTACATAAATA-TCATAAATCATGAAAAATAACTAAAATAA
* *
7663094 TCCTAATATGCATTAAATTACATAAAT
1 -CCTAAAATGCATGAAATTACATAAAT
7663121 GGAAGCATGA
Statistics
Matches: 111, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
57 3 0.03
58 105 0.95
59 3 0.03
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.26
Consensus pattern (56 bp):
CCTAAAATGCATGAAATTACATAAATATCATAAATCATGAAAAATAACTAAAATAA
Found at i:7663097 original size:29 final size:29
Alignment explanation
Indices: 7663010--7663099 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
7663000 TAAATCATCG
* * *
7663010 TAAATCATGAAAAATAACTAAAATAACCC
1 TAAATCATGAAAAATGACTAGAATAATCC
* * *
7663039 TAAAATGCATG-AAATTG-C-ATGCATAGTCC
1 T-AAAT-CATGAAAAATGACTA-GAATAATCC
7663068 TAAATCATGAAAAATGACTAGAATAATCC
1 TAAATCATGAAAAATGACTAGAATAATCC
7663097 TAA
1 TAA
7663100 TATGCATTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
27 4 0.09
28 10 0.22
29 19 0.41
30 9 0.20
31 4 0.09
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (29 bp):
TAAATCATGAAAAATGACTAGAATAATCC
Found at i:7665551 original size:14 final size:14
Alignment explanation
Indices: 7665532--7665584 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
7665522 TTTTTTTGTT
7665532 TTAAATATATTTTA
1 TTAAATATATTTTA
*
7665546 TTAAATGTATTTTA
1 TTAAATATATTTTA
7665560 --AAA-ATATTTTA
1 TTAAATATATTTTA
7665571 TTAAATATATTTTA
1 TTAAATATATTTTA
7665585 AATATTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 7 0.21
12 3 0.09
13 3 0.09
14 21 0.62
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTAAATATATTTTA
Found at i:7665566 original size:25 final size:25
Alignment explanation
Indices: 7665530--7665586 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
7665520 ATTTTTTTTG
* *
7665530 TTTTAAATATATTTTATTAAATGTA
1 TTTTAAAAATATTTTATTAAATATA
7665555 TTTTAAAAATATTTTATTAAATATA
1 TTTTAAAAATATTTTATTAAATATA
7665580 TTTTAAA
1 TTTTAAA
7665587 TATTAATTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTTAAAAATATTTTATTAAATATA
Found at i:7665984 original size:21 final size:21
Alignment explanation
Indices: 7665958--7665999 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7665948 AAAATGAAAA
7665958 AAAAAAAAGAAAAGAAAGAGG
1 AAAAAAAAGAAAAGAAAGAGG
* *
7665979 AAAAAAAATAATAGAAAGAGG
1 AAAAAAAAGAAAAGAAAGAGG
7666000 GAACAAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGAAAAGAAAGAGG
Found at i:7666982 original size:46 final size:47
Alignment explanation
Indices: 7666875--7666997 Score: 117
Period size: 46 Copynumber: 2.6 Consensus size: 47
7666865 AATTTGTAAT
* * * **
7666875 TTTTGCATAGATAAAGTTAAAAACTCTCCTCACAAACAACTTGTAAC
1 TTTTGTATAGATAAAGTTAAAAACCCTCCTAACAAACAACTAATAAC
* * *
7666922 TTTT-T-TACGAATAAAGTCACAAACCCTCC-AACAAACAACTAATTAC
1 TTTTGTATA-G-ATAAAGTTAAAAACCCTCCTAACAAACAACTAATAAC
* *
7666968 TTTTGTATAGATAAAATTATAAACCCTCCT
1 TTTTGTATAGATAAAGTTAAAAACCCTCCT
7666998 CCTTAATGCA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
45 2 0.03
46 34 0.57
47 22 0.37
48 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.31
Consensus pattern (47 bp):
TTTTGTATAGATAAAGTTAAAAACCCTCCTAACAAACAACTAATAAC
Found at i:7667104 original size:17 final size:17
Alignment explanation
Indices: 7667074--7667111 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7667064 TCATAGAGAC
7667074 AATTACTTAGTCACTAA
1 AATTACTTAGTCACTAA
*
7667091 GAATT-CTTATTCACTAA
1 -AATTACTTAGTCACTAA
7667108 AATT
1 AATT
7667112 TATTTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 11 0.58
18 4 0.21
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (17 bp):
AATTACTTAGTCACTAA
Found at i:7669929 original size:2 final size:2
Alignment explanation
Indices: 7669922--7669949 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7669912 AATTCTTTGC
7669922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7669950 CATAGTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7670080 original size:28 final size:28
Alignment explanation
Indices: 7670040--7670097 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
7670030 TCAAGTTTAA
7670040 CACAGAATAAGTAGAATTATGATTATTC
1 CACAGAATAAGTAGAATTATGATTATTC
7670068 CACAGAATAAGTAGAATTATGATTATTC
1 CACAGAATAAGTAGAATTATGATTATTC
7670096 CA
1 CA
7670098 TGTGTTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (28 bp):
CACAGAATAAGTAGAATTATGATTATTC
Found at i:7670796 original size:15 final size:14
Alignment explanation
Indices: 7670776--7670855 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 14
7670766 AGCTTTGTTT
7670776 TATTTAATATTTTTA
1 TATTTAA-ATTTTTA
*
7670791 TATTTACA-TTTTA
1 TATTTAAATTTTTA
*
7670804 TATTTAAAAATTTTA
1 TATTT-AAATTTTTA
* *
7670819 AATATTAAATATTTA
1 TAT-TTAAATTTTTA
*
7670834 TAATTTTAAAATTTTA
1 T-A-TTTAAATTTTTA
7670850 TATTTA
1 TATTTA
7670856 CATATAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
13 10 0.19
14 7 0.13
15 21 0.40
16 13 0.25
17 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTAAATTTTTA
Found at i:7670818 original size:22 final size:22
Alignment explanation
Indices: 7670793--7670855 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
7670783 TATTTTTATA
*
7670793 TTTACATTTTATATTTAAAAAT
1 TTTAAATTTTATATTTAAAAAT
* *
7670815 TTTAAATATTAAATATTT-ATAAT
1 TTTAAAT-TT-TATATTTAAAAAT
7670838 TTTAAAATTTTATATTTA
1 TTT-AAATTTTATATTTA
7670856 CATATAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 12 0.36
23 11 0.33
24 10 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAAATTTTATATTTAAAAAT
Found at i:7671335 original size:28 final size:28
Alignment explanation
Indices: 7671303--7671372 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
7671293 TTAAATTTAA
* *
7671303 ATTAATAAAAATATTTAATTATTTATTT
1 ATTAATAAAAATATTTAATTATTAATAT
7671331 ATTAATAACAAA-ATTTAATTATTAATAT
1 ATTAATAA-AAATATTTAATTATTAATAT
*
7671359 ATTAAAAAAAATAT
1 ATTAATAAAAATAT
7671373 ACTTTTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 31 0.84
29 3 0.08
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTAATAAAAATATTTAATTATTAATAT
Found at i:7671965 original size:30 final size:28
Alignment explanation
Indices: 7671875--7671966 Score: 69
Period size: 29 Copynumber: 3.0 Consensus size: 28
7671865 AAATAAGTTG
* * *
7671875 TAATAAAATAATTATTTTATTAAAATATAA
1 TAATAAAATAA-AATATTA-TAAAATTTAA
7671905 TAA-AAAATAAAATAATTATAATAATTATTTAA
1 TAATAAAATAAAAT-ATTAT-A-AA--ATTTAA
7671937 TTTAATAAAATAAAATATTATAAAATTTAA
1 --TAATAAAATAAAATATTATAAAATTTAA
7671967 ATTTTTAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
28 3 0.06
29 11 0.22
30 11 0.22
32 7 0.14
33 1 0.02
34 8 0.16
35 10 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
TAATAAAATAAAATATTATAAAATTTAA
Found at i:7672005 original size:20 final size:19
Alignment explanation
Indices: 7671958--7672003 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
7671948 AAAATATTAT
7671958 AAAATTTAAATTTTTAATAA
1 AAAATTTAAATTTTT-ATAA
7671978 AAAATTTAAATTTTT-TAA
1 AAAATTTAAATTTTTATAA
7671996 AATAATTT
1 AA-AATTT
7672004 TATATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.20
19 5 0.20
20 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTTAAATTTTTATAA
Found at i:7673416 original size:28 final size:28
Alignment explanation
Indices: 7673384--7673453 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
7673374 GATAAAAATG
*
7673384 GGGTTGGAGTATCCCTTCGAAAATAACA
1 GGGTTGGAGTATCCCCTCGAAAATAACA
7673412 GGGTTGGAGTATCCCCTCGAAAATAACA
1 GGGTTGGAGTATCCCCTCGAAAATAACA
*
7673440 GGGTTAGAGTATCC
1 GGGTTGGAGTATCC
7673454 TCGATGAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCGAAAATAACA
Found at i:7673502 original size:79 final size:78
Alignment explanation
Indices: 7673412--7674120 Score: 751
Period size: 79 Copynumber: 9.0 Consensus size: 78
7673402 GAAAATAACA
* *
7673412 GGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCTCGATGAG-GAAAAATCGATGTT
1 GGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATG-GTGAAAAATCGATGTT
7673476 TTAGAAATAAAACCG
64 TTAGAAATAAAACCG
* * * * * ** *
7673491 GGGTTAGAGTATCCTCT-TAGAAATAACGGGGTTTGAGTATCCCTGATAATGGAAAAATTGATGT
1 GGGTTGGAGTATCCCCTCGA-AAATAAC-GGGTTGGAGTATCCCCGATGGT-GAAAAATCGATGT
*
7673555 TTTAGGAATAAAACCG
63 TTTAGAAATAAAACCG
* * * * *
7673571 GGGTTAGAGTATCCTCTCGGAAATAATGGGGTTGGAGTACCCCCGATGGTGAAAAATCTG-TGTT
1 GGGTTGGAGTATCCCCTCGAAAATAA-CGGGTTGGAGTATCCCCGATGGTGAAAAATC-GATGTT
*
7673635 TTAGAAATAAAACCA
64 TTAGAAATAAAACCG
* * * *
7673650 GGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAGTATCCTCAATGGTGAAAAATCGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
* **
7673715 TAGAAACAAAATTG
65 TAGAAATAAAACCG
* * * *
7673729 AGGTTGAAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
**
7673794 TAGAAATAAAACTA
65 TAGAAATAAAACCG
* *** *
7673808 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTTAATAGTGGAAAAATCGATGTT
1 GGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATGGT-GAAAAATCGATGTT
*
7673873 TTAGGAATAAAACCG
64 TTAGAAATAAAACCG
* * * * *
7673888 GGGTTAGAGTATCCCTTCGAAAATAACGGGTTTGGAGTATCCCCGAGGGTGAAAAATTGATGCTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
*
7673953 T-GAAAATAAAATCG
65 TAG-AAATAAAACCG
* * * * * *
7673967 GGATTGGAGTTTTCCCTTGAAAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
* *
7674032 TAAAAATAAAGCCG
65 TAGAAATAAAACCG
* * * * * * *
7674046 GGGTTGGAGTATCCCCTCGAAACTAACGGGGTGGCGTATCTCCGCTGGTGAAAAATCGGTATTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
7674111 AGAAATAAAA
66 AGAAATAAAA
7674121 ACATGAATGA
Statistics
Matches: 522, Mismatches: 95, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
78 41 0.08
79 346 0.66
80 135 0.26
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
AGAAATAAAACCG
Found at i:7673865 original size:238 final size:234
Alignment explanation
Indices: 7673410--7674120 Score: 786
Period size: 238 Copynumber: 3.0 Consensus size: 234
7673400 TCGAAAATAA
* *
7673410 CAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCTCGATGAG-GAAAAATCGATG
1 CAGGGTTGGAGTATCCCTTCGAAAATAAC-GGGTTGGAGTATCCTCGATG-GTGAAAAATCGATG
* * * *
7673474 TTTTAGAAATAAAACCGGGGTT-AGAGTATC-CTCTTAGAAATAACGGGGTTTGAGTATCCCTGA
64 TTTTAGAAATAAAATC-GGGTTGA-AGTATCTC-CTTAAAAATAACGGGGTTGGAGTATCCCCGA
** * * * * *
7673537 TAATGGAAAAATTGATGTTTTAGGAATAAAACCGGGGTTAGAGTATCCTCTCGGAAATAATGGGG
126 TGGT-GAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA-CGGG
* * *
7673602 TTGGAGTACCCCCGATGGTGAAAAATCTG-TGTTTTAGAAATAAAAC
189 TTGGAGTATCCCCAATAGTGAAAAATC-GATGTTTTAGAAATAAAAC
* *
7673648 CAGGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAGTATCCTCAATGGTGAAAAATCGATGT
1 CAGGGTTGGAGTATCCCTTCGAAAATAACGGG-TTGGAGTATCCTCGATGGTGAAAAATCGATGT
* * *
7673713 TTTAGAAACAAAATTGAGGTTGAAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGG
65 TTTAGAAATAAAATCG-GGTTGAAGTATCTCCTTAAAAATAACGGGGTTGGAGTATCCCCGATGG
* ** *
7673778 TGAAAAATCGATGTTTTAGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGG
129 TGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGG
** *
7673843 AGTATCCTTAATAGTGGAAAAATCGATGTTTTAGGAATAAAAC
193 AGTATCCCCAATAGT-GAAAAATCGATGTTTTAGAAATAAAAC
* * * * * *
7673886 CGGGGTTAGAGTATCCCTTCGAAAATAACGGGTTTGGAGTATCCCCGAGGGTGAAAAATTGATGC
1 CAGGGTTGGAGTATCCCTTCGAAAATAACGGG-TTGGAGTATCCTCGATGGTGAAAAATCGATGT
* * * * *
7673951 TTT-GAAAATAAAATCGGGATTGGAGT-TTTCCCTTGAAAATAACGGGATTGGAGTATCCCCAAT
65 TTTAG-AAATAAAATCGGG-TTGAAGTATCT-CCTTAAAAATAACGGGGTTGGAGTATCCCCGAT
* * * *
7674014 GGTGAAAAATTGATGTTTTAAAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAACTAACGGGGTG
127 GGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGTTG
* * ** * * *
7674079 GCGTATCTCCGCTGGTGAAAAATCGGTATTTTAGAAATAAAA
192 GAGTATCCCCAATAGTGAAAAATCGATGTTTTAGAAATAAAA
7674121 ACATGAATGA
Statistics
Matches: 399, Mismatches: 63, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
236 23 0.06
237 89 0.22
238 285 0.71
239 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (234 bp):
CAGGGTTGGAGTATCCCTTCGAAAATAACGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTT
TTAGAAATAAAATCGGGTTGAAGTATCTCCTTAAAAATAACGGGGTTGGAGTATCCCCGATGGTG
AAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGT
ATCCCCAATAGTGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:7674006 original size:317 final size:317
Alignment explanation
Indices: 7673413--7674120 Score: 944
Period size: 317 Copynumber: 2.2 Consensus size: 317
7673403 AAAATAACAG
* * *
7673413 GGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCTCGATGAG-GAAAAATCGATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-GTGAAAAATCGATGTTT
* * * * * * *
7673477 TAGAAATAAAACCGGGGTTAGAGTATCCTCTTAGAAATAACGGGGTTTGAGTATCCCTGATAATG
65 TAGAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTAATAATG
* * *
7673542 GAAAAATTGATGTTTTAGGAATAAAACCGGGGTTAGAGTATCCTCTCGGAAATAATGGGGTTGGA
130 GAAAAATCGATGTTTTAGGAATAAAACCGGGGTTAGAGTATCCTCTCGAAAATAACGGGGTTGGA
* *
7673607 GTACCCCCGATGGTGAAAAATCTGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCTTCAAAA
195 GTACCCCCGAGGGTGAAAAATCTGTGTTTGAGAAATAAAACCAGGGTTGGAGTATCCCTTCAAAA
* * **
7673672 ATAACGGGATTGGAGTATCCTCAATGGTGAAAAATCGATGTTTTAGAAACAAAATTGA
260 ATAACGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAAAAACAAAACCGA
* * *
7673730 GGTTGAAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
* * * *
7673795 AGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTTAATAGTGG
66 AGAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTAATAATGG
*
7673860 AAAAATCGATGTTTTAGGAATAAAACCGGGGTTAGAGTATCC-CTTCGAAAATAACGGGTTTGGA
131 AAAAATCGATGTTTTAGGAATAAAACCGGGGTTAGAGTATCCTC-TCGAAAATAACGGGGTTGGA
* * *
7673924 GTATCCCCGAGGGTGAAAAAT-TGATGCTTTGA-AAATAAAATC-GGGATTGGAGTTTTCCCTT-
195 GTACCCCCGAGGGTGAAAAATCTG-TG-TTTGAGAAATAAAACCAGGG-TTGGAG-TATCCCTTC
* * * * *
7673985 GAAAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATTGATGTTTTAAAAATAAAGCCGG
256 AAAAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAAAAACAAAACCGA
* * * * * *
7674047 GGTTGGAGTATCCCCTCGAAACTAACGGGG-TGGCGTATCTCCGCTGGTGAAAAATCGGTATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
7674111 AGAAATAAAA
66 AGAAATAAAA
7674121 ACATGAATGA
Statistics
Matches: 341, Mismatches: 44, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
316 46 0.13
317 284 0.83
318 11 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (317 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT
AGAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTAATAATGG
AAAAATCGATGTTTTAGGAATAAAACCGGGGTTAGAGTATCCTCTCGAAAATAACGGGGTTGGAG
TACCCCCGAGGGTGAAAAATCTGTGTTTGAGAAATAAAACCAGGGTTGGAGTATCCCTTCAAAAA
TAACGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAAAAACAAAACCGA
Found at i:7674148 original size:158 final size:157
Alignment explanation
Indices: 7673412--7674123 Score: 733
Period size: 159 Copynumber: 4.5 Consensus size: 157
7673402 GAAAATAACA
* * * *
7673412 GGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCTCGATGAG-GAAAAATCGATGTT
1 GGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-GTGAAAAATCGATGTT
* * * * * * * * * *
7673476 TTAGAAATAAAACCGGGGTTAGAGTATCCTCTTAGAAATAACGGGGTTTGAGTATCCCTGATAAT
65 TTAGAAATAAAAACAGGATTGGAGTTTCCT-TCAAAAATAACGGGATTGGAGTAT-CCT--CAAT
* *
7673541 -G-GAAAAATTGATGTTTTAGGAATAAAACCG
126 GGTGAAAAATCGATGTTTTAGAAATAAAACCG
* * * *
7673571 GGGTTAGAGTATCCTCTCGGAAATAATGGGGTTGGAGTACCCCCGATGGTGAAAAATCTG-TGTT
1 GGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATC-GATGTT
* * *
7673635 TTAGAAATAAAACCAGGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAGTATCCTCAATGGT
65 TTAGAAATAAAAACAGGATTGGAGT-TTCCTTCAAAAATAACGGGATTGGAGTATCCTCAATGGT
* **
7673700 GAAAAATCGATGTTTTAGAAACAAAATTG
129 GAAAAATCGATGTTTTAGAAATAAAACCG
* * *
7673729 AGGTT-GAAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTT
1 GGGTTAG-AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTT
* * * * *
7673793 TTAGAAAT-AAAACTAGGGTTGGAGTATCCCCTCAAAAATAACAGGG-TTGGAGTATCCTTAATA
65 TTAGAAATAAAAAC-AGGATTGGAGT-TTCCTTCAAAAATAAC-GGGATTGGAGTATCCTCAATG
*
7673856 GTGGAAAAATCGATGTTTTAGGAATAAAACCG
127 GT-GAAAAATCGATGTTTTAGAAATAAAACCG
* * * * *
7673888 GGGTTAGAGTATCCCTTCGAAAATAACGGGTTTGGAGTATCCCCGAGGGTGAAAAATTGATGCTT
1 GGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
* * * *
7673953 T-GAAAATAAAATCGGGATTGGAGTTTTCCCTT-GAAAATAACGGGATTGGAGTATCCCCAATGG
66 TAG-AAATAAAAACAGGATTGGAG-TTT-CCTTCAAAAATAACGGGATTGGAGTATCCTCAATGG
* * *
7674016 TGAAAAATTGATGTTTTAAAAATAAAGCCG
128 TGAAAAATCGATGTTTTAGAAATAAAACCG
* * * * * * *
7674046 GGGTTGGAGTATCCCCTCGAAACTAACGGGG-TGGCGTATCTCCGCTGGTGAAAAATCGGTATTT
1 GGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
7674110 TAGAAATAAAAACA
66 TAGAAATAAAAACA
7674124 TGAATGAAAT
Statistics
Matches: 464, Mismatches: 72, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
156 3 0.01
157 42 0.09
158 190 0.41
159 216 0.47
160 13 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (157 bp):
GGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTT
TAGAAATAAAAACAGGATTGGAGTTTCCTTCAAAAATAACGGGATTGGAGTATCCTCAATGGTGA
AAAATCGATGTTTTAGAAATAAAACCG
Found at i:7688176 original size:30 final size:30
Alignment explanation
Indices: 7688092--7688199 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 30
7688082 AAAGACCAAG
* *
7688092 TCAATGGCATCCTTATTCAAAGTCCAAAAT
1 TCAATGGCATCCTTCTTCAAAGTCCACAAT
* *
7688122 TCAGTGGCATCCTTTTTTCCTTCAAAGTCCACGAT
1 TCAATGGCATCC----TT-CTTCAAAGTCCACAAT
* *
7688157 TTAATGGCATCCTTCTTCAAAGTCCACAAC
1 TCAATGGCATCCTTCTTCAAAGTCCACAAT
*
7688187 TCCATGGCA-CCTT
1 TCAATGGCATCCTT
7688200 TTTCCTTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
29 4 0.06
30 32 0.51
31 2 0.03
34 2 0.03
35 23 0.37
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (30 bp):
TCAATGGCATCCTTCTTCAAAGTCCACAAT
Found at i:7688285 original size:34 final size:33
Alignment explanation
Indices: 7688176--7688288 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 33
7688166 TCCTTCTTCA
* * * *
7688176 AAGTCCACAACTCCATGGCACCTTTTTCCTTTT
1 AAGTCCACAACTTCGTGACACCTTTTTCCTTTC
* * * * *
7688209 AAGTCTATAACTTCGTGGCAACTTTTTCTTTTC
1 AAGTCCACAACTTCGTGACACCTTTTTCCTTTC
* *
7688242 AAAGCCCACAACTTCGTGATACCCTTTTTCCTTTC
1 -AAGTCCACAACTTCGTGACA-CCTTTTTCCTTTC
7688277 AAGTCCACAACT
1 AAGTCCACAACT
7688289 CTGTGGCATC
Statistics
Matches: 63, Mismatches: 15, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
33 26 0.41
34 26 0.41
35 11 0.17
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTTCGTGACACCTTTTTCCTTTC
Found at i:7688302 original size:34 final size:33
Alignment explanation
Indices: 7688176--7688303 Score: 123
Period size: 34 Copynumber: 3.8 Consensus size: 33
7688166 TCCTTCTTCA
* * *
7688176 AAGTCCACAACTCCATGGCACCTTTTTCCTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCCTTTC
* * * *
7688209 AAGTCTATAACTTCGTGGCAACTTTTTCTTTTC
1 AAGTCCACAACTTCGTGGCACCTTTTTCCTTTC
* **
7688242 AAAGCCCACAACTTCGTGATACCCTTTTTCCTTTC
1 -AAGTCCACAACTTCGTGGCA-CCTTTTTCCTTTC
7688277 AAGTCCACAAC-TCTGTGGCATCCTTTT
1 AAGTCCACAACTTC-GTGGCA-CCTTTT
7688304 AAATCCACAA
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
33 28 0.38
34 35 0.47
35 11 0.15
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (33 bp):
AAGTCCACAACTTCGTGGCACCTTTTTCCTTTC
Found at i:7688336 original size:26 final size:27
Alignment explanation
Indices: 7688270--7688329 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
7688260 ATACCCTTTT
* * **
7688270 TCCTTTCAAGTCCACAACTCTGTGGCA
1 TCCTTTTAAATCCACAACTCCATGGCA
7688297 TCCTTTTAAATCCACAACTCCATGGCA
1 TCCTTTTAAATCCACAACTCCATGGCA
7688324 -CCTTTT
1 TCCTTTT
7688330 TTCTCCAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.33
Consensus pattern (27 bp):
TCCTTTTAAATCCACAACTCCATGGCA
Found at i:7688410 original size:32 final size:32
Alignment explanation
Indices: 7688336--7688672 Score: 210
Period size: 32 Copynumber: 10.7 Consensus size: 32
7688326 TTTTTTCTCC
* *
7688336 AAAGCCCACACAAGTCGGTGGCAACC-CTTC-
1 AAAGCCCACACAAGTTGGTGGCAACCTTTTCT
* *
7688366 AAAACCCACACAAGTTGGTGGCAACATTTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTTTTCT
** *
7688398 AAAGCCCACACAAGTCAGTGGCAACCCTCTT-T
1 AAAGCCCACACAAGTTGGTGGCAA-CCTTTTCT
* * *
7688430 AAAGCCTACACTAGTTTGTGGCAACCTTCTTC-
1 AAAGCCCACACAAGTTGGTGGCAACCTT-TTCT
*
7688462 AAAGCCCACACAAGTTGGTGGCAACCTTCTCCT
1 AAAGCCCACACAAGTTGGTGGCAACCTT-TTCT
* * * * *
7688495 -AAGCCCACATAAGCTAGTGGCAACCTTCTCC
1 AAAGCCCACACAAGTTGGTGGCAACCTTTTCT
* * * * * * * *
7688526 AAAGCCCATATAAATCGGTGGTAGCTCCTTTCA
1 AAAGCCCACACAAGTTGGTGGCAAC-CTTTTCT
* * * * *
7688559 AAAG----C-C-GGTCGGTGGCAACCCTCTCA
1 AAAGCCCACACAAGTTGGTGGCAACCTTTTCT
* * * * * *
7688585 AAATCCCACATAAATCGGTGGCAACCCTTCTCA
1 AAAGCCCACACAAGTTGGTGGCAA-CCTTTTCT
* * *
7688618 AAAGCCCACACAAGTTGGTGGCAACCCTCTCA
1 AAAGCCCACACAAGTTGGTGGCAACCTTTTCT
7688650 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
7688673 TCTCCTTCTA
Statistics
Matches: 241, Mismatches: 51, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
26 9 0.04
27 9 0.04
30 24 0.10
31 7 0.03
32 153 0.63
33 39 0.16
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCTTTTCT
Found at i:7688475 original size:64 final size:64
Alignment explanation
Indices: 7688330--7688672 Score: 240
Period size: 64 Copynumber: 5.5 Consensus size: 64
7688320 GGCACCTTTT
* * * * *
7688330 TTCTCCAAAGCCCACACAAGTCGGTGGCAA-CC-CTTCAAAACCCACACAAGTTGGTGGCAACA
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACTAGTTAGTGGCAACC
* * * * *
7688392 TTTTCTAAAGCCCACACAAGTCAGTGGCAACCCTCTTTAAAGCCTACACTAGTTTGTGGCAACC
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACTAGTTAGTGGCAACC
* * * * *
7688456 TTCTTCAAAGCCCACACAAGTTGGTGGCAACCTTCTCCT-AAGCCCACA-TAAGCTAGTGGCAAC
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTCT-TTAAAGCCCACACT-AGTTAGTGGCAAC
7688519 C
64 C
* * * * * * * **
7688520 TTCTCCAAAGCCCATATAAATCGGTGGTAGCTCCT-TTCAAA----AGC-C-GGTCGGTGGCAAC
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAAC-CCTCTTTAAAGCCCA-CACTAGTTAGTGGCAAC
7688578 C
64 C
* * * * * ** * *
7688579 CTCTCAAAATCCCACATAAATCGGTGGCAACCCTTCTCAAAAGCCCACACAAGTTGGTGGCAACC
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAACCC-TCTTTAAAGCCCACACTAGTTAGTGGCAACC
* * *
7688644 CTCTCAAAAGCCCACACAAGTTGGTGGCA
1 TTCTCCAAAGCCCACACAAGTCGGTGGCA
7688673 TCTCCTTCTA
Statistics
Matches: 218, Mismatches: 47, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
58 2 0.01
59 36 0.17
60 5 0.02
61 1 0.00
62 27 0.12
63 4 0.02
64 103 0.47
65 40 0.18
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (64 bp):
TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACTAGTTAGTGGCAACC
Found at i:7688530 original size:96 final size:94
Alignment explanation
Indices: 7688330--7688672 Score: 288
Period size: 96 Copynumber: 3.6 Consensus size: 94
7688320 GGCACCTTTT
7688330 TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCAAAACCCACACAAGTTGGTGGCAACATTT
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCAAAACCCACACAAGTTGGTGGCAACATTT
*
7688395 TCTAAAGCCCACACAAGTCAGTGGCAACC
66 CCTAAAGCCCACACAAGTCAGTGGCAACC
* ** * * ** * *
7688424 CTCTTTAAAGCCTACACTAGTTTGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCT
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAACC--CTTCAAAACCCACACAAGTTGGTGGCAACAT
*
7688489 TCTCCT-AAGCCCACATAAG-CTAGTGGCAACC
64 T-TCCTAAAGCCCACACAAGTC-AGTGGCAACC
* * * * * * * * *
7688520 TTCTCCAAAGCCCATATAAATCGGTGGTAGCTCCTTTCAAAA---GC-C-GGTCGGTGGCAAC-C
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAAC-CC-TTCAAAACCCACACAAGTTGGTGGCAACAT
* * * * * *
7688579 CTCTCAAAATCCCACATAAATCGGTGGCAACCC
64 TTC-CTAAAGCCCACACAAGTCAGTGGCAA-CC
* *
7688612 TTCTCAAAAGCCCACACAAGTTGGTGGCAACCCTCTCAAAAGCCCACACAAGTTGGTGGCA
1 TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCT-TCAAAA-CCCACACAAGTTGGTGGCA
7688673 TCTCCTTCTA
Statistics
Matches: 189, Mismatches: 43, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
89 2 0.01
90 2 0.01
91 37 0.20
92 28 0.15
93 1 0.01
94 25 0.13
95 3 0.02
96 78 0.41
97 13 0.07
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (94 bp):
TTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCAAAACCCACACAAGTTGGTGGCAACATTT
CCTAAAGCCCACACAAGTCAGTGGCAACC
Found at i:7688598 original size:59 final size:59
Alignment explanation
Indices: 7688511--7688659 Score: 156
Period size: 59 Copynumber: 2.4 Consensus size: 59
7688501 ACATAAGCTA
* * * * *
7688511 GTGGCAACCTTCTCCAAAGCCCATATAAATCGGTGGTAGCTCCTT-TCAAAAGCCGGTCG
1 GTGGCAACCCTCTCAAAAGCCCACATAAATCGGTGGCAAC-CCTTCTCAAAAGCCGGTCG
* * *
7688570 GTGGCAACCCTCTCAAAATCCCACATAAATCGGTGGCAACCCTTCTCAAAAGCCCACACAAGTTG
1 GTGGCAACCCTCTCAAAAGCCCACATAAATCGGTGGCAACCCTTCTCAAAAG----C-C-GGTCG
7688635 GTGGCAACCCTCTCAAAAGCCCACA
1 GTGGCAACCCTCTCAAAAGCCCACA
7688660 CAAGTTGGTG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
58 4 0.05
59 41 0.55
63 1 0.01
64 1 0.01
65 27 0.36
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (59 bp):
GTGGCAACCCTCTCAAAAGCCCACATAAATCGGTGGCAACCCTTCTCAAAAGCCGGTCG
Found at i:7688670 original size:124 final size:123
Alignment explanation
Indices: 7688447--7688679 Score: 279
Period size: 124 Copynumber: 1.9 Consensus size: 123
7688437 ACACTAGTTT
* * * ** *
7688447 GTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCTTCTCCTAAGCCCACATAAGCTAG
1 GTGGCAACCCTCTTCAAAGCCCACACAAATCGGTGGCAACCTTCTCAAAAGCCCACACAAGCTAG
* * * * *
7688512 TGGCAACCTTCTCCAAAGCCCATATAAATCGGTGGTAGCTCCTTTCAAAAGCCGGTCG
66 TGGCAACCCTCTCAAAAGCCCACACAAATCGGTGGCAGCTCCTTTCAAAAGCCGGTCG
* * *
7688570 GTGGCAACCCTC-TCAAAATCCCACATAAATCGGTGGCAACCCTTCTCAAAAGCCCACACAAGTT
1 GTGGCAACCCTCTTC-AAAGCCCACACAAATCGGTGGCAA-CCTTCTCAAAAGCCCACACAAGCT
* * * *
7688634 GGTGGCAACCCTCTCAAAAGCCCACACAAGTTGGTGGCATCTCCTT
64 AGTGGCAACCCTCTCAAAAGCCCACACAAATCGGTGGCAGCTCCTT
7688680 CTATGCTCAA
Statistics
Matches: 90, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
122 2 0.02
123 31 0.34
124 57 0.63
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.21
Consensus pattern (123 bp):
GTGGCAACCCTCTTCAAAGCCCACACAAATCGGTGGCAACCTTCTCAAAAGCCCACACAAGCTAG
TGGCAACCCTCTCAAAAGCCCACACAAATCGGTGGCAGCTCCTTTCAAAAGCCGGTCG
Found at i:7688730 original size:31 final size:31
Alignment explanation
Indices: 7688670--7688730 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
7688660 CAAGTTGGTG
* * **
7688670 GCATCTCCTTCTATGCTCAATGTTGTTGGCA
1 GCATCTCCTTCTAAGCCCAATGTCATTGGCA
*
7688701 GCATCTCTTTCTAAGCCCAATGTCATTGGC
1 GCATCTCCTTCTAAGCCCAATGTCATTGGC
7688731 CTTGAATCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (31 bp):
GCATCTCCTTCTAAGCCCAATGTCATTGGCA
Found at i:7688832 original size:52 final size:52
Alignment explanation
Indices: 7688767--7689253 Score: 224
Period size: 52 Copynumber: 9.3 Consensus size: 52
7688757 AAACCATCTT
* * * ** *
7688767 TTTC-TAAGTCCAATGTCATTAGCCTTTAATTAGCACATTGGCATTTTTTTC
1 TTTCTTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
* * * * *
7688818 TTTCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
1 TTTCTTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
* * *
7688870 -ATCTTTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGAACTTTTGTC
1 TTTC-TTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
* * * * *** * * *
7688922 -ATCTTTAAGTTCGATATTGTTAGCCTTGAATCAG--TATTGGCACCTTTGTC
1 TTTC-TTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
* * * * * *
7688972 ATTT-TTAAGCCCAATGTCGCTGGCCTTCAATCAGCACATTGGCATTCTTTTCATC
1 -TTTCTTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCA--CCTTT-GTC
** * * *
7689027 TTTATCATTTTAAGTCCAATGTTGCTGGCCTTTAATCAGCACATTGGCACATTT-TGC
1 -TT-TC---TTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGT-C
** * *
7689084 TTTCTTAAACCCAATAT--CTGGCCTTGAATTAGCATATTGGCACCTTTGTC
1 TTTCTTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
* * * * * ** * * *
7689134 -ATCTTTAAGTTCGATATCGCTACCCTTGAATCAGCATATTGGCACTTTTGTC
1 TTTC-TTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
* * * * * * * * *
7689186 -ATCTTTAAGTCCGATATCGCTGCCCTTGAATCAGCATATTGGCATCTTTATC
1 TTTC-TTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
*
7689238 ATTTC-TAAGCCCAATG
1 -TTTCTTAAGTCCAATG
7689254 CTGTTAGCTT
Statistics
Matches: 343, Mismatches: 72, Indels: 41
0.75 0.16 0.09
Matches are distributed among these distances:
49 2 0.01
50 71 0.21
51 7 0.02
52 205 0.60
54 6 0.02
55 6 0.02
56 4 0.01
57 1 0.00
58 4 0.01
60 37 0.11
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (52 bp):
TTTCTTAAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTTGTC
Found at i:7688996 original size:102 final size:103
Alignment explanation
Indices: 7688822--7689227 Score: 345
Period size: 102 Copynumber: 3.9 Consensus size: 103
7688812 TTTTTCTTTC
* * * * * * *
7688822 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGT
1 TTAAGTTCGATATTGCTAGCCTTGAATCAG-ATATTGGCACCTTTGTCATCTTTAAGCCCAATAT
* *
7688887 CACTGGCCTTGAATTAGCACATTGGAACTTTTGTCATCT
65 CGCTGGCCTTGAATCAGCACATTGGAACTTTTGTCATCT
* * *
7688926 TTAAGTTCGATATTGTTAGCCTTGAATCAG-TATTGGCACCTTTGTCATTTTTAAGCCCAATGTC
1 TTAAGTTCGATATTGCTAGCCTTGAATCAGATATTGGCACCTTTGTCATCTTTAAGCCCAATATC
* * *
7688990 GCTGGCCTTCAATCAGCACATTGGCATTCTTTTCATCTTTATCATT
66 GCTGGCCTTGAATCAGCACATTGG-A-ACTTTT-GTC---ATC--T
* * * * * * * * *
7689036 TTAAGTCCAATGTTGCTGGCCTTTAATCAGCACATTGGCACATTT-TGC-TTTCTTAAACCCAAT
1 TTAAGTTCGATATTGCTAGCCTTGAATCAG-ATATTGGCACCTTTGT-CATCT-TTAAGCCCAAT
* * * *
7689099 AT--CTGGCCTTGAATTAGCATATTGGCACCTTTGTCATCT
63 ATCGCTGGCCTTGAATCAGCACATTGGAACTTTTGTCATCT
* * * * *
7689138 TTAAGTTCGATATCGCTACCCTTGAATCAGCATATTGGCACTTTTGTCATCTTTAAGTCCGATAT
1 TTAAGTTCGATATTGCTAGCCTTGAATCAG-ATATTGGCACCTTTGTCATCTTTAAGCCCAATAT
* *
7689203 CGCTGCCCTTGAATCAGCATATTGG
65 CGCTGGCCTTGAATCAGCACATTGG
7689228 CATCTTTATC
Statistics
Matches: 241, Mismatches: 45, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
102 100 0.41
103 4 0.02
104 54 0.22
105 2 0.01
107 2 0.01
108 7 0.03
110 45 0.19
111 4 0.02
112 23 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (103 bp):
TTAAGTTCGATATTGCTAGCCTTGAATCAGATATTGGCACCTTTGTCATCTTTAAGCCCAATATC
GCTGGCCTTGAATCAGCACATTGGAACTTTTGTCATCT
Found at i:7689448 original size:61 final size:61
Alignment explanation
Indices: 7689348--7689468 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
7689338 TCGCATATTT
* * *
7689348 AAGCCTAATATAGCTGGCCTTGAATCAATATATAGGCACCTTTATTATTTTTCTCATCTTC
1 AAGCCTAATATAGCTGGCCGTGAATCAATATATAGGCACCTTTATCATTTTTCACATCTTC
* * *
7689409 AAGCCTGATATCGCTGGCCGTGAATTAGCATAT-TA-GCACCTTTATCATTTTTCACATCTT
1 AAGCCTAATATAGCTGGCCGTGAATCA--ATATATAGGCACCTTTATCATTTTTCACATCTT
7689469 TAAGTCCAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 46 0.88
62 2 0.04
63 4 0.08
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (61 bp):
AAGCCTAATATAGCTGGCCGTGAATCAATATATAGGCACCTTTATCATTTTTCACATCTTC
Found at i:7690948 original size:33 final size:32
Alignment explanation
Indices: 7690881--7690953 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
7690871 GTAAAATTAA
*
7690881 AATAAAATAAAAATTATAATAATTATTTAGTTT
1 AATAAAATAAAAATTATAATAATTAATTA-TTT
7690914 AATAAAATAAAAAATTATAA-AATTTAAATT-TTT
1 AATAAAAT-AAAAATTATAATAA-TT-AATTATTT
7690947 AATAAAA
1 AATAAAA
7690954 AATTTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
33 20 0.56
34 13 0.36
35 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (32 bp):
AATAAAATAAAAATTATAATAATTAATTATTT
Found at i:7690988 original size:21 final size:21
Alignment explanation
Indices: 7690964--7691041 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 21
7690954 AATTTAAAAT
7690964 TTTTAAAATAATT-TTATATTA
1 TTTTAAAA-AATTATTATATTA
*
7690985 TTTTTAAAAATTA-T-TATT-
1 TTTTAAAAAATTATTATATTA
* * *
7691003 TTATAAATCAAATGATTGTATTA
1 TTTTAAA--AAATTATTATATTA
7691026 TTTTATAAAAATTATT
1 TTTTA-AAAAATTATT
7691042 TTCTTCGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 10 0.23
21 8 0.18
22 11 0.25
23 4 0.09
24 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTAAAAAATTATTATATTA
Found at i:7693366 original size:33 final size:32
Alignment explanation
Indices: 7693299--7693371 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
7693289 GTAAAATTAA
*
7693299 AATAAAATAAAAATTATAATAATTATTTAGTTT
1 AATAAAATAAAAATTATAATAATTAATTA-TTT
7693332 AATAAAATAAAAAATTATAA-AATTTAAATT-TTT
1 AATAAAAT-AAAAATTATAATAA-TT-AATTATTT
7693365 AATAAAA
1 AATAAAA
7693372 AATTTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
33 20 0.56
34 13 0.36
35 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (32 bp):
AATAAAATAAAAATTATAATAATTAATTATTT
Found at i:7693406 original size:21 final size:21
Alignment explanation
Indices: 7693382--7693459 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 21
7693372 AATTTAAAAT
7693382 TTTTAAAATAATT-TTATATTA
1 TTTTAAAA-AATTATTATATTA
*
7693403 TTTTTAAAAATTA-T-TATT-
1 TTTTAAAAAATTATTATATTA
* * *
7693421 TTATAAATCAAATGATTGTATTA
1 TTTTAAA--AAATTATTATATTA
7693444 TTTTATAAAAATTATT
1 TTTTA-AAAAATTATT
7693460 TTCTTCGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 10 0.23
21 8 0.18
22 11 0.25
23 4 0.09
24 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTAAAAAATTATTATATTA
Found at i:7703613 original size:3 final size:3
Alignment explanation
Indices: 7703605--7703657 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
7703595 TTCAAAAATA
7703605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
7703653 AAT AA
1 AAT AA
7703658 ATAAATACTA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7703663 original size:12 final size:10
Alignment explanation
Indices: 7703601--7703664 Score: 75
Period size: 9 Copynumber: 6.8 Consensus size: 10
7703591 AATTTTCAAA
7703601 AATAAATAAT
1 AATAAATAAT
7703611 AAT-AATAAT
1 AATAAATAAT
7703620 AAT-AATAAT
1 AATAAATAAT
7703629 AAT-AATAAT
1 AATAAATAAT
7703638 AAT-AATAAT
1 AATAAATAAT
*
7703647 AA-AATTAAT
1 AATAAATAAT
7703656 AAATAAATA
1 -AATAAATA
7703665 CTAAATATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
9 40 0.82
10 5 0.10
11 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AATAAATAAT
Found at i:7703853 original size:21 final size:20
Alignment explanation
Indices: 7703813--7703865 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
7703803 GTTTTTAATA
*
7703813 AAATAAAATAAAGATTAAAT
1 AAATAAAATAAAGATAAAAT
7703833 AAATAATAATCAAA-ATAAAAT
1 AAATAA-AAT-AAAGATAAAAT
*
7703854 GAATAAATATAA
1 AAATAAA-ATAA
7703866 TCTTCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 16 0.57
22 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
AAATAAAATAAAGATAAAAT
Found at i:7704696 original size:148 final size:148
Alignment explanation
Indices: 7704287--7704696 Score: 500
Period size: 148 Copynumber: 2.8 Consensus size: 148
7704277 AGTCCGTTAA
* ** * *
7704287 GATCATTGGGCACTTCTAAGTTGATGGTAGGCTTTAGGGACCTTTTTGCATTTTTCCCTGAAAAC
1 GATCATTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGACCTTTTAGCATTTTT-CCT-AAAAC
* * * *
7704352 CTAGCCCTATGAAACTACTAGTTCACTTCTATGCCGAGGGTACGTATTAGGTATAGGTTCATTTT
64 CTAGCCCTATGAAACTACTAGGTCACTTCTATGCTGAGGGTACGTATTAGGTAGAGGTTCACTTT
7704417 TACTTTTACAAGTCTTCTAG
129 TACTTTTACAAGTCTTCTAG
** * * *
7704437 GATCAACAAGCACTTCTAAGTTGATGATAAACCTTAGGGACCTTTTAGCATTTTTCCCAAAACCT
1 GATCATTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGACCTTTTAGCATTTTTCCTAAAACCT
* * * * * *
7704502 AGCCCTATGAAACAAC-CGAGTCGCTTCTATGCTGAGGGTACATATTAGG-CGAGCGTTCGCTTT
66 AGCCCTATGAAACTACTAG-GTCACTTCTATGCTGAGGGTACGTATTAGGTAGAG-GTTCACTTT
* * *
7704565 TACTTTTTCAAGTCTTTTAT
129 TACTTTTACAAGTCTTCTAG
* * * *
7704585 GATCATTAGGCACTTCTAAGTCGATGGTAAACCTTGGGGACCTTTTAGTATTTTTCCTAAAACTT
1 GATCATTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGACCTTTTAGCATTTTTCCTAAAACCT
* * *
7704650 AGTCCTATGAAACTACTAGGTCACTTCTATGCTAAGGGTATGTATTA
66 AGCCCTATGAAACTACTAGGTCACTTCTATGCTGAGGGTACGTATTA
7704697 AGGATAGGTA
Statistics
Matches: 218, Mismatches: 39, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
147 3 0.01
148 166 0.76
149 3 0.01
150 46 0.21
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (148 bp):
GATCATTAGGCACTTCTAAGTTGATGGTAAACCTTAGGGACCTTTTAGCATTTTTCCTAAAACCT
AGCCCTATGAAACTACTAGGTCACTTCTATGCTGAGGGTACGTATTAGGTAGAGGTTCACTTTTA
CTTTTACAAGTCTTCTAG
Found at i:7706246 original size:4 final size:4
Alignment explanation
Indices: 7706237--7706341 Score: 141
Period size: 4 Copynumber: 27.8 Consensus size: 4
7706227 CAATGAGAAA
7706237 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
7706281 ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAT ATAG
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
7706327 ATAT ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
7706342 TATATATATA
Statistics
Matches: 91, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
2 6 0.07
4 85 0.93
ACGTcount: A:0.50, C:0.22, G:0.01, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:7706270 original size:18 final size:18
Alignment explanation
Indices: 7706237--7706319 Score: 125
Period size: 18 Copynumber: 4.7 Consensus size: 18
7706227 CAATGAGAAA
7706237 ATACATACAT--ACATAC
1 ATACATACATACACATAC
7706253 ATACATACATACACATAC
1 ATACATACATACACATAC
* *
7706271 ATACATACACATACATAC
1 ATACATACATACACATAC
*
7706289 ATACATACATATACATAC
1 ATACATACATACACATAC
7706307 ATACATACATACA
1 ATACATACATACA
7706320 TATATAGATA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
16 10 0.16
18 51 0.84
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (18 bp):
ATACATACATACACATAC
Found at i:7706271 original size:22 final size:21
Alignment explanation
Indices: 7706237--7706341 Score: 118
Period size: 18 Copynumber: 5.3 Consensus size: 21
7706227 CAATGAGAAA
7706237 ATACAT-ACATACATACATAC
1 ATACATAACATACATACATAC
7706257 ATACATACACATACATACATAC
1 ATACATA-ACATACATACATAC
7706279 --ACAT-ACATACATACATAC
1 ATACATAACATACATACATAC
7706297 AT--AT-ACATACATACATAC
1 ATACATAACATACATACATAC
* * *
7706315 ATACAT-ATATAGATATATAC
1 ATACATAACATACATACATAC
7706335 ATACATA
1 ATACATA
7706342 TATATATATA
Statistics
Matches: 75, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
18 32 0.43
20 29 0.39
22 14 0.19
ACGTcount: A:0.50, C:0.22, G:0.01, T:0.27
Consensus pattern (21 bp):
ATACATAACATACATACATAC
Found at i:7706332 original size:2 final size:2
Alignment explanation
Indices: 7706319--7706362 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
7706309 ACATACATAC
* * *
7706319 AT AT AT AG AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7706361 AT
1 AT
7706363 TGGTTTTGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:7706344 original size:22 final size:22
Alignment explanation
Indices: 7706241--7706355 Score: 122
Period size: 22 Copynumber: 5.1 Consensus size: 22
7706231 GAGAAAATAC
* * *
7706241 ATACATACATACATACATACAT
1 ATACATACATACATATACATAT
* * *
7706263 ACACATACATACATACACATAC
1 ATACATACATACATATACATAT
*
7706285 ATACATACATACATATACATAC
1 ATACATACATACATATACATAT
*
7706307 ATACATACATACATATATAGATAT
1 ATACATACATAC--ATATACATAT
* *
7706331 ATACATACATATATATATATAT
1 ATACATACATACATATACATAT
7706353 ATA
1 ATA
7706356 TATATATTGG
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
22 62 0.77
24 19 0.23
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (22 bp):
ATACATACATACATATACATAT
Found at i:7706348 original size:18 final size:18
Alignment explanation
Indices: 7706245--7706362 Score: 109
Period size: 18 Copynumber: 6.8 Consensus size: 18
7706235 AAATACATAC
*
7706245 ATACATACATACATACAT
1 ATACATACATATATACAT
* * *
7706263 ACACATACATACATACAC
1 ATACATACATATATACAT
*
7706281 ATACATACATACATACAT
1 ATACATACATATATACAT
*
7706299 ATACATACATACATAC--
1 ATACATACATATATACAT
* *
7706315 ATACAT--ATATAGATAT
1 ATACATACATATATACAT
*
7706331 ATACATACATATATATAT
1 ATACATACATATATACAT
* *
7706349 ATATATATATATAT
1 ATACATACATATAT
7706363 TGGTTTTGCT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
14 5 0.06
16 12 0.14
18 69 0.80
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (18 bp):
ATACATACATATATACAT
Found at i:7708157 original size:25 final size:24
Alignment explanation
Indices: 7708119--7708165 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
7708109 AATATAGTAT
*
7708119 AAAAAAATTAAAACATAACATAAC
1 AAAAAAAATAAAACATAACATAAC
*
7708143 AAAAAAAATATAAACATGACATA
1 AAAAAAAATA-AAACATAACATA
7708166 GATATGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.70, C:0.11, G:0.02, T:0.17
Consensus pattern (24 bp):
AAAAAAAATAAAACATAACATAAC
Found at i:7718954 original size:21 final size:20
Alignment explanation
Indices: 7718921--7718961 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
7718911 GAGCTATTGG
7718921 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGCATGAA
*
7718941 ACATAGCTCAAAATGCATGAA
1 ACATA-CTAAAAATGCATGAA
7718962 CATGGGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:7719946 original size:15 final size:13
Alignment explanation
Indices: 7719914--7719939 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7719904 CAGGGTAGTC
7719914 TTGTATCGATACA
1 TTGTATCGATACA
7719927 TTGTATCGATACA
1 TTGTATCGATACA
7719940 AATTGTAGAA
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):
TTGTATCGATACA
Found at i:7725716 original size:23 final size:23
Alignment explanation
Indices: 7725686--7725731 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
7725676 CTAAAATAAT
* *
7725686 TCTTAAGAAAATTTTTTAGCAAA
1 TCTTAAGAAAATCTTTAAGCAAA
7725709 TCTTAAGAAAATCTTTAAGCAAA
1 TCTTAAGAAAATCTTTAAGCAAA
7725732 CCTTGAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (23 bp):
TCTTAAGAAAATCTTTAAGCAAA
Found at i:7733081 original size:32 final size:32
Alignment explanation
Indices: 7733040--7733121 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
7733030 TTGATCTGGC
** *
7733040 CAAAACCAATAGTCTGGAGTGGAAAACTTAGG
1 CAAAACCAATAGTCTAAAGTGGAAAACCTAGG
* *
7733072 CAAAACCAATAATCTAAAGTGGAGAACCTAGG
1 CAAAACCAATAGTCTAAAGTGGAAAACCTAGG
** *
7733104 TGAAACTAATAGTCTAAA
1 CAAAACCAATAGTCTAAA
7733122 CATATGACTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.20
Consensus pattern (32 bp):
CAAAACCAATAGTCTAAAGTGGAAAACCTAGG
Found at i:7733675 original size:16 final size:16
Alignment explanation
Indices: 7733650--7733680 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7733640 TTAGTTTGTG
7733650 GGTGCAAATGCATGTA
1 GGTGCAAATGCATGTA
*
7733666 GGTGCGAATGCATGT
1 GGTGCAAATGCATGT
7733681 GAATATGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (16 bp):
GGTGCAAATGCATGTA
Found at i:7734042 original size:73 final size:74
Alignment explanation
Indices: 7733919--7734057 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 74
7733909 GCAGATATTT
* * * *
7733919 GTAAGCATGAATGCCCATGAATGCTAATGCTCATAAATACAAATGCATGTGAGTATGAATGTATG
1 GTAAGCATGAATGCCCATGAATGCTAATGCTCAAAAATACAAATACATGTGAGCATGAATGCATG
7733984 TGAATGTTC
66 TGAATGTTC
* *
7733993 GTAAGCATGAAT--CCACTGGATGCTAATGCT-AAAAAGTATAAATACATGTGAGCATGAATGCA
1 GTAAGCATGAATGCCCA-TGAATGCTAATGCTCAAAAA-TACAAATACATGTGAGCATGAATGCA
7734055 TGT
64 TGT
7734058 AGTGTTACTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
72 7 0.12
73 38 0.67
74 12 0.21
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (74 bp):
GTAAGCATGAATGCCCATGAATGCTAATGCTCAAAAATACAAATACATGTGAGCATGAATGCATG
TGAATGTTC
Found at i:7740568 original size:20 final size:21
Alignment explanation
Indices: 7740543--7740592 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
7740533 GAAAAAATTT
7740543 TATCGATACATAAATA-AATG
1 TATCGATACATAAATATAATG
***
7740563 TATCGATACATGCTTATAATG
1 TATCGATACATAAATATAATG
7740584 TATCGATAC
1 TATCGATAC
7740593 GTTTTTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (21 bp):
TATCGATACATAAATATAATG
Found at i:7747980 original size:145 final size:145
Alignment explanation
Indices: 7747619--7747980 Score: 403
Period size: 145 Copynumber: 2.5 Consensus size: 145
7747609 TTTAGAGATG
* * *
7747619 ATGGGGTTTGAGTATCCTTAAAGATGAAAAATTTGATGTTTTGGAAGTAAAAAT-GAGGTTAGAG
1 ATGGGGTTAGAGTATCCTTGAAGATGAAAAATTCGATGTTTTGGAAGTAAAAATAG-GGTTAGAG
* * * *
7747683 TATCTCC-TAAAAGATGATGGGACTGGAGTATCCTCAAAGTTGACAATTTGATATTTTCATAAAT
65 TA-CCCCTTAAAAGATGATGGGACTGAAGTATCCTCAAAGATAACAATTTGATATTTTCATAAAT
*
7747747 CAAATTTTAGTGTAAAA
129 CAAATTTTAGTATAAAA
* * ** ** *
7747764 ATCGGGTTGGAGTATCCTTGGAA-ATGAAAAATTCGATGTTTTTAAAAGTAAAACGA-GGTTAAA
1 ATGGGGTTAGAGTATCCTT-GAAGATGAAAAATTCGATG-TTTTGGAAGTAAAAATAGGGTTAGA
* * ** * * **
7747827 CTATCCCTTCGGAA-ATGGTAGGG-TTGAAGTATCCTCGGAGATAACAATTTGATATTTTCATAA
64 GTACCCCTT-AAAAGATGAT-GGGACTGAAGTATCCTCAAAGATAACAATTTGATATTTTCATAA
7747890 ATCAAATTTTAGTATAAAA
127 ATCAAATTTTAGTATAAAA
* *
7747909 ATGGGGTTAGAGTATCCTTGAAGATGAAAAACTCGATGTTTTGGAAGCAAAAATAGGGTTAGAGT
1 ATGGGGTTAGAGTATCCTTGAAGATGAAAAATTCGATGTTTTGGAAGTAAAAATAGGGTTAGAGT
7747974 ACCCCTT
66 ACCCCTT
7747981 TTAATGTTTT
Statistics
Matches: 176, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
144 17 0.10
145 140 0.80
146 19 0.11
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (145 bp):
ATGGGGTTAGAGTATCCTTGAAGATGAAAAATTCGATGTTTTGGAAGTAAAAATAGGGTTAGAGT
ACCCCTTAAAAGATGATGGGACTGAAGTATCCTCAAAGATAACAATTTGATATTTTCATAAATCA
AATTTTAGTATAAAA
Found at i:7750548 original size:20 final size:21
Alignment explanation
Indices: 7750506--7750558 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
7750496 ATTAAGGCTT
*
7750506 GTATCGATACAATCACACTAG
1 GTATCGATACCATCACACTAG
*
7750527 GTATCGATACCA-CACCCTAG
1 GTATCGATACCATCACACTAG
7750547 GTATCGATACCA
1 GTATCGATACCA
7750559 AGCCTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (21 bp):
GTATCGATACCATCACACTAG
Found at i:7755688 original size:18 final size:19
Alignment explanation
Indices: 7755650--7755705 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
7755640 TAACCTTTTA
*
7755650 ATTCAATAATAATTAATTAT
1 ATTCAATAAT-ATTAAATAT
7755670 ATTCAATAAT-TTAAATAT
1 ATTCAATAATATTAAATAT
* * *
7755688 ATTTAAAAATATAAAATA
1 ATTCAATAATATTAAATA
7755706 AATTGTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 15 0.48
19 6 0.19
20 10 0.32
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAATAATATTAAATAT
Found at i:7755846 original size:26 final size:26
Alignment explanation
Indices: 7755811--7755861 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7755801 GAATAAATTT
7755811 TTAAAATTTTAAAATAATA-AATAAAA
1 TTAAAATTTTAAAA-AATATAATAAAA
*
7755837 TTAAAATTTTATAAAATATAATAAA
1 TTAAAATTTTAAAAAATATAATAAA
7755862 TAATTGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TTAAAATTTTAAAAAATATAATAAAA
Found at i:7755866 original size:28 final size:28
Alignment explanation
Indices: 7755802--7755866 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
7755792 TTGTTAAGTG
**
7755802 AATAAATTTTTAAAATTTTAAAATAATA
1 AATAAATAATTAAAATTTTAAAATAATA
*
7755830 AAT-AA-AATTAAAATTTTATAA-AATA
1 AATAAATAATTAAAATTTTAAAATAATA
7755855 TAATAAATAATT
1 -AATAAATAATT
7755867 GAATATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 4 0.13
26 16 0.52
27 4 0.13
28 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AATAAATAATTAAAATTTTAAAATAATA
Found at i:7761062 original size:3 final size:3
Alignment explanation
Indices: 7761054--7761087 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7761044 CCTCGATATG
7761054 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7761088 TCTATTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7763300 original size:57 final size:57
Alignment explanation
Indices: 7763212--7763324 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
7763202 AGGAATTTCA
7763212 TTTTAGGACATTGATTTCATGTTTCAGTGAGGTGGTGTAATTTCCTTTTTGTTTTTG
1 TTTTAGGACATTGATTTCATGTTTCAGTGAGGTGGTGTAATTTCCTTTTTGTTTTTG
*
7763269 TTTTAGGACATTGATTTCATGTTTCAGTGAGGTGGTGTACTTTCCTTTTTGTTTTT
1 TTTTAGGACATTGATTTCATGTTTCAGTGAGGTGGTGTAATTTCCTTTTTGTTTTT
7763325 TCAGCGTAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.15, C:0.10, G:0.22, T:0.53
Consensus pattern (57 bp):
TTTTAGGACATTGATTTCATGTTTCAGTGAGGTGGTGTAATTTCCTTTTTGTTTTTG
Found at i:7763447 original size:2 final size:2
Alignment explanation
Indices: 7763440--7763474 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7763430 ATCTTCATAG
7763440 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7763475 CCCGACTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:7764309 original size:3 final size:3
Alignment explanation
Indices: 7764303--7764338 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7764293 TTTTAAAATA
7764303 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7764339 GGGAATCGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7764530 original size:17 final size:17
Alignment explanation
Indices: 7764508--7764540 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7764498 AAAAGATATT
7764508 TTTTATTTTTAATTTTC
1 TTTTATTTTTAATTTTC
7764525 TTTTATTTTTAATTTT
1 TTTTATTTTTAATTTT
7764541 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTAATTTTC
Found at i:7764558 original size:13 final size:13
Alignment explanation
Indices: 7764542--7764572 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7764532 TTTAATTTTT
7764542 TAAAAAATAAAAA
1 TAAAAAATAAAAA
*
7764555 TAAAAAATATAAA
1 TAAAAAATAAAAA
7764568 TAAAA
1 TAAAA
7764573 TTTATCCGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:7766721 original size:28 final size:28
Alignment explanation
Indices: 7766689--7766745 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
7766679 ACCCTCTGGG
7766689 TTCACTTTAGTATTTTTATACCAAAACC
1 TTCACTTTAGTATTTTTATACCAAAACC
* *
7766717 TTCACTTTAGTATTTTTATATCGAAACC
1 TTCACTTTAGTATTTTTATACCAAAACC
7766745 T
1 T
7766746 AGTCTTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (28 bp):
TTCACTTTAGTATTTTTATACCAAAACC
Found at i:7768575 original size:236 final size:235
Alignment explanation
Indices: 7768139--7768594 Score: 804
Period size: 236 Copynumber: 1.9 Consensus size: 235
7768129 CTAAAAAATG
* *
7768139 TAATGGTGTAACTAAAAAAAAATAGATTACATGGTGTATCAGAATTTTTATAAAATTATTTTAAC
1 TAATGGTGTAACTAAAAAAAAATAGATTACATGGTGCATCAGAATTTTTAAAAAATTATTTTAAC
7768204 TGATCGAAAAAGATTGTATTGCCATATATAATAAATCTATCCTAATCAAATTAGCTTAATTGTTG
66 TGATCGAAAAAGATTGTATTGCCATATATAATAAATCTATCCTAATCAAATTAGCTTAATTGTTG
* *
7768269 ATCCGCAAGTACCATGCAAAGTCGTCTAGAGAAGATCTATAAGAAAGATAAACTAGCTTTCTCTA
131 ATCCGCAAGTACCATGCAAAGTCATCTAGAGAAGATCTATAAGAAAGATAAACTAGCTTTCTCCA
7768334 CTATTCTCCAACTCTTTGATAGTAAAGTGTATGGGCACTC
196 CTATTCTCCAACTCTTTGATAGTAAAGTGTATGGGCACTC
*
7768374 TAATGGTGTAACTATAAGAAAAATAGATTACATGGTGCATCAGAATTTTTAAAAAATTATTTTAA
1 TAATGGTGTAACTA-AAAAAAAATAGATTACATGGTGCATCAGAATTTTTAAAAAATTATTTTAA
* * *
7768439 CTGATCGAAAAAGGTTGTATTGTCATATATAATAAATCTATCCTAATCAAATTAGCTTAGTTGTT
65 CTGATCGAAAAAGATTGTATTGCCATATATAATAAATCTATCCTAATCAAATTAGCTTAATTGTT
*
7768504 GATCCGCAAGTACCATGCAAAGTCATCTAGAGAAGATCTATAAGAAAGATAAACTAGTTTTCTCC
130 GATCCGCAAGTACCATGCAAAGTCATCTAGAGAAGATCTATAAGAAAGATAAACTAGCTTTCTCC
* *
7768569 ACTATTCTCCAATTCTTTGATGGTAA
195 ACTATTCTCCAACTCTTTGATAGTAA
7768595 GTCACTCTTT
Statistics
Matches: 209, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
235 14 0.07
236 195 0.93
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (235 bp):
TAATGGTGTAACTAAAAAAAAATAGATTACATGGTGCATCAGAATTTTTAAAAAATTATTTTAAC
TGATCGAAAAAGATTGTATTGCCATATATAATAAATCTATCCTAATCAAATTAGCTTAATTGTTG
ATCCGCAAGTACCATGCAAAGTCATCTAGAGAAGATCTATAAGAAAGATAAACTAGCTTTCTCCA
CTATTCTCCAACTCTTTGATAGTAAAGTGTATGGGCACTC
Found at i:7776705 original size:47 final size:47
Alignment explanation
Indices: 7776631--7776724 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
7776621 TGTGGCATGA
7776631 TTAATGAGTTGTTTCATCGTCCCAAACAACTCTGAGATTTTGAAATG
1 TTAATGAGTTGTTTCATCGTCCCAAACAACTCTGAGATTTTGAAATG
* *
7776678 TTAATGGGTTGTTTCATCGTCCTAAACAACTCTGAGATTTTGAAATG
1 TTAATGAGTTGTTTCATCGTCCCAAACAACTCTGAGATTTTGAAATG
7776725 AACTCATGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (47 bp):
TTAATGAGTTGTTTCATCGTCCCAAACAACTCTGAGATTTTGAAATG
Done.