Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 109 of 259
Found at i:35221325 original size:31 final size:31
Alignment explanation
Indices: 35221282--35221365 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
35221272 TCAATCTCGA
35221282 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
35221312 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
35221343 CATATCACTAGGCCAAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
35221366 ATTGTAAACG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:35221449 original size:42 final size:42
Alignment explanation
Indices: 35221389--35221480 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
35221379 TGGCCCATAG
35221389 GCCCATTTCAATAACACATGAAATATC-AATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATA-CAAATGAATGTATGCAA
*
35221431 GCCCATTTCAATATCACATGAAATACAAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
35221473 GCCCATTT
1 GCCCATTT
35221481 AGGGAGACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
Found at i:35221656 original size:25 final size:25
Alignment explanation
Indices: 35221628--35221721 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
35221618 CTCTTTTAAT
*
35221628 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35221653 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* **
35221678 AACTAGGGCTTAGCCCTTTTCG-TA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35221702 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35221722 AGCACTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
24 20 0.33
25 41 0.67
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35222556 original size:27 final size:27
Alignment explanation
Indices: 35222526--35222590 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
35222516 GGGCATATTC
35222526 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
35222553 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
35222580 GTCTTTTTACC
1 GTCATTTTACC
35222591 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:35222592 original size:26 final size:26
Alignment explanation
Indices: 35222526--35222626 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
35222516 GGGCATATTC
35222526 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
35222553 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* * *
35222580 GTCTTTTTACCTATTAGGGGTATTTA--
1 GTCATTTTACCTA-CAAGGGTA-TTACG
*
35222606 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
35222627 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
26 17 0.29
27 36 0.61
28 6 0.10
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:35222673 original size:27 final size:27
Alignment explanation
Indices: 35222643--35222728 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
35222633 GTAAATCTAC
*
35222643 AAACCAAGGGTATTTCAGTAGTTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
35222670 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
35222696 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
35222726 AAA
1 AAA
35222729 TTAGGGGTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 21 0.44
28 7 0.15
29 18 0.38
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:35222816 original size:53 final size:54
Alignment explanation
Indices: 35222640--35222884 Score: 179
Period size: 54 Copynumber: 4.5 Consensus size: 54
35222630 TTGGTAAATC
* * * *** ** *
35222640 TACAAACCAAGGGTATTTCAGTAGTTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAA-TTT
* * * *** ** * * *
35222695 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTGTTTTGGTAATTT
1 TACAAACT-AAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
* * *
35222750 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA-TTCGATAATTT
1 TACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
* * * *
35222803 TACAAACTAAGGGTATTTTC-GTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTA-TTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
* *
35222857 TACAAACTAGGGGTATTTTGGTTAATTT
1 TACAAACTAAGGGTATTTCGG-TAATTT
35222885 TATCCTACAG
Statistics
Matches: 150, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
53 44 0.29
54 53 0.35
55 20 0.13
56 33 0.22
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
Found at i:35222902 original size:28 final size:27
Alignment explanation
Indices: 35222706--35222886 Score: 197
Period size: 27 Copynumber: 6.7 Consensus size: 27
35222696 AGAAAGTCAA
** *
35222706 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
35222733 GGGTGTTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
35222759 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * * *
35222787 TGGTA-TTCGATAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
35222813 GGGTATTTTCGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
35222840 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
35222867 GGGTATTTTGGTTAATTTTA
1 GGGTATTTTGG-TAATTTTA
35222887 TCCTACAGGG
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
26 24 0.19
27 96 0.74
28 9 0.07
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:35222949 original size:27 final size:27
Alignment explanation
Indices: 35222915--35223035 Score: 174
Period size: 27 Copynumber: 4.5 Consensus size: 27
35222905 GTAATTTCAT
* *
35222915 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
35222942 AA-CTGAGGGT-AAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
35222968 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
35222995 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
35223022 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
35223036 CAGCAATTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
26 24 0.28
27 62 0.72
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:35222972 original size:53 final size:54
Alignment explanation
Indices: 35222915--35223057 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 54
35222905 GTAATTTCAT
* * * *
35222915 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGT-AAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
35222968 AATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* **
35223022 AATCGAGGGTAAAACAGCAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGG
35223058 CATTTCAGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 32 0.41
54 47 0.59
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:35223043 original size:27 final size:27
Alignment explanation
Indices: 35222915--35223057 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
35222905 GTAATTTCAT
** * *
35222915 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
35222942 AA-CTGAGGGT-AAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATAGTAATTCTATA
*
35222968 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
*
35222995 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
35223022 AATCGAGGGTAAAACAGCAATTCTACA
1 AATCGAGGGTAAAATAGTAATTCTATA
35223049 AATCGAGGG
1 AATCGAGGG
35223058 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 24 0.23
27 80 0.77
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:35225410 original size:31 final size:30
Alignment explanation
Indices: 35225364--35225446 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
35225354 TCAGTCTCGA
35225364 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
35225394 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
*
35225425 CTTATCACTGGCCGAAGCCTTT
1 CATATCACTGGCCGAAGCCTTT
35225447 ATTGTAAACA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:35225530 original size:42 final size:42
Alignment explanation
Indices: 35225470--35225561 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
35225460 TGGCCCATAG
* *
35225470 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGAAA
*
35225512 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGAAA
35225554 GCCCATTT
1 GCCCATTT
35225562 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGAAA
Found at i:35225735 original size:24 final size:24
Alignment explanation
Indices: 35225695--35225776 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
35225685 CTGGAGGCCT
*
35225695 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCCT-TTTTGATAAACTAGGGCAA
*
35225719 AGCCTTTTTGATAAACTGGGGCAA
1 AGCCTTTTTGATAAACTAGGGCAA
* * *
35225743 AGCCCTTTTCGGTAAACTAGGGCAT
1 AG-CCTTTTTGATAAACTAGGGCAA
*
35225768 AGCCCTTTT
1 AGCCTTTTT
35225777 AGCACTTCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 6 0.12
24 22 0.46
25 20 0.42
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCTTTTTGATAAACTAGGGCAA
Found at i:35225758 original size:25 final size:25
Alignment explanation
Indices: 35225708--35225776 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
35225698 CTCTTTTAAT
*
35225708 AACTAGGGCAAAG-CCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
35225732 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
35225757 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
35225777 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 12 0.31
25 27 0.69
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:35226616 original size:27 final size:27
Alignment explanation
Indices: 35226586--35226650 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
35226576 GGGCATATTC
*
35226586 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAGGGGAT-TTACG
* *
35226613 GTCACTTTACCCTACAGGGGATTTACG
1 GTCATTTTACCATACAGGGGATTTACG
*
35226640 GTCTTTTTACC
1 GTCATTTTACC
35226651 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGATTTACG
Found at i:35226752 original size:27 final size:27
Alignment explanation
Indices: 35226682--35226947 Score: 252
Period size: 27 Copynumber: 9.8 Consensus size: 27
35226672 TTCATCCTAC
* * * *
35226682 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
** *
35226709 AAGGGTATTTCAGTAATTTTATAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
35226736 AAGGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
** *
35226764 CAAGGGTATTTTTTTAATTTTGCAAA-T
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
35226791 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* * *
35226819 GAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
35226845 CAGTGGTATTTTGGTAATTTTATAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
35226873 AGGGGTATTTTGGTAAATTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
35226900 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
35226927 AAGGGTATTTTGGTAATTTTA
1 AAGGGTATTTTGGTAATTTTA
35226948 TCCTATAGGG
Statistics
Matches: 197, Mismatches: 33, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
26 3 0.02
27 160 0.81
28 21 0.11
29 13 0.07
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:35226884 original size:81 final size:81
Alignment explanation
Indices: 35226711--35226985 Score: 254
Period size: 81 Copynumber: 3.4 Consensus size: 81
35226701 TACAAACCAA
** * * * ** * * *
35226711 GGGTATTTCAGTAATTTTATAAACTAAGGGTATTTCTATAATTTTTAGAAAGTCAAGGGTATTTT
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTTCACAAACT-AAGGGTATTTT
** *
35226776 TTTAATTTT-GCAAATCAG
64 GGTAATTTTATCAAAT-AG
*
35226794 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC-CAGTGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAAG-GGTATTTTG
35226858 GTAATTTTAT-AAACTAG
65 GTAATTTTATCAAA-TAG
* * * *
35226875 GGGTATTTTGGTAAATTTACAAACT-AGTGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATTGAG-GGTATTTCGGTAATTTCACAAACTAAGGGTATTTTG
**
35226939 GTAATTTTATCCTATAG
65 GTAATTTTATCAAATAG
** *
35226956 GGGTATTTCAGTAATTTCAC-AATTGAGGGT
1 GGGTATTTTGGTAATTTTACAAATTGAGGGT
35226986 CAAATGGTAA
Statistics
Matches: 159, Mismatches: 26, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
80 10 0.06
81 104 0.65
82 11 0.07
83 34 0.21
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTTGG
TAATTTTATCAAATAG
Found at i:35226961 original size:54 final size:54
Alignment explanation
Indices: 35226684--35226977 Score: 238
Period size: 54 Copynumber: 5.4 Consensus size: 54
35226674 CATCCTACAA
* * * * ** *
35226684 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTAT-AAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAA-TAG
* * * ** *
35226738 GGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTTTAATTTT-GCAAATCAG
1 GGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTTGGTAATTTTATCAAAT-AG
* * * * *
35226794 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCA-CAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAA-TAG
* * * *
35226848 TGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAAATTTA-CAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAA-TAG
* **
35226902 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCCTATAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAATAG
** *
35226956 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
35226978 TTGAGGGTCA
Statistics
Matches: 192, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
54 140 0.73
55 20 0.10
56 32 0.17
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAATAG
Found at i:35227006 original size:27 final size:27
Alignment explanation
Indices: 35226976--35227097 Score: 163
Period size: 27 Copynumber: 4.5 Consensus size: 27
35226966 GTAATTTCAC
*
35226976 AATTGAGGGTCAAATGGTAATTTTGTA
1 AATTGAGGGTAAAATGGTAATTTTGTA
*
35227003 AATTGAGGGTAAAATTGTAATTTTGTA
1 AATTGAGGGTAAAATGGTAATTTTGTA
* *
35227030 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATTGAGGGTAAAATGGTAATTTTGTA
* * *
35227057 AATCGAGGGTAAAATGGTAATTCTATA
1 AATTGAGGGTAAAATGGTAATTTTGTA
**
35227084 AATCAAGGGTAAAA
1 AATTGAGGGTAAAA
35227098 CAAAAAGTCT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (27 bp):
AATTGAGGGTAAAATGGTAATTTTGTA
Found at i:35227114 original size:54 final size:54
Alignment explanation
Indices: 35227002--35227119 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
35226992 GTAATTTTGT
* * * * ** *** * **
35227002 AAATTGAGGGTAAAATTGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGT
1 AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
35227056 AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
1 AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
35227110 AAATCGAGGG
1 AAATCGAGGG
35227120 CATTTCAGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (54 bp):
AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
Found at i:35228270 original size:49 final size:50
Alignment explanation
Indices: 35228150--35228283 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 50
35228140 ATCACGTGTA
* ** *
35228150 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTGACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTGACATGTG
* *
35228200 TAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATT-GGTCG-CATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGT-GACATGTG
* * * *
35228249 TAGTACTAAGTGCAAGTTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
35228284 GCCTTGTCTA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 37 0.52
50 34 0.48
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTGACATGTG
Found at i:35230239 original size:40 final size:40
Alignment explanation
Indices: 35230143--35230326 Score: 212
Period size: 40 Copynumber: 4.5 Consensus size: 40
35230133 TATTCGGATG
* **
35230143 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGC---TAGTTGCT
*
35230186 ATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTG-CT
35230226 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTG-CT
* * ** *
35230266 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTGCT
*
35230306 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
35230327 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 15 0.12
40 81 0.64
41 2 0.02
43 28 0.22
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTGCT
Found at i:35238944 original size:21 final size:20
Alignment explanation
Indices: 35238920--35238959 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
35238910 TATGAGCTTT
35238920 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
35238941 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
35238960 ATAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:35238967 original size:20 final size:21
Alignment explanation
Indices: 35238925--35238967 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35238915 GCTTTAATGA
*
35238925 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
35238946 TTGATGATAG-TTAT-ATAAGT
1 TTGATGATAGATTATGA-AAGT
35238966 TT
1 TT
35238968 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:35255487 original size:9 final size:9
Alignment explanation
Indices: 35255466--35255506 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
35255456 TCACCATTCG
35255466 AATAACTTT-
1 AATAA-TTTA
*
35255475 AATAATTTG
1 AATAATTTA
35255484 AATAATTTA
1 AATAATTTA
35255493 AATAATTTA
1 AATAATTTA
35255502 AATAA
1 AATAA
35255507 CAAATTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 3 0.10
9 27 0.90
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (9 bp):
AATAATTTA
Found at i:35255488 original size:18 final size:19
Alignment explanation
Indices: 35255465--35255507 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
35255455 TTCACCATTC
35255465 GAATAACTTT-AATAATTT
1 GAATAACTTTAAATAATTT
35255483 GAATAA-TTTAAATAATTT
1 GAATAACTTTAAATAATTT
*
35255501 AAATAAC
1 GAATAAC
35255508 AAATTGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
GAATAACTTTAAATAATTT
Found at i:35255609 original size:21 final size:20
Alignment explanation
Indices: 35255585--35255638 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
35255575 AAAACTACAA
35255585 AAAAAAGTTCAAAATAATTT-T
1 AAAAAA-TTCAAAAT-ATTTAT
35255606 --AAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
35255624 AAAAAAATTCAAAAT
1 -AAAAAATTCAAAAT
35255639 TTATATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 4 0.14
21 12 0.41
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:35255615 original size:18 final size:19
Alignment explanation
Indices: 35255587--35255627 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
35255577 AACTACAAAA
35255587 AAAAGTTCAAAATAATTT-T
1 AAAAGTTCAAAAT-ATTTAT
35255606 AAAA-TTCAAAATATTTAT
1 AAAAGTTCAAAATATTTAT
35255624 AAAA
1 AAAA
35255628 AAATTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAGTTCAAAATATTTAT
Found at i:35255665 original size:10 final size:10
Alignment explanation
Indices: 35255650--35255693 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
35255640 TATATTTTTA
35255650 AAAAATATAT
1 AAAAATATAT
35255660 AAAAATATA-
1 AAAAATATAT
*
35255669 AAATAAT-TCT
1 AAA-AATATAT
35255679 AAAAATATAT
1 AAAAATATAT
35255689 AAAAA
1 AAAAA
35255694 AGTTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATATAT
Found at i:35255700 original size:19 final size:19
Alignment explanation
Indices: 35255659--35255701 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
35255649 AAAAAATATA
* *
35255659 TAAAAATATAAAATAATTC
1 TAAAAATATAAAAAAAGTC
35255678 TAAAAATATATAAAAAAGT-
1 TAAAAATATA-AAAAAAGTC
35255697 TAAAA
1 TAAAA
35255702 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAATATAAAAAAAGTC
Found at i:35259180 original size:16 final size:16
Alignment explanation
Indices: 35259161--35259192 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35259151 AATTGTTTTA
35259161 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
35259177 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
35259193 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:35259457 original size:50 final size:51
Alignment explanation
Indices: 35259396--35259834 Score: 386
Period size: 50 Copynumber: 8.7 Consensus size: 51
35259386 AAGCTCTCTA
* *
35259396 GTACACATAGTAGCCTGCACTTAGTACTACACATGCT-ATCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* *
35259446 GTACACGTAGTAGCCTGCACTTAGTACTACAC-T-CGTGACTTATCCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGC-TGACCTATCAATCTG
* * * * ** * *
35259496 ATACACGTAGTACCCTGCACTTAGTACTATACACG-TGATCGAAGTTAA-CGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCTGA-CCTA-TCAATCTG
* * *
35259547 GTACGCATAGTAGCCTGCACTTAGTACTACACATG-TGACCTATCAATCCG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* *
35259597 GTACACGTAGTAGCCTGCACTTAGTACTACACACG-TAACCTAATC-ATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCTGACCT-ATCAATCTG
* ** * * *
35259647 ATACACGTAGTAGCCTGCACTTAGTACTACACA--CATGATCGAAACTATCGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGC-TGA-CCTATCAATCTG
* * *
35259698 GTA-AGCATAGTAGCCTACACTTAGTACTACACATGCT-ACCTAACAATCTG
1 GTACA-CGTAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* * *
35259748 GTACACGTAGTAGCCTGCATTTAGTGCTACACATG-TGACCTA--AAACTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* * *
35259796 TCTTAAACACATAGTAGCCTGCACATAGTACTACACATG
1 --GT--ACACGTAGTAGCCTGCACTTAGTACTACACATG
35259835 TTTTCTCACA
Statistics
Matches: 317, Mismatches: 51, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
48 6 0.02
49 6 0.02
50 198 0.62
51 74 0.23
52 32 0.10
53 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (51 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
Found at i:35259574 original size:101 final size:100
Alignment explanation
Indices: 35259397--35259789 Score: 307
Period size: 101 Copynumber: 3.9 Consensus size: 100
35259387 AGCTCTCTAG
* * * * * *
35259397 TACACATAGTAGCCTGCACTTAGTACTACACATGCT-ATC-TATCAATCTGG-TACACGTAGTAG
1 TACACGTAGTACCCTGCACTTAGTACTACACACG-TAACCGAATCAA-C-GGATACACATAGTAG
* * *
35259459 CCTGCACTTAGTACTACAC-TCGTGACTTATCCATCTGA
63 CCTGCACTTAGTACTACACAT-GTGACCTATCAATCCGA
* * * * * *
35259497 TACACGTAGTACCCTGCACTTAGTACTATACACGTGATCGAAGTTAACGGGTACGCATAGTAGCC
1 TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCGAA-TCAACGGATACACATAGTAGCC
*
35259562 TGCACTTAGTACTACACATGTGACCTATCAATCCGG
65 TGCACTTAGTACTACACATGTGACCTATCAATCCGA
* * * * *
35259598 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAATCATCTGATACACGTAGTAGCCT
1 TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCGAATCAACGGATACACATAGTAGCCT
** ** * * * *
35259663 GCACTTAGTACTACACACATGATCGAAACTATCGGG
66 GCACTTAGTACTACACATGTGA-CCTATCAATCCGA
* * * * * *
35259699 TA-AGCATAGTAGCCTACACTTAGTACTACACATGCT-ACCTAA-CAATCTGG-TACACGTAGTA
1 TACA-CGTAGTACCCTGCACTTAGTACTACACACG-TAACCGAATCAA-C-GGATACACATAGTA
* *
35259760 GCCTGCATTTAGTGCTACACATGTGACCTA
62 GCCTGCACTTAGTACTACACATGTGACCTA
35259790 AAACTGTCTT
Statistics
Matches: 242, Mismatches: 41, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
99 1 0.00
100 77 0.32
101 158 0.65
102 6 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (100 bp):
TACACGTAGTACCCTGCACTTAGTACTACACACGTAACCGAATCAACGGATACACATAGTAGCCT
GCACTTAGTACTACACATGTGACCTATCAATCCGA
Found at i:35259591 original size:151 final size:151
Alignment explanation
Indices: 35259396--35259832 Score: 590
Period size: 151 Copynumber: 2.9 Consensus size: 151
35259386 AAGCTCTCTA
* *
35259396 GTACACATAGTAGCCTGCACTTAGTACTACACATGCTATCTATCAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGCC
* * *
35259461 TGCACTTAGTACTACACTCGTGA-CTTATCCATCTGATACACGTAGTACCCTGCACTTAGTACTA
66 TGCACTTAGTACTACACACGTAACCTAAT-CATCTGATACACGTAGTACCCTGCACTTAGTACTA
* * **
35259525 TACACGTGATCGAAGTTAACGG
130 CACACATGATCGAAACTAACGG
*
35259547 GTACGCATAGTAGCCTGCACTTAGTACTACACATG-TGACCTATCAATCCGGTACACGTAGTAGC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCT-ACCTATCAATCTGGTACACGTAGTAGC
*
35259611 CTGCACTTAGTACTACACACGTAACCTAATCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACGTAACCTAATCATCTGATACACGTAGTACCCTGCACTTAGTACTA
*
35259676 CACACATGATCGAAACTATCGG
130 CACACATGATCGAAACTAACGG
* * *
35259698 GTAAGCATAGTAGCCTACACTTAGTACTACACATGCTACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGCC
* * * * * * * * * * *
35259763 TGCATTTAGTGCTACACATGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACT
66 TGCACTTAGTACTACACACGTAACCT-AATC-ATCTGATACACGTAGTACCCTGCACTTAGTACT
35259828 ACACA
129 ACACA
35259833 TGTTTTCTCA
Statistics
Matches: 255, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
150 1 0.00
151 213 0.84
152 8 0.03
153 33 0.13
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (151 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTAACCTAATCATCTGATACACGTAGTACCCTGCACTTAGTACTAC
ACACATGATCGAAACTAACGG
Found at i:35262827 original size:15 final size:14
Alignment explanation
Indices: 35262802--35262859 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 14
35262792 TAGACAACAG
*
35262802 GAAAACCAAGATTAA
1 GAAATCCAAGA-TAA
*
35262817 GAAGTCCAAGATAGA
1 GAAATCCAAGATA-A
35262832 GAAATCCAAGATAA
1 GAAATCCAAGATAA
35262846 GGAAATCCAAGATA
1 -GAAATCCAAGATA
35262860 CAATATCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 35 0.92
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (14 bp):
GAAATCCAAGATAA
Found at i:35262843 original size:30 final size:30
Alignment explanation
Indices: 35262802--35262859 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
35262792 TAGACAACAG
*
35262802 GAAAACCAAGATTAA-GAAGTCCAAGATAGA
1 GAAAACCAAGA-TAAGGAAATCCAAGATAGA
*
35262832 GAAATCCAAGATAAGGAAATCCAAGATA
1 GAAAACCAAGATAAGGAAATCCAAGATA
35262860 CAATATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (30 bp):
GAAAACCAAGATAAGGAAATCCAAGATAGA
Found at i:35269870 original size:14 final size:14
Alignment explanation
Indices: 35269851--35269878 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35269841 CATACAAGGC
35269851 CTCATAAGGCGCTA
1 CTCATAAGGCGCTA
35269865 CTCATAAGGCGCTA
1 CTCATAAGGCGCTA
35269879 TCTTCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (14 bp):
CTCATAAGGCGCTA
Found at i:35279243 original size:180 final size:180
Alignment explanation
Indices: 35278923--35279265 Score: 517
Period size: 180 Copynumber: 1.9 Consensus size: 180
35278913 GAGCTACGAA
* ** *
35278923 ACTCCAAATTAAGATCCGTTAATTTTCTATGAAACTAAACTCATATATATTCTTACCAGAAAATT
1 ACTCCAAATTAAGAACCACTAATTTTCTATGAAACTAAACTCAAATATATTCTTACCAGAAAATT
* *
35278988 TTTAGAATTTTTGGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTATC
66 TTCAGAATTTTTAGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTATC
*
35279053 TGATAGTTCCGACCTCTCTTCACTAAAAATTATTTATTTCATGGTAATGG
131 TGACAGTTCCGACCTCTCTTCACTAAAAATTATTTATTTCATGGTAATGG
* *
35279103 ACTCCAAATTAAGAACCACTAATTTTCTCA-GAAACTAGACTCAAATATATTCTTACCATAAAAT
1 ACTCCAAATTAAGAACCACTAATTTTCT-ATGAAACTAAACTCAAATATATTCTTACCAGAAAAT
* * * ** *
35279167 TTTCAGAATTTTTAGTTTTTCCAATTAGTACAGTTTATTCATTAAAGATACCTCTGTTTCACTGT
65 TTTCAGAATTTTTAGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTAT
**
35279232 CTTCCAGTTCCGACCTCTCTTCACTAAAAATTAT
130 CTGACAGTTCCGACCTCTCTTCACTAAAAATTAT
35279266 ATATCTTATG
Statistics
Matches: 145, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
180 144 0.99
181 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (180 bp):
ACTCCAAATTAAGAACCACTAATTTTCTATGAAACTAAACTCAAATATATTCTTACCAGAAAATT
TTCAGAATTTTTAGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTATC
TGACAGTTCCGACCTCTCTTCACTAAAAATTATTTATTTCATGGTAATGG
Found at i:35279910 original size:50 final size:50
Alignment explanation
Indices: 35279846--35280332 Score: 480
Period size: 50 Copynumber: 9.7 Consensus size: 50
35279836 CTGGTACGCA
* * * *
35279846 TAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* * * * * *
35279896 TGGTAGCCTACACTTAGTACTACATACGTGACTTATCCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
** * * * * *
35279946 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGATACACG
* * ** *
35279997 TAGTAGCCGGCACTTAGTACTACACATGCAACCTATCAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGA-TACACG
* *
35280047 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* * ** ** ** *
35280097 TAGTAGCCTACACTTAGTACTACATACGTGATCGAAGTTTATGGGTATGCA--
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTG-ATACACG
* * *
35280148 TAGTAGCCTACAGTTAGTACTACACATGTGACCTATCAATCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGA-TACACG
* *
35280198 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* * * * * *
35280248 TAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACAGG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
35280298 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA
35280333 AAACTGTCTT
Statistics
Matches: 352, Mismatches: 73, Indels: 24
0.78 0.16 0.05
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 6 0.02
50 266 0.76
51 66 0.19
52 6 0.02
53 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
Found at i:35280101 original size:151 final size:151
Alignment explanation
Indices: 35279838--35280273 Score: 676
Period size: 151 Copynumber: 2.9 Consensus size: 151
35279828 GAAGCTCTCT
* * *
35279838 GGTACGCATAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAAT-TTGATACACGTGGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAG-TACACGTAGTAG
* * *
35279902 CCTACACTTAGTACTACATACGTGACTTATCCATCTAATACACGTAGTAGCCTGCACTTAGTACT
65 CCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACT
35279967 ACACACGTGATCGAAGTTAACG
130 ACACACGTGATCGAAGTTAACG
* * *
35279989 GGTACGCATAGTAGCCGGCACTTAGTACTACACATGCAACCTATCAATCCAGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
*
35280054 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTACACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* * *
35280119 CATACGTGATCGAAGTTTATG
131 CACACGTGATCGAAGTTAACG
* * * *
35280140 GGTATGCATAGTAGCCTACAGTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
* * *
35280205 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
35280270 CACA
131 CACA
35280274 TGCGACCTAA
Statistics
Matches: 259, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
151 258 1.00
152 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAGTTAACG
Found at i:35280204 original size:201 final size:200
Alignment explanation
Indices: 35279846--35280329 Score: 546
Period size: 201 Copynumber: 2.4 Consensus size: 200
35279836 CTGGTACGCA
* * *
35279846 TAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAATTTGATACACGTGGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
** *
35279911 AGTACTACATACGTGACTTATCCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
66 AGTACTACATACGTGACGAATCCATCTAATACAC-TAGTAGCCTACACTTAGTACTACACACGTG
* * * * * *
35279976 ATCGAAGTTAACGGGTACGCATAGTAGCCGGCACTTAGTACTACACATGCAACCTATCAATCCAG
130 ATCCAAGTCAACGAGTACACATAGTAGCCGGCACTTAGTACTACACACGCAACCTAACAAT-CAG
35280041 -TACACG
194 ATACACG
* * * *
35280047 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
** * * * *
35280112 AGTACTACATACGTGATCGAAGTTTATGGGT-ATGCA-TAGTAGCCTACAGTTAGTACTACACAT
66 AGTACTACATACGTGA-CGAA-TCCAT--CTAATACACTAGTAGCCTACACTTAGTACTACACAC
* * * * ** *
35280175 GTGA-CCTA-TCAATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
127 GTGATCCAAGTCAA-CGAGTACACATAGTAGCCGGCACTTAGTACTACACACGCAACCTAACAAT
*
35280238 CTGATACACG
191 CAGATACACG
* * * * *
35280248 TAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACAGGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
*
35280313 AGTACTACACACGTGAC
66 AGTACTACATACGTGAC
35280330 CTAAAACTGT
Statistics
Matches: 237, Mismatches: 40, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
200 6 0.03
201 193 0.81
202 30 0.13
203 3 0.01
204 4 0.02
205 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (200 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
AGTACTACATACGTGACGAATCCATCTAATACACTAGTAGCCTACACTTAGTACTACACACGTGA
TCCAAGTCAACGAGTACACATAGTAGCCGGCACTTAGTACTACACACGCAACCTAACAATCAGAT
ACACG
Found at i:35280758 original size:19 final size:20
Alignment explanation
Indices: 35280730--35280776 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35280720 AAGAACATGT
35280730 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
35280751 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
35280770 TATATAT
1 TATATAT
35280777 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:35291382 original size:17 final size:17
Alignment explanation
Indices: 35291313--35291383 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 17
35291303 CAACCACCGA
35291313 AAGAGAGAAAGAAATGAGAG
1 AAGA-AGAAAGAAA-GA-AG
* *
35291333 AAAGGAGAAGAGAAA-AAT
1 -AAGAAGAA-AGAAAGAAG
35291351 AAGAA-AAAGAGAAGAAG
1 AAGAAGAAAGA-AAGAAG
35291368 AAGAAGAAAGAAAGAA
1 AAGAAGAAAGAAAGAA
35291384 AAAAAGGGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 3 0.07
16 4 0.10
17 16 0.38
18 6 0.14
19 1 0.02
20 4 0.10
21 8 0.19
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (17 bp):
AAGAAGAAAGAAAGAAG
Found at i:35291614 original size:27 final size:27
Alignment explanation
Indices: 35291584--35291636 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
35291574 TAGGATTATG
35291584 TTATAAATTGTTGTGTTTAGTTTAGTT
1 TTATAAATTGTTGTGTTTAGTTTAGTT
35291611 TTATAAATTGTTGTGTTTAGTTTAGT
1 TTATAAATTGTTGTGTTTAGTTTAGT
35291637 ATTTGGTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (27 bp):
TTATAAATTGTTGTGTTTAGTTTAGTT
Found at i:35292025 original size:102 final size:101
Alignment explanation
Indices: 35291887--35292106 Score: 390
Period size: 102 Copynumber: 2.2 Consensus size: 101
35291877 TAGGGTATTA
*
35291887 TGATTTTTTAGTAATGTAATTTAAAAAAATAATTTTATGGTTATTTTATTAGTAATTTATGATTA
1 TGATTTTTTAGTAATGT-ATTTAAAAAAATAATTTTATAGTTATTTTATTAGTAATTTATGATTA
35291952 GGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
65 GGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
*
35291989 TGATTTTTTAGTAATGTATTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTA
1 TGATTTTTTAGTAATGTATTT-AAAAAAATAATTTTATAGTTATTTTATTAGTAATTTATGATTA
35292054 GGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
65 GGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
35292091 TGATTTTTT--TAATGTA
1 TGATTTTTTAGTAATGTA
35292107 ATTCTTATAT
Statistics
Matches: 115, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
100 7 0.06
101 4 0.03
102 104 0.90
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (101 bp):
TGATTTTTTAGTAATGTATTTAAAAAAATAATTTTATAGTTATTTTATTAGTAATTTATGATTAG
GTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
Found at i:35292082 original size:50 final size:49
Alignment explanation
Indices: 35291926--35292082 Score: 129
Period size: 50 Copynumber: 3.1 Consensus size: 49
35291916 TAATTTTATG
35291926 GTTATTTTATTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
1 GTTATTTT-TTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
* * * * * * **** * *
35291976 GTTATGTGTTTT-GTGATTTTTTAGTA-ATGTATTTAAAAAAAATAATTTTATA
1 GTTAT-T-TTTTAGTAATTTATGATTAGGT-TATAT-AAATTGTTAGTGTT-TA
35292028 GTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
1 GTTATTTT-TTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
35292078 GTTAT
1 GTTAT
35292083 GTGTTTTGTG
Statistics
Matches: 75, Mismatches: 24, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
49 1 0.01
50 28 0.37
51 22 0.29
52 23 0.31
53 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.54
Consensus pattern (49 bp):
GTTATTTTTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
Found at i:35292131 original size:15 final size:16
Alignment explanation
Indices: 35292100--35292131 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35292090 GTGATTTTTT
35292100 TAATGTAATTCTTATA
1 TAATGTAATTCTTATA
35292116 TAATGTAATT-TTATA
1 TAATGTAATTCTTATA
35292131 T
1 T
35292132 TATTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TAATGTAATTCTTATA
Found at i:35292135 original size:102 final size:100
Alignment explanation
Indices: 35291818--35292136 Score: 378
Period size: 102 Copynumber: 3.1 Consensus size: 100
35291808 TTTGTTATAG
* * * *
35291818 TTAT-TTATTTTGTTAATAATTTATGGGATTAGG-T-TACAAATTGTTAGTATTTAGTGGTTTAG
1 TTATATTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGT--TAT-G
* * *
35291880 GGTATTATGATTTTTTAGTAATGTAATTTAAAAAAATAATT
61 TGTTTTGTGATTTTTTA-TAATGTAATTTAAAAAAATAATT
* *
35291921 TTATGGTTATTTTATTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTT
1 TTAT-ATTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTT
35291986 TTGTGATTTTTTAGTAATGT-ATTTAAAAAAAATAATT
65 TTGTGATTTTTTA-TAATGTAATTT-AAAAAAATAATT
35292023 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTT
1 TTATA-TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTT
* **
35292088 TTGTGATTTTTT-TAATGTAATTCTTATATAATGTAATT
65 TTGTGATTTTTTATAATGTAA-T-TTA-AAAAAATAATT
35292126 TTATATTATTT
1 TTATATTATTT
35292137 AAAATTTTTT
Statistics
Matches: 193, Mismatches: 13, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
100 6 0.03
101 5 0.03
102 116 0.60
103 28 0.15
104 1 0.01
105 37 0.19
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (100 bp):
TTATATTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTT
TGTGATTTTTTATAATGTAATTTAAAAAAATAATT
Found at i:35293975 original size:29 final size:29
Alignment explanation
Indices: 35293921--35293976 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
35293911 TTTCGACCCT
* **
35293921 AGGGGCAAAATGGTCATTTTGTCAAAGTC
1 AGGGGCAAAATGGTCAGTTTACCAAAGTC
*
35293950 AGGGGCAAAATGGTTAGTTTACCAAAG
1 AGGGGCAAAATGGTCAGTTTACCAAAG
35293977 ATATGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (29 bp):
AGGGGCAAAATGGTCAGTTTACCAAAGTC
Found at i:35294458 original size:46 final size:44
Alignment explanation
Indices: 35294305--35294516 Score: 178
Period size: 46 Copynumber: 4.6 Consensus size: 44
35294295 GTCACTTGTG
* * * *
35294305 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GA
*
35294349 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GAC-ATTGAGA
1 T--GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CTA-CGAGA
* * * *
35294397 CGAGTACTAGTGTAAGACATGTTTGGGACATGCATCAGCTTCGAGA
1 TGAG--CCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGA
*
35294443 TGTAAGCCAGTGTAAGACATGTCTGGGACATGCATTAGCTACGAGA
1 TG--AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGA
* * *
35294489 TGTGCCAGTGTAAGGCCATGTTTGGGAC
1 TGAGCCAGTGTAA-GACATGTCTGGGAC
35294517 GTGGCATCGG
Statistics
Matches: 138, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
44 11 0.08
45 12 0.09
46 65 0.47
47 30 0.22
48 19 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGA
Found at i:35301965 original size:24 final size:24
Alignment explanation
Indices: 35301937--35301982 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
35301927 TGACTTAATT
35301937 TCATTACACCATCCAA-TTCATATA
1 TCATTACA-CATCCAATTTCATATA
* *
35301961 TCATTTCACATTCAATTTCATA
1 TCATTACACATCCAATTTCATA
35301983 GTCTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (24 bp):
TCATTACACATCCAATTTCATATA
Found at i:35304123 original size:94 final size:93
Alignment explanation
Indices: 35303958--35304219 Score: 279
Period size: 94 Copynumber: 2.8 Consensus size: 93
35303948 TGCGTGTGTT
* * *
35303958 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCTAGTGTAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGATAGC-AGTGTAAGACCATGTCTA
* * **
35304022 GGG-CATGGCATCGGCATTGAGACGA-GGGTG
64 GGGACATGGCATCGAC-TTGAGA-GATGAGCC
* *
35304052 AGTGTATGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGT-TAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGATAG-CAGTGTAAGACCATGTCTAG
*
35304116 GGACATGGCATCGACTTGAGATATGAGCC
65 GGACATGGCATCGACTTGAGAGATGAGCC
* *
35304145 AGTGTAAGACCATGTCTGGGACATGGCATCAACT-TGAGAT-ATGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACGAGATGAT-AG-CAGTGTAAGACCATGTC
35304208 T--GGACATGGCAT
62 TAGGGACATGGCAT
35304220 TTGCACCTTA
Statistics
Matches: 145, Mismatches: 15, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
92 1 0.01
93 34 0.23
94 100 0.69
95 10 0.07
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGATAGCAGTGTAAGACCATGTCTAGG
GACATGGCATCGACTTGAGAGATGAGCC
Found at i:35304137 original size:47 final size:47
Alignment explanation
Indices: 35303999--35304219 Score: 240
Period size: 47 Copynumber: 4.7 Consensus size: 47
35303989 CACATTATGA
* * *
35303999 GAGCTAGTGTAAGACCATGTCTAGGG-CATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGAC-TTGAGA-TAT
* ** * * *
35304047 GGGTGAGTGTATGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-AT
*
35304094 -AGTCAGTGTAAGACCATGT-TAGGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGACTTGAGATAT
*
35304140 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
35304187 GAGCCAGTGTAAGACCATGTCT-GGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
35304220 TTGCACCTTA
Statistics
Matches: 151, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
45 1 0.01
46 40 0.26
47 91 0.60
48 19 0.13
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
Found at i:35310088 original size:50 final size:50
Alignment explanation
Indices: 35310029--35310129 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
35310019 GTGGTTACCG
* *
35310029 AGAGAGTGGGGCCAGTTGCTTATCGATTGGATTTACCGCTAAAATTGGAA
1 AGAGAGTGGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
35310079 AGAGAGTGGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
1 AGAGAGTGGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
35310129 A
1 A
35310130 AGATTCACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (50 bp):
AGAGAGTGGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
Found at i:35311270 original size:29 final size:30
Alignment explanation
Indices: 35311237--35311294 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
35311227 AAATCAATTT
*
35311237 TCAA-GTATAGGGGGAAAATGGTCATTTTG
1 TCAAGGTATAAGGGGAAAATGGTCATTTTG
*
35311266 TCAAGGTCTAAGGGGAAAATGGTCATTTT
1 TCAAGGTATAAGGGGAAAATGGTCATTTT
35311295 ACCTAGTACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (30 bp):
TCAAGGTATAAGGGGAAAATGGTCATTTTG
Found at i:35311798 original size:47 final size:47
Alignment explanation
Indices: 35311644--35311855 Score: 161
Period size: 47 Copynumber: 4.5 Consensus size: 47
35311634 TGCGTGAGCT
* * *
35311644 AGTGTAAGA-CATGTCTAGGACATGCATCGGCCAC-ATTATGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGA-GATGAGAGTC
* ** * * * * *
35311689 TAGCGTAAGACCATGTCCAGGACATGGCATCAGC-ATTGAGACGAGGGTG
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGTC
* *
35311738 AGTGTATGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGAGAGTC
* * *
35311784 AGTGTAAGACCATGT-TAGGGACATGGCATCGACT-TGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCT-GGGACAT-GCATCGGCTACGAGATGA-GAGTC
35311831 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
35311856 GCATTGGCAC
Statistics
Matches: 132, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
46 34 0.26
47 69 0.52
48 28 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGAGAGTC
Found at i:35311845 original size:94 final size:95
Alignment explanation
Indices: 35311638--35311855 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 95
35311628 GTCACTTGCG
* * *
35311638 TGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCTAGCGTAAGACCAT
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGCGTAAGACCAT
35311703 GTCCAGGACATGGCATCAGCATTGAGACGA
66 GTCCAGGACATGGCATCAGCATTGAGACGA
* ** * * * *
35311733 -GGGTGAGTGTATGACATGTCTGGGACATGCATCGGCTACGA-GATGATAG-TCAGTGTAAGACC
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCT-AGCGTAAGACC
* *
35311795 ATGT-TAGGGACATGGCATC-G-ACTTGAGA-TA
64 ATGTCCA-GGACATGGCATCAGCA-TTGAGACGA
35311825 TGAGCCAGTGTAAGACCATGTCTGGGACATG
1 TGAGCCAGTGTAAGA-CATGTCTGGGACATG
35311856 GCATTGGCAC
Statistics
Matches: 102, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
92 2 0.02
93 19 0.19
94 80 0.78
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (95 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGCGTAAGACCAT
GTCCAGGACATGGCATCAGCATTGAGACGA
Found at i:35314723 original size:7 final size:7
Alignment explanation
Indices: 35314708--35314746 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
35314698 TCATCAAAGC
*
35314708 AAAACAA
1 AAAATAA
35314715 AAAATAA
1 AAAATAA
35314722 AAAATAA
1 AAAATAA
35314729 AAAA-ATA
1 AAAATA-A
35314736 AAAATAA
1 AAAATAA
35314743 AAAA
1 AAAA
35314747 AGAAGGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAATAA
Found at i:35314740 original size:14 final size:15
Alignment explanation
Indices: 35314713--35314747 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
35314703 AAAGCAAAAC
35314713 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
35314728 AAAAAAT-AAAAATA
1 AAAAAATAAAAAATA
35314742 AAAAAA
1 AAAAAA
35314748 GAAGGAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:35317745 original size:48 final size:46
Alignment explanation
Indices: 35317683--35317851 Score: 178
Period size: 48 Copynumber: 3.6 Consensus size: 46
35317673 TGATATGTGT
*
35317683 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG-TA-ATAG
* * * * **
35317731 GCCAGTGTAAGACATATCTGGGACATGCATCAGCATTGAG-ACGAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTAATAG
* * *
35317776 AACTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGGTAGATAA
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-AGTA-ATAG
* *
35317825 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
35317852 GCGTTGGCTT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
45 2 0.02
46 34 0.34
47 1 0.01
48 61 0.62
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTAATAG
Found at i:35317931 original size:49 final size:50
Alignment explanation
Indices: 35317872--35317998 Score: 177
Period size: 49 Copynumber: 2.6 Consensus size: 50
35317862 ATCATGTGTT
* *
35317872 AGTGTAAGACCTGTCTGGGACATGGCATTGAGAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTCAGACTCAATAGATGAAAGCC
* * * *
35317921 AGTGTAAGACCTGTCTGGGACATAGCA-TCAGCCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTCAGACTCAATAGATGAAAGCC
35317970 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
35317999 CGGCATCTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 4 0.06
49 49 0.72
50 15 0.22
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTCAGACTCAATAGATGAAAGCC
Found at i:35325154 original size:19 final size:19
Alignment explanation
Indices: 35325130--35325175 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
35325120 ACATGGACAC
35325130 TTTTATTTGTTAATTTTGT
1 TTTTATTTGTTAATTTTGT
35325149 TTTTATTTGTTAATTTTGT
1 TTTTATTTGTTAATTTTGT
*
35325168 CTTTATTT
1 TTTTATTT
35325176 ACTGGATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (19 bp):
TTTTATTTGTTAATTTTGT
Found at i:35329794 original size:96 final size:96
Alignment explanation
Indices: 35329650--35330027 Score: 415
Period size: 96 Copynumber: 3.9 Consensus size: 96
35329640 CCATGGCGAA
*
35329650 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGTGTCAGTGTAAGAC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGTGCCAGTGTAAGAC
* *
35329715 CATGTCTGGGACATGGCATCGACACCGGTAT
66 CATGTTTGGGACATGGCATCGGCACCGGTAT
* * *
35329746 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATAGGTGTCAGTGTAAGAC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGTGCCAGTGTAAGAC
* *
35329811 CATGTTTGGGACATGCCATCGGTACCGGTAT
66 CATGTTTGGGACATGGCATCGGCACCGGTAT
* * ** * **
35329842 ATGAGAGCCAATGTAAGACCATGTCTAAGACATGGCATCAGCGTCAATATGTGAGCCAGTGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGT--GCCAGTGTAAG
* * **
35329907 ACTATGTTTGGGACATGGCATAGGC-CTTG-AT
64 ACCATGTTTGGGACATGGCATCGGCACCGGTAT
* * * ** * * *
35329938 AT--GTGTTAGTGAAAGACCATGAT-TGGGACATGGTGTCTGCACTGGTATATGAGAGCCAGTGT
1 ATGAGAGCTAGTGTAAGACCATG-TCTGGGACATGGCATCAGC-CTTG-ATAT--GTGCCAGTGT
35330000 AAGACCATGTTTGGGACATGGCATCGGC
61 AAGACCATGTTTGGGACATGGCATCGGC
35330028 CTCAATATGT
Statistics
Matches: 237, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
94 26 0.11
95 2 0.01
96 175 0.74
97 2 0.01
98 32 0.14
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (96 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGTGCCAGTGTAAGAC
CATGTTTGGGACATGGCATCGGCACCGGTAT
Found at i:35330085 original size:144 final size:144
Alignment explanation
Indices: 35329704--35330085 Score: 471
Period size: 144 Copynumber: 2.6 Consensus size: 144
35329694 TGATATGTGT
* * * *
35329704 CAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-CGGTATATGAGAGCTAGTGTAAGACCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC--AATATGTGAGCCAGTGTAAGACCAT
* * * *
35329768 GTCTGGGACATGGCATCGGCCTTGATAGGTGTCAGTGTAAGACCATGTTTGGGACATGCCATCGG
63 GTTTGGGACATGGCATCGGCCTTGATATGTGTCAGTGAAAGACCATGATTGGGACATGCCATCGG
*
35329833 TACCGGTATATGAGAGC
128 CACCGGTATATGAGAGC
* ** * * *
35329850 CAATGTAAGACCATGTCTAAGACATGGCATCAGCGTCAATATGTGAGCCAGTGTAAGACTATGTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTT
* * *** *
35329915 TGGGACATGGCATAGGCCTTGATATGTGTTAGTGAAAGACCATGATTGGGACATGGTGTCTGCAC
66 TGGGACATGGCATCGGCCTTGATATGTGTCAGTGAAAGACCATGATTGGGACATGCCATCGGCAC
*
35329980 TGGTATATGAGAGC
131 CGGTATATGAGAGC
* *
35329994 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAAACCATGTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTT
* * *
35330059 T-GGAGCATGGCACCGGCATTGTTATGT
66 TGGGA-CATGGCATCGGCCTTGATATGT
35330086 AAGCTAGTGT
Statistics
Matches: 200, Mismatches: 34, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
143 3 0.01
144 167 0.83
146 30 0.15
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (144 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGGCCTTGATATGTGTCAGTGAAAGACCATGATTGGGACATGCCATCGGCAC
CGGTATATGAGAGC
Found at i:35330095 original size:96 final size:96
Alignment explanation
Indices: 35329650--35330117 Score: 366
Period size: 96 Copynumber: 4.9 Consensus size: 96
35329640 CCATGGCGAA
* * * * *
35329650 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGT--GTCAGTGTAAG
1 ATGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTAAGCCAGTGTAAG
* *
35329713 ACCATGTCTGGGACATGGCATCGACAC-CGGTAT
66 ACCATGTTTGGGACATGGCATCGGC-CTC--TAT
* * * * *
35329746 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATAGGT--GTCAGTGTAAG
1 ATGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTAAGCCAGTGTAAG
* **
35329809 ACCATGTTTGGGACATGCCATCGGTACCGGTAT
66 ACCATGTTTGGGACATGGCATCGG--CCTCTAT
* * ** * * ** *
35329842 ATGAGAGCCAATGTAAGACCATGTCTAAGACATGGCATCAGCGTCAATATGTGAGCCAGTGTAAG
1 ATGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTAAGCCAGTGTAAG
* *
35329907 ACTATGTTTGGGACATGGCATAGGCCT-TGAT
66 ACCATGTTTGGGACATGGCATCGGCCTCT-AT
* ** ** * *
35329938 AT--GTGTTAGTG-AAAGACCATGAT-TGGGACATGGTGTCTGCACTGGTATATG-AGAGCCAGT
1 ATGAGAGCCAGTGTAAA-ACCATG-TCTGGGACATGGCATCGGCA-TTG-ATATGTA-AGCCAGT
*
35329998 GTAAGACCATGTTTGGGACATGGCATCGGCCTCAAT
61 GTAAGACCATGTTTGGGACATGGCATCGGCCTCTAT
* * * * *
35330034 ATGTGAGCCAGTGTAAAACCATGT-TTGGAGCATGGCACCGGCATTGTTATGTAAGCTAGTGTAA
1 ATGAGAGCCAGTGTAAAACCATGTCTGGGA-CATGGCATCGGCATTGATATGTAAGCCAGTGTAA
* * *
35330098 AACCATGTCTAGGACATGGC
65 GACCATGTTTGGGACATGGC
35330118 TTCGACATGA
Statistics
Matches: 304, Mismatches: 51, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
93 2 0.01
94 23 0.08
95 3 0.01
96 211 0.69
97 9 0.03
98 53 0.17
99 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
ATGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTAAGCCAGTGTAAG
ACCATGTTTGGGACATGGCATCGGCCTCTAT
Found at i:35330105 original size:240 final size:240
Alignment explanation
Indices: 35329654--35330117 Score: 600
Period size: 240 Copynumber: 1.9 Consensus size: 240
35329644 GGCGAAATGA
* *
35329654 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGTGTCAGTGTAAGACCATG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGTGTCAGTGAAAGACCATG
*
35329719 TCTGGGACATGGCATCGACACCGGTATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
66 TCTGGGACATGGCATCGACACCGGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
** * * * * *
35329784 CGGCCTTGATAGGTGTCAGTGTAAGACCATGTTTGGGACATGCCATCGGTACCGGTATATGAGAG
131 CGGCCTCAATAGGAGCCAGTGTAAAACCATGTTTGGGACATGCCACCGGCACCGGTATATGAGAG
*
35329849 CCAATGTAAGACCATGTCTAAGACATGGCATCAGCGTCAATATGT
196 CCAATGTAAAACCATGTCTAAGACATGGCATCAGCGTCAATATGT
* * *
35329894 GAGCCAGTGTAAGACTATGTTTGGGACATGGCAT-AGGCCTTGATATGTGTTAGTGAAAGACCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA-GCCTTGATATGTGTCAGTGAAAGACCAT
** * *
35329958 GAT-TGGGACATGGTGTCTG-CACTGGTATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGG
65 G-TCTGGGACATGGCATC-GACACCGGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGG
* **
35330021 CATCGGCCTCAATATGTGAGCCAGTGTAAAACCATGTTT-GGAGCATGGCACCGGCA-TTGT-TA
128 CATCGGCCTCAATA-G-GAGCCAGTGTAAAACCATGTTTGGGA-CATGCCACCGGCACCGGTATA
* * *
35330083 TGTA-AGCTAGTGTAAAACCATGTCTAGGACATGGC
190 TG-AGAGCCAATGTAAAACCATGTCTAAGACATGGC
35330118 TTCGACATGA
Statistics
Matches: 193, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
239 1 0.01
240 154 0.80
241 9 0.05
242 29 0.15
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (240 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATGTGTCAGTGAAAGACCATG
TCTGGGACATGGCATCGACACCGGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
CGGCCTCAATAGGAGCCAGTGTAAAACCATGTTTGGGACATGCCACCGGCACCGGTATATGAGAG
CCAATGTAAAACCATGTCTAAGACATGGCATCAGCGTCAATATGT
Found at i:35339043 original size:47 final size:48
Alignment explanation
Indices: 35338964--35339188 Score: 171
Period size: 47 Copynumber: 4.8 Consensus size: 48
35338954 TTGGGTTATG
* * * * *
35338964 TGAGAGCCAGTATAAGACCGTGTCCGGGACATGGCATTAGCATTGA-GA
1 TGAGGGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATTGATGA
* * * *
35339012 CGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACATCATGA
1 TGAGGGCCAGTGTAAGACATGTCTGGGACATGGCATCAG-CA-TTGATGA
* * * * *
35339061 T-A-GCCCA-TATAAGACCATGTCTGGGACATGGCATCGGCGTAGA-GA
1 TGAGGGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATTGATGA
* *
35339106 TGAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCAG-ATTCGATGA
1 TGAGGGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATT-GATGA
** *
35339153 TGATAGCCAGTGTAAGACGTGTCTGGGACAT-GCATC
1 TGAGGGCCAGTGTAAGACATGTCTGGGACATGGCATC
35339189 GGCTAAGTTT
Statistics
Matches: 138, Mismatches: 29, Indels: 21
0.73 0.15 0.11
Matches are distributed among these distances:
45 4 0.03
46 22 0.16
47 82 0.59
48 28 0.20
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
TGAGGGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGATGA
Found at i:35339135 original size:94 final size:94
Alignment explanation
Indices: 35338968--35339282 Score: 331
Period size: 94 Copynumber: 3.4 Consensus size: 94
35338958 GTTATGTGAG
* ** * * *
35338968 AGCCAGTATAAGACCGTGTCCGGGACATGGCATTAGCATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTATAAGACCGTGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
35339033 TCTGGGACATGCATCAGCCAC-ATCATGAT
65 TCTGGGACATGCATCAGCCACGATCATGAT
*
35339062 AGCCCA-TATAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCTAGTGTAAGACAT
1 AG-CCAGTATAAGACCGTGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACAT
*** *
35339126 GTCTGGGACATGCATCAGATTCGATGATGAT
64 GTCTGGGACATGCATCAGCCACGATCATGAT
* * *
35339157 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCA-TGCTA-TGTAAGACATG
1 AGCCAGTATAAGACCGTGTCTGGGACATGGCATCGGCTAGAG-ATGAGTGCTAGTGTAAGACATG
* *
35339217 TCTGGGACATGCATCAG-CACGTATACACGAG
65 TCTGGGACATGCATCAGCCACG-AT-CATGAT
* * * * *
35339248 AGCTAGTGTAAGACCATGCCTGGAACATGGCATCG
1 AGCCAGTATAAGACCGTGTCTGGGACATGGCATCG
35339283 ACCTCGATGG
Statistics
Matches: 188, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
89 2 0.01
90 30 0.16
91 22 0.12
92 15 0.08
93 14 0.07
94 87 0.46
95 18 0.10
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGCCAGTATAAGACCGTGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCACGATCATGAT
Found at i:35340201 original size:55 final size:55
Alignment explanation
Indices: 35340092--35340204 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 55
35340082 TTTTTAAATT
* * **
35340092 AGTATTGTCCACGGTTAGGCCACACGGACATGTGCCATAGCCGTGTCTATAAGTC
1 AGTATTGCCCACGGGTAGGCCACACGGACATGTGCCATAGCCGTCCCTATAAGTC
* * *
35340147 AGTATTGCCCACGGGTAGGCCATACGGGCATGTGTCAT-GCCCGTACCCTA-AAGTC
1 AGTATTGCCCACGGGTAGGCCACACGGACATGTGCCATAG-CCGT-CCCTATAAGTC
35340202 AGT
1 AGT
35340205 GTCGCACACG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
54 1 0.02
55 45 0.92
56 3 0.06
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.24
Consensus pattern (55 bp):
AGTATTGCCCACGGGTAGGCCACACGGACATGTGCCATAGCCGTCCCTATAAGTC
Found at i:35340883 original size:69 final size:70
Alignment explanation
Indices: 35340754--35340883 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 70
35340744 CTGTTGGAAT
* * * ***
35340754 AGTAAACATAAGGAAACATAAGGTGTAAAACCATTGTTGGACTATGGCCACCAGTGTAGTCTGTC
1 AGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTACGGCCACCAACATAGTCTGTC
35340819 AGGAC
66 AGGAC
* * *
35340824 AGTAAACAT-GGGAAACGTAAGGTGTAAGACCATAGCTGGACTACGGCCACCAACATAGTC
1 AGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTACGGCCACCAACATAGTC
35340884 CGCTGGGACA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
69 42 0.82
70 9 0.18
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (70 bp):
AGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTACGGCCACCAACATAGTCTGTC
AGGAC
Found at i:35348570 original size:35 final size:35
Alignment explanation
Indices: 35348525--35348608 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
35348515 TCTTCGGAGC
35348525 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
* *
35348560 CATTGGTGTGTTTCGGATGGATTAGCTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
35348595 CATCTGGTGTGTTT
1 CAT-TGGTGTGTTT
35348609 ATGTTGGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 36 0.78
36 10 0.22
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (35 bp):
CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
Found at i:35349438 original size:20 final size:20
Alignment explanation
Indices: 35349413--35349454 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
35349403 TTAAACCGGT
*
35349413 AACTTAGGAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35349433 AACTTAGAAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35349453 AA
1 AA
35349455 TACAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (20 bp):
AACTTAGAAAAATTTTACAA
Found at i:35352064 original size:34 final size:34
Alignment explanation
Indices: 35352021--35352089 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
35352011 ATTAATGATA
35352021 CTAAGTTTATCACACCTTATTAATTCATTTTCAC
1 CTAAGTTTATCACACCTTATTAATTCATTTTCAC
35352055 CTAAGTTTATCACACCTTATTAATTCATTTTCAC
1 CTAAGTTTATCACACCTTATTAATTCATTTTCAC
35352089 C
1 C
35352090 ACATTCGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (34 bp):
CTAAGTTTATCACACCTTATTAATTCATTTTCAC
Found at i:35352763 original size:46 final size:43
Alignment explanation
Indices: 35352655--35352823 Score: 142
Period size: 46 Copynumber: 3.7 Consensus size: 43
35352645 AACCTGACGC
* * * * *
35352655 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCCAATG
1 CATGTCCTAGACATGTCTTACACTAGC---TCTCTC-TAATGCC-ATG
*
35352703 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTCTC-TCT-AATGCC-ATG
* *
35352749 CATGTCCTAGACATGTCTTACACTGGCTCTC-ATAATGTGGTCCATG
1 CATGTCCTAGACATGTCTTACACTAGCTCTCTCTAA--T-G-CCATG
*
35352795 CATGTCCTAGACATGTCTTACACTGGCTC
1 CATGTCCTAGACATGTCTTACACTAGCTC
35352824 ACATACCACC
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 4 0.04
46 71 0.68
47 2 0.02
48 25 0.24
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (43 bp):
CATGTCCTAGACATGTCTTACACTAGCTCTCTCTAATGCCATG
Found at i:35352769 original size:94 final size:92
Alignment explanation
Indices: 35352655--35352823 Score: 225
Period size: 92 Copynumber: 1.8 Consensus size: 92
35352645 AACCTGACGC
* *
35352655 CATGTCCTAGACAGGTCTTACACTAGCT-T-GTATATCTTGAGGCCAATGCATGTCCCAGACATG
1 CATGTCCTAGACAGGTCTTACACTAGCTCTCATA-AT-GTG-GGCC-ATGCATGTCCCAGACATG
35352718 TCTTACACTAGCTCTCGTCTCAATGCCGATG
62 TCTTACACTAGCTCTCGTCTCAATGCCGATG
* * * *
35352749 CATGTCCTAGACATGTCTTACACTGGCTCTCATAATGTGGTCCATGCATGTCCTAGACATGTCTT
1 CATGTCCTAGACAGGTCTTACACTAGCTCTCATAATGTGGGCCATGCATGTCCCAGACATGTCTT
*
35352814 ACACTGGCTC
66 ACACTAGCTC
35352824 ACATACCACC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
92 30 0.45
93 3 0.05
94 28 0.42
95 3 0.05
96 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (92 bp):
CATGTCCTAGACAGGTCTTACACTAGCTCTCATAATGTGGGCCATGCATGTCCCAGACATGTCTT
ACACTAGCTCTCGTCTCAATGCCGATG
Found at i:35353581 original size:29 final size:29
Alignment explanation
Indices: 35353539--35353597 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
35353529 TAAAATTCAG
*
35353539 CAAACAACATAAATCTTTTCATGGAAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35353568 CAAACAACATAAATATTTTCATGGAAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35353597 C
1 C
35353598 CCTATACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (29 bp):
CAAACAACATAAATATTTTCATGGAAAAT
Found at i:35367055 original size:34 final size:29
Alignment explanation
Indices: 35367014--35367075 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 29
35367004 GTTTTAGATT
35367014 TAGTTTTCGCTAGGGTTTCTTTAGTTTTTCTCTA
1 TAGTTTT--CTAGGG-TT-TTTA-TTTTTCTCTA
35367048 TAGTTTTCTAGGGTTTTTATTTTTCTCT
1 TAGTTTTCTAGGGTTTTTATTTTTCTCT
35367076 TCTTCTACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 9 0.32
30 4 0.14
31 2 0.07
32 6 0.21
34 7 0.25
ACGTcount: A:0.11, C:0.13, G:0.16, T:0.60
Consensus pattern (29 bp):
TAGTTTTCTAGGGTTTTTATTTTTCTCTA
Found at i:35371934 original size:47 final size:45
Alignment explanation
Indices: 35371874--35372086 Score: 160
Period size: 47 Copynumber: 4.5 Consensus size: 45
35371864 ATAGCCCATA
*
35371874 TAAGACCACGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCGTAGAGATGA-TGCTAGTG
** * *
35371922 TAAGACATGTCTGGGACATGCATCGGATTCGATGATGATAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCGTAGA-GATGAT-GCTAGTG
* * * ** * *
35371969 TAAAACGTGTATGATACATGCATCGGC-TA-AGTTTCATGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCGTAGAG-ATGATGCTAGTG
* * * * *
35372013 TAAGACATGTCTGGGACATGCATCAGCACGTATACACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATC-G-GCGTAGAGATGA-TGCTAGTG
35372061 TAAGACCATGTCTGGGACATGGCATC
1 TAAGA-CATGTCTGGGACAT-GCATC
35372087 AGCCTCGATG
Statistics
Matches: 129, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
44 26 0.20
45 5 0.04
46 13 0.10
47 48 0.37
48 18 0.14
49 14 0.11
50 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATCGGCGTAGAGATGATGCTAGTG
Found at i:35373670 original size:68 final size:69
Alignment explanation
Indices: 35373544--35373677 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 69
35373534 TGGCCTCCTA
* * *
35373544 GTAGTCTGTTGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATTGTTGGACTATGGCCA
1 GTAGTCTGTCGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCA
35373609 CAGT
66 CAGT
* * * *
35373613 GTAGTCTGTCGGGACAGTAAACAT-GGGAAACGTAAGGTGTAAGACCATAGCTGGACTATGGCCA
1 GTAGTCTGTCGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCA
35373677 C
66 C
35373678 CAACATAGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 36 0.62
69 22 0.38
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (69 bp):
GTAGTCTGTCGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCA
CAGT
Found at i:35373687 original size:69 final size:69
Alignment explanation
Indices: 35373545--35373697 Score: 182
Period size: 69 Copynumber: 2.2 Consensus size: 69
35373535 GGCCTCCTAG
* * * *
35373545 TAGTCTGTTGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATTGTTGGACTATGGCCAC
1 TAGTCTGTCGGGACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCAC
***
35373610 AGTG
66 AACA
* * *
35373614 TAGTCTGTCGGGACAGTAAACAT-GGGAAACGTAAGGTGTAAGACCATAGCTGGACTATGGCCAC
1 TAGTCTGTCGGGACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCA-
35373678 CAACA
65 CAACA
* *
35373683 TAGTCCGCCGGGACA
1 TAGTCTGTCGGGACA
35373698 ATACATATGG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 35 0.49
69 36 0.51
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (69 bp):
TAGTCTGTCGGGACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCAC
AACA
Found at i:35381367 original size:35 final size:35
Alignment explanation
Indices: 35381321--35381404 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 35
35381311 TCTTCGGAGC
35381321 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
* * *
35381356 TATTGGTGTGTTTCGGATGGATTAGCTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
*
35381391 CATCTAGTGTGTTT
1 CAT-TGGTGTGTTT
35381405 ATGTTGGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 34 0.79
36 9 0.21
ACGTcount: A:0.17, C:0.11, G:0.27, T:0.45
Consensus pattern (35 bp):
CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
Found at i:35382234 original size:20 final size:20
Alignment explanation
Indices: 35382209--35382250 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
35382199 TTAAACTGGT
*
35382209 AACTTAGGAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35382229 AACTTAGAAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35382249 AA
1 AA
35382251 TATAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (20 bp):
AACTTAGAAAAATTTTACAA
Found at i:35385333 original size:48 final size:49
Alignment explanation
Indices: 35385271--35385397 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
35385261 GCACATCAAA
*
35385271 GTCGATGCCATGTCCCAGACAGGTCTTACATTGACT-TCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GT
* * * *
35385319 G-CTGATGTCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGT
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
*
35385368 GTCGATGCCATGTCCTAGACAGGTCTTACA
1 GTCGATGCCATGTCCCAGACAGGTCTTACA
35385398 GTAACACACA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
47 1 0.01
48 31 0.46
49 34 0.51
50 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
Found at i:35386346 original size:29 final size:29
Alignment explanation
Indices: 35386304--35386362 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
35386294 TAAAATTCAG
* *
35386304 CAAACAACATAAATCTTTTCATGGCAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35386333 CAAACAACATAAATATTTTCATGGAAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35386362 C
1 C
35386363 CCTATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.27
Consensus pattern (29 bp):
CAAACAACATAAATATTTTCATGGAAAAT
Found at i:35395881 original size:69 final size:69
Alignment explanation
Indices: 35395788--35396003 Score: 256
Period size: 68 Copynumber: 3.1 Consensus size: 69
35395778 ATAGTAGCCC
* * * * * *
35395788 GTCGGGACAGTAAACACTGGGAAACATAAGGTGTAAGACCGTAGTTGGGCTATGGCCACCAGTGT
1 GTCGGGACAGTAAAAAC-GAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGT
35395853 AGTCT
65 AGTCT
* * *
35395858 GTCGAGACAGTAAAAACGAGAAACGTAAGGTGTAAGGCCATAGTTGGACTATGGCCTCTAGTGTA
1 GTCGGGACAGTAAAAACGAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTA
35395923 GT-T
66 GTCT
* * * * * * *
35395926 CATCGGGATAGT-AAAACAAGAAATGTAAGGTGTATGACCATAGTTAGACTATAGCCACTAGTGT
1 -GTCGGGACAGTAAAAACGAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGT
35395990 AGTCT
65 AGTCT
35395995 GTCGGGACA
1 GTCGGGACA
35396004 ATAATACAGG
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
68 56 0.46
69 52 0.42
70 15 0.12
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (69 bp):
GTCGGGACAGTAAAAACGAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTA
GTCT
Found at i:35395976 original size:68 final size:70
Alignment explanation
Indices: 35395808--35395992 Score: 223
Period size: 69 Copynumber: 2.7 Consensus size: 70
35395798 TAAACACTGG
* * * * *
35395808 GAAACATAAGGTGTAAGACCGTAGTTGGGCTATGGCCACCAGTGTAG-TCTGTCGAGACAGTAAA
1 GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGTTCTATCGAGACAGTAAA
*
35395872 AACGA
66 AACAA
* * * *
35395877 GAAACGTAAGGTGTAAGGCCATAGTTGGACTATGGCCTCTAGTGTAGTTC-ATCGGGATAGT-AA
1 GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGTTCTATCGAGACAGTAAA
35395940 AACAA
66 AACAA
* * * *
35395945 GAAATGTAAGGTGTATGACCATAGTTAGACTATAGCCACTAGTGTAGT
1 GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGT
35395993 CTGTCGGGAC
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
68 48 0.48
69 49 0.49
70 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (70 bp):
GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGTTCTATCGAGACAGTAAA
AACAA
Found at i:35396167 original size:54 final size:54
Alignment explanation
Indices: 35396024--35396169 Score: 157
Period size: 54 Copynumber: 2.6 Consensus size: 54
35396014 GTTGTATTGT
* * * *
35396024 GTAAGACCATAGCTGAAAGATGTTATCGTATCAAGAGATGAAATGAAAATAAAATGA
1 GTAAGACCATGGCTGAAAGATGTTATGGCATC---ATATGAAATGAAAATAAAATGA
* *** * * *
35396081 GTAAGACCATGGCTAAAAGACACTATGACATCATATGAATTGACAATAAAATGA
1 GTAAGACCATGGCTGAAAGATGTTATGGCATCATATGAAATGAAAATAAAATGA
*
35396135 GTAAGACCATGGTTGAAAGATGTTATGGCATCATA
1 GTAAGACCATGGCTGAAAGATGTTATGGCATCATA
35396170 GAGAGTTTGA
Statistics
Matches: 72, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
54 48 0.67
57 24 0.33
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (54 bp):
GTAAGACCATGGCTGAAAGATGTTATGGCATCATATGAAATGAAAATAAAATGA
Found at i:35399910 original size:47 final size:47
Alignment explanation
Indices: 35399859--35400341 Score: 678
Period size: 47 Copynumber: 10.1 Consensus size: 47
35399849 TTAGGATTTT
* *
35399859 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
35399906 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
35399957 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
35400004 CTGTGATGGATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
35400051 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *** *
35400098 ATGTGATGAATCTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
35400151 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
35400198 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
35400245 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
35400292 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
35400339 ATG
1 ATG
35400342 CGGAACGTGT
Statistics
Matches: 393, Mismatches: 33, Indels: 20
0.88 0.07 0.04
Matches are distributed among these distances:
47 306 0.78
48 1 0.00
49 2 0.01
51 42 0.11
52 1 0.00
53 41 0.10
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:35399970 original size:147 final size:142
Alignment explanation
Indices: 35399859--35400341 Score: 609
Period size: 147 Copynumber: 3.4 Consensus size: 142
35399849 TTAGGATTTT
*
35399859 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
*** ** *
35399924 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG--CGTAT-GTGT
64 C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATTGT
35399986 GATAAGGCCGAATGGCCA
127 GATAAGG-CGAAT-GCCA
* *
35400004 CTGTGATGGATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
35400069 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATCTGAACCTGTATATATATATGCGTG
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-A-ATATATAT-TGTG
35400134 ATAAGGCCGAATGGCCA
128 ATAAGG-CGAAT-GCCA
*
35400151 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
35400216 TGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATG--CATATA-TGAGATA
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATTGTGATA
35400278 AGGCCGAATGGCCA
131 AGG-CGAAT-GCCA
* ** * * *
35400292 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
35400342 CGGAACGTGT
Statistics
Matches: 306, Mismatches: 26, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
141 109 0.36
143 6 0.02
145 63 0.21
147 128 0.42
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (142 bp):
ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATTGTGATA
AGGCGAATGCCA
Found at i:35400167 original size:194 final size:193
Alignment explanation
Indices: 35399859--35400341 Score: 780
Period size: 194 Copynumber: 2.5 Consensus size: 193
35399849 TTAGGATTTT
* *
35399859 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
35399924 CG-TATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
66 TGATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
* * *
35399988 TAAGGCCGAATGGCCACTGTGATGGATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCA
131 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCAAATGGCCA
*
35400051 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATCTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
35400116 TGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
66 TG-ATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
*
35400181 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
130 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCAAATGGCCA
* * * *
35400245 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
35400310 TG--A-ATATAT--GTGGTAAGGCCGAATGGCTAATG
66 TGATATATATATGCGTGATAAGGCCGAATGGCCAATG
35400342 CGGAACGTGT
Statistics
Matches: 273, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
188 21 0.08
190 6 0.02
191 1 0.00
192 63 0.23
194 182 0.67
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (193 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TGATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCAAATGGCCA
Found at i:35400178 original size:23 final size:23
Alignment explanation
Indices: 35400151--35400225 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
35400141 CGAATGGCCA
35400151 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
35400174 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
35400198 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
35400221 ATGTG
1 ATGTG
35400226 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:35400404 original size:46 final size:45
Alignment explanation
Indices: 35400315--35400405 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 45
35400305 GAACATGAAT
* * *
35400315 ATATGTGGTAAGGCCGAATGGCTAATGCGGAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGGAAC-TGTACGAGATGG
*
35400361 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATA-TGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCG-GA-ACTGTACGAGATG
35400406 TGTATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 36 0.92
47 2 0.05
48 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.25
Consensus pattern (45 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGGAACTGTACGAGATGG
Found at i:35400734 original size:37 final size:37
Alignment explanation
Indices: 35400552--35400733 Score: 319
Period size: 37 Copynumber: 4.9 Consensus size: 37
35400542 GGAAATATAT
35400552 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35400589 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
35400626 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35400663 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
35400700 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
35400734 TCATCTGAGC
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35404485 original size:28 final size:29
Alignment explanation
Indices: 35404421--35404520 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
35404411 GAAAGCATGT
35404421 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
35404450 ATATGAATGTGATTTGGGCC-AATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
35404478 ATACGAATGTGATTTTGGCCTAATAGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
35404507 ATATGAATGAGATT
1 ATATGAATGTGATT
35404521 GGGTCATATG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 26 0.41
29 38 0.59
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:35404513 original size:57 final size:57
Alignment explanation
Indices: 35404425--35404533 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
35404415 GCATGTATAT
* * *
35404425 GAATGTGATTTGGGCCTAATGGGCCATATGAATGTGATTTGGGCCA-ATGGGCCATAC
1 GAATGTGATTTGGGCCTAATAGACCATATGAATGAGA-TTGGGCCATATGGGCCATAC
* *
35404482 GAATGTGATTTTGGCCTAATAGACCATATGAATGAGATTGGGTCATATGGGC
1 GAATGTGATTTGGGCCTAATAGACCATATGAATGAGATTGGGCCATATGGGC
35404534 TATATGCATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 7 0.15
57 39 0.85
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (57 bp):
GAATGTGATTTGGGCCTAATAGACCATATGAATGAGATTGGGCCATATGGGCCATAC
Found at i:35406532 original size:28 final size:28
Alignment explanation
Indices: 35406491--35406544 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
35406481 CGATTTGCTT
*
35406491 CCTCCGTTTCTTTTCTTTTCTTTTCTGC
1 CCTCCGTTTATTTTCTTTTCTTTTCTGC
*
35406519 CCTCTGTTTATTTTCTTTTCTTTTCT
1 CCTCCGTTTATTTTCTTTTCTTTTCT
35406545 ACCGATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.02, C:0.28, G:0.06, T:0.65
Consensus pattern (28 bp):
CCTCCGTTTATTTTCTTTTCTTTTCTGC
Found at i:35406565 original size:38 final size:39
Alignment explanation
Indices: 35406518--35406591 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
35406508 TTCTTTTCTG
*
35406518 CCCTCTGTTTATTTTC-TTTTCTTTTCTACCGATTTGCT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
* * * *
35406556 CCCTTTGTTTCTTCTCATTTTCTTTTTTGCCGATTT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTT
35406592 CTGAGTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 13 0.43
39 17 0.57
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.59
Consensus pattern (39 bp):
CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
Found at i:35410186 original size:16 final size:16
Alignment explanation
Indices: 35410165--35410232 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
35410155 GATTTGCTAT
35410165 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35410181 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
35410197 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
35410213 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35410229 TACA
1 TACA
35410233 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35417339 original size:42 final size:42
Alignment explanation
Indices: 35417292--35417388 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
35417282 TCCTCACCTA
* * *
35417292 TGTAACTCACTGAGTAGCCCTACACGCCTATGTGCTAGGCCG
1 TGTAACTCACTGAGTAGCCATACACACCCATGTGCTAGGCCG
** * *
35417334 TGTAACTCTTTGAGTTGCCATACACACCCGTGTGCTAGGCCG
1 TGTAACTCACTGAGTAGCCATACACACCCATGTGCTAGGCCG
35417376 TGTAACTCACTGA
1 TGTAACTCACTGA
35417389 CTTGAATACT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (42 bp):
TGTAACTCACTGAGTAGCCATACACACCCATGTGCTAGGCCG
Found at i:35418507 original size:42 final size:42
Alignment explanation
Indices: 35418455--35418537 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
35418445 ACAAGTTGTA
*
35418455 GGTCAGAATGTAAGCTACACGATGCTGCTCTCATGAGCTGTG
1 GGTCAGAATGTAAGCTACACGATGCTGCTCACATGAGCTGTG
* *
35418497 GGTCGGAATGTAAGCTACATGATGCTGCTCACATGAGCTGT
1 GGTCAGAATGTAAGCTACACGATGCTGCTCACATGAGCTGT
35418538 AAGGAATCCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (42 bp):
GGTCAGAATGTAAGCTACACGATGCTGCTCACATGAGCTGTG
Found at i:35433185 original size:47 final size:46
Alignment explanation
Indices: 35433074--35433244 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
35433064 ACTTGTGTGA
*
35433074 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATT--ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGAATGAGT
* * *
35433120 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTG-AATGAGT
* *
35433168 GCTAGTGTAAGA-TATGTCTGGGACATGCATCGGC-TATGAGATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGA-ATGAGT
35433214 -C-AGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC
35433245 CGCACAGATA
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
44 9 0.08
45 20 0.19
46 29 0.27
47 27 0.25
48 21 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAATGAGT
Found at i:35439942 original size:13 final size:13
Alignment explanation
Indices: 35439924--35439949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35439914 GGGAAGAAAT
35439924 CATAGAAGATTTG
1 CATAGAAGATTTG
35439937 CATAGAAGATTTG
1 CATAGAAGATTTG
35439950 TAATCTTAGA
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:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
CATAGAAGATTTG
Found at i:35441410 original size:6 final size:6
Alignment explanation
Indices: 35441394--35441474 Score: 51
Period size: 6 Copynumber: 12.5 Consensus size: 6
35441384 AACAATTCTA
35441394 AAAAAT AAAAAAT AAAAA- AACAAA- AATAAAT AAGCAAATT ATAAACAT
1 AAAAAT -AAAAAT AAAAAT AA-AAAT AA-AAAT AA--AAA-T A-AAA-AT
*
35441442 ATAAAAT ATAAAT -AAAAT AAAAAT AAAAAT AAA
1 A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
35441475 GATATTTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
5 6 0.10
6 31 0.49
7 11 0.17
8 11 0.17
9 3 0.05
10 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:35441411 original size:14 final size:14
Alignment explanation
Indices: 35441392--35441470 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 14
35441382 AAAACAATTC
35441392 TAAAAAATA-AAAAA
1 TAAAAAA-ACAAAAA
35441406 TAAAAAAACAAAAA
1 TAAAAAAACAAAAA
* * *
35441420 TAAATAAGCAAATTA
1 TAAAAAAACAAA-AA
* * *
35441435 TAAACATATAAAATA
1 TAAAAAAACAAAA-A
*
35441450 TAAATAAAATAAAAA
1 TAAA-AAAACAAAAA
35441465 TAAAAA
1 TAAAAA
35441471 TAAAGATATT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
13 1 0.02
14 24 0.47
15 19 0.37
16 7 0.14
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.19
Consensus pattern (14 bp):
TAAAAAAACAAAAA
Found at i:35441413 original size:15 final size:15
Alignment explanation
Indices: 35441393--35441470 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
35441383 AAACAATTCT
35441393 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
*
35441408 AAAAAA-CAAAAATA
1 AAAAAATAAAAAATA
* ** **
35441422 AATAAGCAAATTATA
1 AAAAAATAAAAAATA
* * *
35441437 AACATATAAAATATA
1 AAAAAATAAAAAATA
35441452 AATAAAAT-AAAAATA
1 AA-AAAATAAAAAATA
35441467 AAAA
1 AAAA
35441471 TAAAGATATT
Statistics
Matches: 47, Mismatches: 14, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
14 13 0.28
15 31 0.66
16 3 0.06
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:35441456 original size:11 final size:11
Alignment explanation
Indices: 35441442--35441474 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
35441432 TTATAAACAT
35441442 ATAAAATATAA
1 ATAAAATATAA
*
35441453 ATAAAATAAAA
1 ATAAAATATAA
35441464 ATAAAA-ATAA
1 ATAAAATATAA
35441474 A
1 A
35441475 GATATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAATATAA
Found at i:35441466 original size:17 final size:19
Alignment explanation
Indices: 35441434--35441479 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
35441424 TAAGCAAATT
*
35441434 ATAAACATATAAAATATAA
1 ATAAACATATAAAATAAAA
35441453 ATAAA-ATA-AAAATAAAA
1 ATAAACATATAAAATAAAA
*
35441470 ATAAAGATAT
1 ATAAACATAT
35441480 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.54
18 6 0.25
19 5 0.21
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAACATATAAAATAAAA
Found at i:35441753 original size:21 final size:20
Alignment explanation
Indices: 35441729--35441797 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 20
35441719 ACATAAAATT
35441729 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
* *
35441750 TATAGACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
35441773 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
35441791 TAGTAAA
1 TA-TAAA
35441798 ATATATGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.13
19 9 0.23
21 9 0.23
22 2 0.05
23 6 0.15
24 8 0.21
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:35441817 original size:7 final size:7
Alignment explanation
Indices: 35441738--35441848 Score: 57
Period size: 7 Copynumber: 14.9 Consensus size: 7
35441728 TTATAAACAA
35441738 AATATAT
1 AATATAT
35441745 AATGATAT
1 AAT-ATAT
*
35441753 AGACAATAT
1 A-A-TATAT
* *
35441762 GATAGAT
1 AATATAT
35441769 AATATAT
1 AATATAT
35441776 AA-A-AT
1 AATATAT
35441781 AATATAT
1 AATATAT
*
35441788 ATATAGTAA
1 A-ATA-TAT
35441797 AATATATGT
1 AATATA--T
35441806 AATATA-
1 AATATAT
35441812 ATATATAAT
1 A-ATAT-AT
*
35441821 AATGTAT
1 AATATAT
35441828 AATAATAT
1 AAT-ATAT
*
35441836 AATAAAT
1 AATATAT
35441843 AATATA
1 AATATA
35441849 CAAAGATAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
5 4 0.05
6 3 0.04
7 35 0.44
8 22 0.28
9 15 0.19
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (7 bp):
AATATAT
Found at i:35441828 original size:10 final size:10
Alignment explanation
Indices: 35441738--35441848 Score: 61
Period size: 10 Copynumber: 10.6 Consensus size: 10
35441728 TTATAAACAA
35441738 AATATATAAT
1 AATATATAAT
* * *
35441748 GATATA-GAC
1 AATATATAAT
35441757 AATATGATAGAT
1 AATAT-ATA-AT
35441769 AATATATAA-
1 AATATATAAT
35441778 AATA-AT-AT
1 AATATATAAT
35441786 ATATATAGTAA-
1 A-ATATA-TAAT
35441797 AATATATGTAATAT
1 AATATA--T-A-AT
35441811 AATATATAAT
1 AATATATAAT
*
35441821 AATGTATAAT
1 AATATATAAT
35441831 AATATAATAAAT
1 AATAT-AT-AAT
35441843 AATATA
1 AATATA
35441849 CAAAGATAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 27
0.69 0.07 0.24
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 12 0.15
10 28 0.35
11 11 0.14
12 17 0.22
13 1 0.01
14 6 0.08
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:35441839 original size:30 final size:30
Alignment explanation
Indices: 35441763--35441848 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
35441753 AGACAATATG
*
35441763 ATAG-ATAAT-ATATAAAATAATATAT-AT
1 ATAGTATAATAATATAATATAATATATAAT
* *
35441790 ATAGTAAAATATATGTAATATAATATATAAT
1 ATAGTATAATA-ATATAATATAATATATAAT
35441821 A-ATGTATAATAATATAATA-AATAATATA
1 ATA-GTATAATAATATAATATAAT-ATATA
35441849 CAAAGATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.08
28 4 0.08
29 3 0.06
30 27 0.56
31 10 0.21
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (30 bp):
ATAGTATAATAATATAATATAATATATAAT
Found at i:35443505 original size:44 final size:44
Alignment explanation
Indices: 35443451--35443967 Score: 736
Period size: 44 Copynumber: 11.8 Consensus size: 44
35443441 AGCTGAAATG
35443451 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
35443495 TTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
35443539 TTCGATCTACTCTCTGGCAATACAGAGACGCCAAATTTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * *
35443583 TTTGACCGGCTCTCTGACAATACAGAGACGTCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
35443627 TTCGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
35443671 TTCGATCTGCTCTCTGGCAATACAGAGACGTCAAATCTGCTATT
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
35443715 TTCGACCTGCTCTCTGACAATACAGAGATGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
35443759 TTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGCTA-C
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
35443802 TTTCGA-CTTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATC
1 -TTCGATC-TGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
35443847 TTCGATCTTCTCTCTGACAATACAGAGACGCCAAATCT-ATCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* *
35443891 TTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * *
35443935 TTCGGTCTGCTCTCTGTCAATACAGAGATGCCA
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCA
35443968 GATGTCACCG
Statistics
Matches: 426, Mismatches: 41, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
43 3 0.01
44 421 0.99
45 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
Found at i:35454101 original size:40 final size:39
Alignment explanation
Indices: 35454046--35454262 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 39
35454036 GGATGGTAAC
* *
35454046 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATTT
* *
35454086 CGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
35454125 CTAGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATC
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TT
*
35454166 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TT
* * *
35454206 CGGGCTAAGCCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
* *
35454245 CCGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
35454263 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 21 0.13
40 134 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:35454181 original size:80 final size:80
Alignment explanation
Indices: 35454048--35454262 Score: 310
Period size: 80 Copynumber: 2.7 Consensus size: 80
35454038 ATGGTAACCG
* * *
35454048 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAATCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAATCCCGAAGGCATTTGTG
*
35454112 CGAGTTACTATATCTA
65 CGAGTTACTATATCCA
* *
35454128 GGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGC
*
35454193 GAGTTACTATATCCG
66 GAGTTACTATATCCA
* *
35454208 GGCTAAGCCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAATCCCGAAGG
35454263 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 17 0.14
80 104 0.85
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGC
GAGTTACTATATCCA
Found at i:35459042 original size:16 final size:16
Alignment explanation
Indices: 35459014--35459051 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35459004 ATAAGCAAAT
*
35459014 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
35459029 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
35459045 TAAAAAT
1 TATAAAT
35459052 AAAGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:35459363 original size:12 final size:12
Alignment explanation
Indices: 35459348--35459435 Score: 55
Period size: 12 Copynumber: 7.7 Consensus size: 12
35459338 AATATGGTAG
35459348 ATAATATATAAA
1 ATAATATATAAA
*
35459360 ATAATATAT-AT
1 ATAATATATAAA
35459371 ATATATATAGTAAA
1 ATA-ATATA-TAAA
** *
35459385 AT-ATAGGTAAT
1 ATAATATATAAA
35459396 ATAATATAT--A
1 ATAATATATAAA
*
35459406 AT-A-ATGTAAA
1 ATAATATATAAA
35459416 ATAATATA-ATAA
1 ATAATATATA-AA
35459428 ATAATATA
1 ATAATATA
35459436 CAAAGATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
8 3 0.05
9 1 0.02
10 5 0.09
11 11 0.19
12 33 0.58
13 1 0.02
14 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
ATAATATATAAA
Found at i:35459409 original size:10 final size:10
Alignment explanation
Indices: 35459348--35459435 Score: 54
Period size: 10 Copynumber: 8.1 Consensus size: 10
35459338 AATATGGTAG
35459348 ATAAT-ATAT
1 ATAATAATAT
*
35459357 AAAATAATAT
1 ATAATAATAT
35459367 ATATATATATAT
1 ATA-ATA-ATAT
35459379 AGTAA-AATAT
1 A-TAATAATAT
35459389 AGGTAATATAATAT
1 A--T-A-ATAATAT
*
35459403 ATAATAATGT
1 ATAATAATAT
*
35459413 AAAATAATAT
1 ATAATAATAT
35459423 AATAAATAATAT
1 -AT-AATAATAT
35459435 A
1 A
35459436 CAAAGATAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
9 4 0.06
10 25 0.40
11 9 0.14
12 16 0.25
13 3 0.05
14 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (10 bp):
ATAATAATAT
Found at i:35459433 original size:7 final size:8
Alignment explanation
Indices: 35459348--35459433 Score: 54
Period size: 7 Copynumber: 10.4 Consensus size: 8
35459338 AATATGGTAG
35459348 ATAATAT-
1 ATAATATA
*
35459355 ATAAAATA
1 ATAATATA
35459363 ATATATATA
1 ATA-ATATA
35459372 TATATATAGTA
1 -ATA-ATA-TA
35459383 A-AATATA
1 ATAATATA
*
35459390 GGTAATATA
1 -ATAATATA
35459399 AT-ATATA
1 ATAATATA
*
35459406 ATAATGTAAA
1 ATAA--TATA
35459416 ATAATATA
1 ATAATATA
35459424 ATAA-ATA
1 ATAATATA
35459431 ATA
1 ATA
35459434 TACAAAGATA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
7 21 0.33
8 15 0.23
9 11 0.17
10 15 0.23
11 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:35459444 original size:25 final size:25
Alignment explanation
Indices: 35459392--35459444 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
35459382 AAAATATAGG
* **
35459392 TAATATAATATATAATAATGTAAAA
1 TAATATAATAAATAATAATACAAAA
35459417 TAATATAATAAATAAT-ATACAAAGA
1 TAATATAATAAATAATAATACAAA-A
35459442 TAA
1 TAA
35459445 ATACTATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (25 bp):
TAATATAATAAATAATAATACAAAA
Done.