Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 26 of 189
Found at i:8361540 original size:106 final size:105
Alignment explanation
Indices: 8361301--8361717 Score: 533
Period size: 106 Copynumber: 4.0 Consensus size: 105
8361291 TAAACCATAA
* *
8361301 CCCAACCCCAACCCCCTAACCCCTAAACTTTATTTAATATATAAATTAAAAAACACTAATTAGTC
1 CCCAACCCCAA-CCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATC
*
8361366 TAAACCTTAAACCATAACCCAACCTCGAATCCCTAACCCGA-
65 TAAACCCTAAACCATAACCCAACC-CGAATCCCTAACCCGAC
** *
8361407 --C--CCTTAACCCCTAACCCCTAAACCTTATTTAGTATATAAATTAAAAAACACTAATTAATCT
1 CCCAACCCCAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCT
* * *
8361468 AAACCCT-AACCCTAACCCAATCCCAAATCCCTAACCCCAAC
66 AAACCCTAAACCATAACCCAA-CCCGAATCCCTAA-CCCGAC
8361509 CCCAACCCCAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCT
1 CCCAACCCCAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCT
* * * * *
8361574 AAACCTTAAATCATAACCGACCCCGAATCCCCAACCCGAC
66 AAACCCTAAACCATAACCCAACCCGAATCCCTAACCCGAC
* *
8361614 CCCTAACCCCTAACCCATAACGCCTAAACCTTATTTAATATATAAATT-AAAAACACTAATTAAT
1 CCC-AACCCC-AACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAAT
* * * * *
8361678 TTAAATCCTAAATCATAACCCGACCCCGATTCCCTAACCC
64 CTAAACCCTAAACCATAACCC-AACCCGAATCCCTAACCC
8361718 CTAAACCTTA
Statistics
Matches: 272, Mismatches: 28, Indels: 21
0.85 0.09 0.07
Matches are distributed among these distances:
100 22 0.08
101 63 0.23
102 4 0.01
104 2 0.01
105 8 0.03
106 113 0.42
107 60 0.22
ACGTcount: A:0.40, C:0.34, G:0.02, T:0.23
Consensus pattern (105 bp):
CCCAACCCCAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCT
AAACCCTAAACCATAACCCAACCCGAATCCCTAACCCGAC
Found at i:8361614 original size:19 final size:19
Alignment explanation
Indices: 8361590--8361629 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8361580 TAAATCATAA
8361590 CCGACCCCGAATCCCC-AAC
1 CCGACCCCGAA-CCCCTAAC
*
8361609 CCGACCCCTAACCCCTAAC
1 CCGACCCCGAACCCCTAAC
8361628 CC
1 CC
8361630 ATAACGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.25, C:0.60, G:0.07, T:0.07
Consensus pattern (19 bp):
CCGACCCCGAACCCCTAAC
Found at i:8361787 original size:83 final size:81
Alignment explanation
Indices: 8361618--8361800 Score: 251
Period size: 83 Copynumber: 2.2 Consensus size: 81
8361608 CCCGACCCCT
* * *
8361618 AACCCCTAA-CCCATAACGCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATTTAA
1 AACCCCAAATCCC-TAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAA
* *
8361682 ATCCTAAATCATAACCC
65 ACCCTAAACCATAACCC
* * * *
8361699 GACCCCGATTCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAATACTAATTAATCTA
1 AACCCCAAATCCCTAACCCCTAAACCTTATTTAATATATAAATT--AAAAACACTAATTAATCTA
8361764 AACCCTAAACCATAACCC
64 AACCCTAAACCATAACCC
8361782 AACCCCAAATCCCTAACCC
1 AACCCCAAATCCCTAACCC
8361801 TTAACCATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 36 0.41
82 3 0.03
83 49 0.56
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.26
Consensus pattern (81 bp):
AACCCCAAATCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAA
CCCTAAACCATAACCC
Found at i:8362272 original size:41 final size:41
Alignment explanation
Indices: 8362212--8362325 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
8362202 AAATGTTTTT
* * *
8362212 GTGGCGCTTTTTCACAAACGCCGCTTAATCCCCGAGCATTA
1 GTGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
8362253 GTGGCGCTTCTTT-AAAAACGCCGCTAAAGCTCTGAGCATTA
1 GTGGCGCTT-TTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
8362294 GCGACGCTTTTTCAAAAATGCCGCTAAAGCCC
1 GTGGCGCTTTTTCAAAAACGCCGCTAAAGCCC
8362326 TAAAAGGTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 3 0.05
41 56 0.90
42 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (41 bp):
GTGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:8369194 original size:12 final size:12
Alignment explanation
Indices: 8369179--8369204 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8369169 AAGATCAACC
8369179 TTCTTTTTTTTT
1 TTCTTTTTTTTT
8369191 TTCTTTTTTTTT
1 TTCTTTTTTTTT
8369203 TT
1 TT
8369205 GGTAAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:8372465 original size:29 final size:29
Alignment explanation
Indices: 8372423--8372481 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8372413 AGTAAAAATA
8372423 TCTCCTATTTAATTTGTTTAGATGATGCC
1 TCTCCTATTTAATTTGTTTAGATGATGCC
8372452 TCTCCTATTTAATTTGTTTAGATGATGCC
1 TCTCCTATTTAATTTGTTTAGATGATGCC
8372481 T
1 T
8372482 TAGTAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (29 bp):
TCTCCTATTTAATTTGTTTAGATGATGCC
Found at i:8372493 original size:29 final size:29
Alignment explanation
Indices: 8372432--8372495 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8372422 ATCTCCTATT
* **
8372432 TAATTTGTTTAGATGATGCCTCTCCTATT
1 TAATTTGTTTAGATGATGCCTCTACTAAA
*
8372461 TAATTTGTTTAGATGATGCCT-TAGTAAAA
1 TAATTTGTTTAGATGATGCCTCTACT-AAA
8372490 TAATTT
1 TAATTT
8372496 AAAAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (29 bp):
TAATTTGTTTAGATGATGCCTCTACTAAA
Found at i:8373481 original size:17 final size:17
Alignment explanation
Indices: 8373459--8373491 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8373449 TATCAGATTT
8373459 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
8373476 TGATACCCATGTCTTT
1 TGATACCCATATCTTT
8373492 GACTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.27, G:0.09, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:8382343 original size:19 final size:19
Alignment explanation
Indices: 8382319--8382366 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
8382309 TTCTTGGGCT
8382319 CAATTTTCAATCTCAGATC
1 CAATTTTCAATCTCAGATC
*
8382338 CAATTTTCGATCTCAGATC
1 CAATTTTCAATCTCAGATC
8382357 CAATTTTCAA
1 CAATTTTCAA
8382367 GTTTAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (19 bp):
CAATTTTCAATCTCAGATC
Found at i:8387790 original size:5 final size:5
Alignment explanation
Indices: 8387784--8387821 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
8387774 AAATATATAT
*
8387784 AATAT AATAA AATAA AATAA AAT-A AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATA
8387822 CGAAGAATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:8388292 original size:151 final size:145
Alignment explanation
Indices: 8388079--8389194 Score: 1082
Period size: 151 Copynumber: 7.3 Consensus size: 145
8388069 CAGCCCAATG
* * * *
8388079 CTCA-CTCTCGTATTATGAGTTGATTTTTTTGAAAAACAGAAATTGATAATACCTCAGCGTGACT
1 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACC
* * *
8388143 CGAGACTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAAAATATATACCTC
64 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAAAA-AAATACCTC
**
8388208 GGCATG-GTTCGAGGCTCAA
126 GGCATGTGCCCGAGGCTCAA
* *
8388227 CTCACCTCTCGCAATATGAGTTAATTTTTAAAAAAAAAACAGAAATTGAAAATACCTCAGCGTGA
1 CTCACCTCTCGCAATATGAGTTGATTTTT----GAAAAACAGAAATTGAAAATACCTCAGCGTGA
* * * * *
8388292 CCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTAAAACCAAAAATTGAAAAATA
62 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAA---AAAAATA
* *
8388357 CCTC-G-ACGTGACTCGAGGCTCAA
122 CCTCGGCATGTG-CCCGAGGCTCAA
* *
8388380 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATAAATTTAAAAGAAATACCTCAGCGTGC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT--GA-AAATACCTCAGCGT--
* * *
8388444 GACCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAATA
60 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA---AAAAATA
* * * *
8388509 CCTCAGCGTGCGACCCGAGGCTGAA
122 CCTCGGCATGTG-CCCGAGGCTCAA
*
8388534 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAGCGTGTGACC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC--GTGACC
*
8388599 CGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAACTTAAAAGAAAT
64 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAG--A---AAAA-AAAT
*
8388664 ACCTCGGCATGTGACCTGAGGCTCAA
121 ACCTCGGCATGTG-CCCGAGGCTCAA
* * *
8388690 CTCACCTCTCACAATATGAGTTGATTTTTGAAAATA-A-AAATTTAAAAGAAATACCTCGGCATG
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACAGAAA-TT--GA-AAATACCTCAGC--G
* * * *
8388753 TGACTCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTT-AGAAACAGGAATTTAAAATA
59 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-G-A---AAAA-A
*
8388817 AATACCTCGGCATGTGACCCGAGCCTCAA
118 AATACCTCGGCATGTG-CCCGAGGCTCAA
**
8388846 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGGAAACTT-AAAATACCTCAGCGTACGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCAGCGT--GAC
* * * *
8388910 ACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACCTT
63 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA--AAAAATACCTC
*
8388975 GGCATGTGACCCGAGGCCCAA
126 GGCATGTG-CCCGAGGCTCAA
* * * *
8388996 CTAACTTCTAGCAATATGAGTTGAGTTTTGAAAAACAGAAACTT-AAAATACCTCAGCGTGCGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCAGCGT--GAC
* * * *
8389060 CTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGCAATTGAAAACTACCT
63 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AA--AAAAAATACCT
* *
8389125 CGGCGTGTGCCAGAGGCTCAA
125 CGGCATGTGCCCGAGGCTCAA
* *
8389146 CTCACCTCTCGCATTATGGGTTGATTTTTGAAAAAACAGAAATTGAAAA
1 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAA
8389195 ATAATTCTTG
Statistics
Matches: 829, Mismatches: 92, Indels: 91
0.82 0.09 0.09
Matches are distributed among these distances:
147 5 0.01
148 13 0.02
149 20 0.02
150 165 0.20
151 170 0.21
152 48 0.06
153 105 0.13
154 87 0.10
155 16 0.02
156 133 0.16
157 10 0.01
158 3 0.00
159 54 0.07
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (145 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAAAAATACCTCGGCAT
GTGCCCGAGGCTCAA
Found at i:8388390 original size:76 final size:74
Alignment explanation
Indices: 8388079--8389197 Score: 1111
Period size: 75 Copynumber: 14.7 Consensus size: 74
8388069 CAGCCCAATG
* * *
8388079 CTCA-CTCTCGTATTATGAGTTGATTTTTTTGAAAAACAGAAATTG-ATAATACCTCAGCGTGAC
1 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGAC
* *
8388142 TCGAGACTCAA
64 CCGAGGCTCAA
* * * * *
8388153 CTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA---AATATATACCTCGGCATGG
1 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAA-AAATACCTCAGCGTGA
**
8388215 TTCGAGGCTCAA
63 CCCGAGGCTCAA
* *
8388227 CTCACCTCTCGCAATATGAGTTAATTTTTAAAAAAAAAACAGAAATTG-AAAATACCTCAGCGTG
1 CTCACCTCTCGCAATATGAGTTGATTTTT----GAAAAACAGAAATTGAAAAATACCTCAGCGTG
8388291 ACCCGAGGCTCAA
62 ACCCGAGGCTCAA
* * * * *
8388304 CTCACTTCTCGCATTATGAGTTGATTTTTTTTAAAACCAAAAATTGAAAAATACCTC-GACGTGA
1 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAATACCTCAG-CGTGA
*
8388368 CTCGAGGCTCAA
63 CCCGAGGCTCAA
* *
8388380 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATAAATTTAAAAGAAATACCTCAGCGTGC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCGT--
8388444 GACCCGAGGCTCAA
61 GACCCGAGGCTCAA
* * * *
8388458 CTCACCTTTCACAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAATACCTCAGCGTGCGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGT--GAC
*
8388523 CCGAGGCTGAA
64 CCGAGGCTCAA
*
8388534 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-TAAAATACCTCAGCGTGTGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGC--GTGAC
8388598 CCGAGGCTCAA
64 CCGAGGCTCAA
* * *
8388609 CTCACATCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAACTTAAAAGAAATACCTCGGCAT
1 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGAAA-TT-GAA-AAATACCTCAGC--
*
8388674 GTGACCTGAGGCTCAA
59 GTGACCCGAGGCTCAA
* * *
8388690 CTCACCTCTCACAATATGAGTTGATTTTTGAAAATA-A-AAATTTAAAAGAAATACCTCGGCATG
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACAGAAA-TT-GAA-AAATACCTCAGC--G
*
8388753 TGACTCGAGGCTCAA
60 TGACCCGAGGCTCAA
* * * * * *
8388768 CTCACTTCTCACAATATGAGTTGATTTTT-AGAAACAGGAATTTAAAATAAATACCTCGGCATGT
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-GAAATT-GAA-AAATACCTCAGC--GT
*
8388832 GACCCGAGCCTCAA
61 GACCCGAGGCTCAA
**
8388846 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGGAAACTT--AAAATACCTCAGCGTACGA
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAAATACCTCAGCGT--GA
*
8388909 CACGAGGCTCAA
63 CCCGAGGCTCAA
* **
8388921 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTG-AAAATACCTTGGCATGTGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGC--GTGAC
*
8388985 CCGAGGCCCAA
64 CCGAGGCTCAA
* * * *
8388996 CTAACTTCTAGCAATATGAGTTGAGTTTTGAAAAACAGAAACTT--AAAATACCTCAGCGTGCGA
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAAATACCTCAGCGT--GA
*
8389059 CCTGAGGCTCAA
63 CCCGAGGCTCAA
* * * * *
8389071 CTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGCAATTGAAAACTACCTCGGCGTGTGCC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTG-ACC
*
8389136 AGAGGCTCAA
65 CGAGGCTCAA
* *
8389146 CTCACCTCTCGCATTATGGGTTGATTTTTGAAAAAACAGAAATTGAAAAATA
1 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAAATA
8389198 ATTCTTGAAA
Statistics
Matches: 904, Mismatches: 95, Indels: 90
0.83 0.09 0.08
Matches are distributed among these distances:
72 5 0.01
73 13 0.01
74 59 0.07
75 327 0.36
76 180 0.20
77 61 0.07
78 176 0.19
79 22 0.02
80 6 0.01
81 55 0.06
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (74 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGACCC
GAGGCTCAA
Found at i:8389011 original size:150 final size:151
Alignment explanation
Indices: 8388079--8389197 Score: 1227
Period size: 150 Copynumber: 7.3 Consensus size: 151
8388069 CAGCCCAATG
* * * *
8388079 CTCA-CTCTCGTATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTGATAATACCTCAGCGT--G
1 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGCG
* * * *
8388140 ACTCGAGACTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA--AATATAT
64 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAA-AAAT
**
8388203 ACCTCGGCATG-G-TTCGAGGCTCAA
126 ACCTCGGCATGTGACCCGAGGCTCAA
* * *
8388227 CTCACCTCTCGCAATATGAGTTAATTTTTAAAAAAAAAACAGAAA-TTGAAAATACCTCAGCGT-
1 CTCACCTCTCGCAATATGAGTTGATTTTT----GAAAAACAGAAATTTAAAAATACCTCAGCGTG
* * * * *
8388290 -GACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTAAAACCAAAAATTGAAAA
62 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAA
* *
8388354 ATACCTC-G-ACGTGACTCGAGGCTCAA
124 ATACCTCGGCATGTGACCCGAGGCTCAA
*
8388380 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATAAATTTAAAAGAAATACCTCAGCGTGC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT--AA-AAATACCTCAGCGTGC
* * *
8388444 GACCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAATA
63 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTAAAAATA
* * * *
8388509 CCTCAGCGTGCGACCCGAGGCTGAA
127 CCTCGGCATGTGACCCGAGGCTCAA
*
8388534 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT-AAAATACCTCAGCGTGTGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGCGAC
*
8388598 CCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAACTTAAAAGAAA
66 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGAAA-TT--AA-AAA
*
8388663 TACCTCGGCATGTGACCTGAGGCTCAA
125 TACCTCGGCATGTGACCCGAGGCTCAA
* * *
8388690 CTCACCTCTCACAATATGAGTTGATTTTTGAAAATA-A-AAATTTAAAAGAAATACCTCGGCATG
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACAGAAATTT--AA-AAATACCTCAGCGTG
* * * * * *
8388753 TGACTCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTT-AGAAACAGGAATTTAAAATA
62 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-GAAATT--AA-A
*
8388817 AATACCTCGGCATGTGACCCGAGCCTCAA
123 AATACCTCGGCATGTGACCCGAGGCTCAA
** * *
8388846 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGGAAACTT-AAAATACCTCAGCGTACGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGCGAC
* * * *
8388910 ACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACCTT
66 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTC
*
8388975 GGCATGTGACCCGAGGCCCAA
131 GGCATGTGACCCGAGGCTCAA
* * * * *
8388996 CTAACTTCTAGCAATATGAGTTGAGTTTTGAAAAACAGAAACTT-AAAATACCTCAGCGTGCGAC
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGCGAC
* * * *
8389060 CTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGCAATTGAAAACTACCT
66 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAATACCT
* *
8389125 CGGCGTGTG-CCAGAGGCTCAA
130 CGGCATGTGACCCGAGGCTCAA
* * *
8389146 CTCACCTCTCGCATTATGGGTTGATTTTTGAAAAAACAGAAATTGAAAAATA
1 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTTAAAAATA
8389198 ATTCTTGAAA
Statistics
Matches: 837, Mismatches: 97, Indels: 70
0.83 0.10 0.07
Matches are distributed among these distances:
147 5 0.01
148 13 0.02
149 18 0.02
150 167 0.20
151 166 0.20
152 51 0.06
153 115 0.14
154 85 0.10
155 21 0.03
156 129 0.15
157 12 0.01
158 1 0.00
159 54 0.06
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (151 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGCGAC
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTC
GGCATGTGACCCGAGGCTCAA
Found at i:8397531 original size:35 final size:34
Alignment explanation
Indices: 8397473--8397618 Score: 111
Period size: 35 Copynumber: 4.1 Consensus size: 34
8397463 CTTTTTCTTT
* *
8397473 TTTTGAAAATACG-AATTTTTTTAAAATACA-AGAA
1 TTTTG-AAACACGAAATTTTTTTAAAA-ACACAAAA
8397507 TTTTAGAAACACGAAATTTTTTTAAAAACACGAAAA
1 TTTT-GAAACACGAAATTTTTTTAAAAACAC-AAAA
* * **
8397543 TTTTGAAACACGAGATTTTTTTTTGAAAACACTAATTTTCT
1 TTTTGAAACACGA-A-ATTTTTTTAAAAACAC-AA----AA
8397584 TTTTGAAACACGAAA-TTTTTT-AAAACACAAAA
1 TTTTGAAACACGAAATTTTTTTAAAAACACAAAA
8397616 TTT
1 TTT
8397619 ATTTTTGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
32 3 0.03
34 13 0.14
35 23 0.25
36 10 0.11
37 23 0.25
38 6 0.07
40 1 0.01
41 13 0.14
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (34 bp):
TTTTGAAACACGAAATTTTTTTAAAAACACAAAA
Found at i:8397545 original size:20 final size:19
Alignment explanation
Indices: 8397470--8397623 Score: 76
Period size: 19 Copynumber: 8.4 Consensus size: 19
8397460 CAACTTTTTC
* *
8397470 TTTTTTTGAAAATACG-AA
1 TTTTTTTAAAAACACGAAA
*
8397488 TTTTTTTAAAATACAAG-AA
1 TTTTTTTAAAA-ACACGAAA
*
8397507 ---TTTTAGAAACACGAAA
1 TTTTTTTAAAAACACGAAA
8397523 TTTTTTTAAAAACACGAAA
1 TTTTTTTAAAAACACGAAA
* * *
8397542 --ATTTT-GAAACACGAGATT
1 TTTTTTTAAAAACACGA-A-A
* * *
8397560 TTTTTTTGAAAACACTAAT
1 TTTTTTTAAAAACACGAAA
**
8397579 TTTCTTTTTGAAACACGAAA
1 TTT-TTTTAAAAACACGAAA
*
8397599 -TTTTTT-AAAACACAAAA
1 TTTTTTTAAAAACACGAAA
8397616 TTTATTTT
1 TTT-TTTT
8397624 TGAAAACATA
Statistics
Matches: 105, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
15 4 0.04
16 17 0.16
17 14 0.13
18 16 0.15
19 30 0.29
20 17 0.16
21 7 0.07
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (19 bp):
TTTTTTTAAAAACACGAAA
Found at i:8397609 original size:17 final size:17
Alignment explanation
Indices: 8397471--8397618 Score: 68
Period size: 17 Copynumber: 8.2 Consensus size: 17
8397461 AACTTTTTCT
* *
8397471 TTTTTTGAAAATACGAAT
1 TTTTTT-AAAACACGAAA
*
8397489 TTTTTTAAAATAC-AAGA
1 TTTTTTAAAACACGAA-A
*
8397506 -ATTTTAGAAACACGAAA
1 TTTTTTA-AAACACGAAA
8397523 TTTTTTTAAAAACACGAAA
1 -TTTTTT-AAAACACGAAA
* * *
8397542 -ATTTTGAAACACGAGATTT
1 TTTTTTAAAACACGA-A--A
* *
8397561 TTTTTTGAAAACACTAATTT
1 TTTTTT-AAAACACGAA--A
*
8397581 TCTTTTTGAAACACGAAA
1 T-TTTTTAAAACACGAAA
*
8397599 TTTTTTAAAACACAAAA
1 TTTTTTAAAACACGAAA
8397616 TTT
1 TTT
8397619 ATTTTTGAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 25
0.72 0.10 0.17
Matches are distributed among these distances:
16 15 0.15
17 35 0.34
18 9 0.09
19 14 0.14
20 18 0.17
21 12 0.12
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:8397622 original size:21 final size:21
Alignment explanation
Indices: 8397543--8397639 Score: 80
Period size: 21 Copynumber: 4.9 Consensus size: 21
8397533 AACACGAAAA
* * *
8397543 TTTTG-AAACACGAGATTTTT
1 TTTTGAAAACACAAAATTTAT
* * *
8397563 TTTTGAAAACACTAATTTTCT
1 TTTTGAAAACACAAAATTTAT
*
8397584 TTTTG-AAACACGAAA--T-T
1 TTTTGAAAACACAAAATTTAT
8397601 TTTT-AAAACACAAAATTTAT
1 TTTTGAAAACACAAAATTTAT
*
8397621 TTTTGAAAACATAAAATTT
1 TTTTGAAAACACAAAATTT
8397640 TTAATAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
17 14 0.22
18 1 0.02
19 1 0.02
20 18 0.29
21 29 0.46
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (21 bp):
TTTTGAAAACACAAAATTTAT
Found at i:8397641 original size:37 final size:37
Alignment explanation
Indices: 8397562--8397643 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
8397552 ACGAGATTTT
* * * *
8397562 TTTTTGAAAACACTAATTTTCTTTTTGAAACACGAAAT
1 TTTTT-AAAACACAAAATTTATTTTTGAAACACGAAAA
*
8397600 TTTTTAAAACACAAAATTTATTTTTGAAA-ACATAAAA
1 TTTTTAAAACACAAAATTTATTTTTGAAACAC-GAAAA
8397637 TTTTTAA
1 TTTTTAA
8397644 TAAAATACGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 2 0.05
37 31 0.82
38 5 0.13
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (37 bp):
TTTTTAAAACACAAAATTTATTTTTGAAACACGAAAA
Found at i:8397724 original size:18 final size:18
Alignment explanation
Indices: 8397703--8397876 Score: 130
Period size: 17 Copynumber: 9.8 Consensus size: 18
8397693 AACGGTCAAT
8397703 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
8397721 TTTTTGAAAGACA-G-GAA
1 TTTTTGAAA-ACACGAAAA
*
8397738 TTTTTAAAAACACGAGAAA
1 TTTTTGAAAACACGA-AAA
**
8397757 TTTTTTTGAAAACATAAAAA
1 --TTTTTGAAAACACGAAAA
*
8397777 TTTTTG-AAACACTG-GAA
1 TTTTTGAAAACAC-GAAAA
*
8397794 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
8397811 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAAAA
*
8397828 TTTTTGAAAACACGAAAT
1 TTTTTGAAAACACGAAAA
* *
8397846 TTTTTTAAAATAC-AAGAA
1 TTTTTGAAAACACGAA-AA
*
8397864 TTTTAG-AAACACG
1 TTTTTGAAAACACG
8397877 GTTTTTTTTT
Statistics
Matches: 120, Mismatches: 23, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
16 9 0.08
17 46 0.38
18 45 0.38
19 5 0.04
20 3 0.03
21 12 0.10
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:8397740 original size:36 final size:35
Alignment explanation
Indices: 8397666--8397761 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 35
8397656 CACGAGGATT
*
8397666 TTTTTTG-AAACATGAAAATTTATTAAAAACGGTCAA
1 TTTTTTGAAAACACGAAAATTT-TTAAAAACGG-CAA
*
8397702 TTTTTTGAAAACACGAAAATTTTTGAAAGACAGG-AA
1 TTTTTTGAAAACACGAAAATTTTT-AAAAAC-GGCAA
*
8397738 -TTTTTAAAAACACGAGAAATTTTT
1 TTTTTTGAAAACACGA-AAATTTTT
8397762 TTGAAAACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
35 14 0.26
36 19 0.36
37 18 0.34
38 2 0.04
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTTTTGAAAACACGAAAATTTTTAAAAACGGCAA
Found at i:8397921 original size:17 final size:18
Alignment explanation
Indices: 8397882--8397921 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8397872 ACACGGTTTT
* *
8397882 TTTTTGGAAACGCGAGAA
1 TTTTTGGAAACGAGAAAA
8397900 TTTTT-GAAACGAGAAAA
1 TTTTTGGAAACGAGAAAA
8397917 TTTTT
1 TTTTT
8397922 TTAAAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (18 bp):
TTTTTGGAAACGAGAAAA
Found at i:8398019 original size:17 final size:17
Alignment explanation
Indices: 8397965--8398021 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
8397955 TTATTGTTTT
8397965 TTTTTGAAACACGATAA
1 TTTTTGAAACACGATAA
* * * *
8397982 ATTTTGAGAATATGAAAA
1 TTTTTGA-AACACGATAA
*
8398000 TTTTTGAAACACGATTA
1 TTTTTGAAACACGATAA
8398017 TTTTT
1 TTTTT
8398022 TTTTAAAATA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTTTGAAACACGATAA
Found at i:8398505 original size:14 final size:14
Alignment explanation
Indices: 8398488--8398514 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8398478 ATTGGGCCGA
8398488 AGCTGCTGGGCTGG
1 AGCTGCTGGGCTGG
8398502 AGCTGCTGGGCTG
1 AGCTGCTGGGCTG
8398515 CTGGAATGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.48, T:0.22
Consensus pattern (14 bp):
AGCTGCTGGGCTGG
Found at i:8398593 original size:14 final size:15
Alignment explanation
Indices: 8398563--8398592 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8398553 TGGACAGGCC
8398563 TACTGCTATTTTTTT
1 TACTGCTATTTTTTT
8398578 TACTGCTATTTTTTT
1 TACTGCTATTTTTTT
8398593 AGGGCATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (15 bp):
TACTGCTATTTTTTT
Found at i:8398712 original size:10 final size:10
Alignment explanation
Indices: 8398693--8398775 Score: 67
Period size: 10 Copynumber: 7.5 Consensus size: 10
8398683 ACTGTTAAAA
*
8398693 TTTTTCCTTC
1 TTTTTTCTTC
8398703 TTTTTTCTTC
1 TTTTTTCTTC
*
8398713 TTTTTCCTTTCC
1 TTTTTTC-TT-C
8398725 TTTTCTTCTTCC
1 TTTT-TTCTT-C
*
8398737 TTTTTCTTCTTT
1 -TTTT-TTCTTC
8398749 TATTTTTCTCTC
1 T-TTTTTCT-TC
8398761 TTTTTTCTTC
1 TTTTTTCTTC
8398771 TTTTT
1 TTTTT
8398776 CGGTAACCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
10 22 0.35
11 14 0.23
12 14 0.23
13 12 0.19
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:8398963 original size:23 final size:24
Alignment explanation
Indices: 8398905--8398966 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
8398895 TCTTTTATTT
8398905 TTGTTTGTTGCTTGCTTCTTGCTCTC
1 TTGTTTGTT--TTGCTTCTTGCTCTC
* * *
8398931 TT-TTTTTTTTGCTTCTTGGT-TG
1 TTGTTTGTTTTGCTTCTTGCTCTC
8398953 TTGTTTGTTTTGCT
1 TTGTTTGTTTTGCT
8398967 AGGTGCCGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 3 0.10
23 21 0.68
25 5 0.16
26 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.19, T:0.66
Consensus pattern (24 bp):
TTGTTTGTTTTGCTTCTTGCTCTC
Found at i:8399320 original size:29 final size:30
Alignment explanation
Indices: 8399287--8399351 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
8399277 GGTAAAAGTG
8399287 TAATTTTAGGAAAATAT-AGGGCCAAAATA
1 TAATTTTAGGAAAATATAAGGGCCAAAATA
* * * **
8399316 TAATTTTTGGAAAGTTTAAGGGCCTGAATA
1 TAATTTTAGGAAAATATAAGGGCCAAAATA
8399346 TAATTT
1 TAATTT
8399352 ATAAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.35
Consensus pattern (30 bp):
TAATTTTAGGAAAATATAAGGGCCAAAATA
Found at i:8399399 original size:31 final size:30
Alignment explanation
Indices: 8399354--8399434 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 30
8399344 TATAATTTAT
*
8399354 AAAAAATTAGGGGTCAAGATGCAAATTCAA
1 AAAAAATTAGGGGTCAAAATGCAAATTCAA
* * ***
8399384 AAAAAAGTTATGGGTCAAAATGTAAATTTGG
1 AAAAAA-TTAGGGGTCAAAATGCAAATTCAA
* *
8399415 AAAAATTTAGGGGCCAAAAT
1 AAAAAATTAGGGGTCAAAAT
8399435 ATAATTTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 18 0.44
31 23 0.56
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.23
Consensus pattern (30 bp):
AAAAAATTAGGGGTCAAAATGCAAATTCAA
Found at i:8399467 original size:17 final size:17
Alignment explanation
Indices: 8399447--8399482 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8399437 AATTTTTTTA
8399447 TATT-TTTTATT--TAT
1 TATTATTTTATTAATAT
8399461 TATTATTTTATTAATAT
1 TATTATTTTATTAATAT
8399478 TATTA
1 TATTA
8399483 AAACATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 7 0.37
17 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTTTATTAATAT
Found at i:8399637 original size:5 final size:5
Alignment explanation
Indices: 8399627--8399669 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
8399617 TTAAATATAT
8399627 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
8399670 CGAAGAATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:8401508 original size:30 final size:30
Alignment explanation
Indices: 8401474--8401532 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
8401464 AACTTTTCCA
* *
8401474 AATTTACATTTTGACCCTTAAATTTTTTTG
1 AATTTACATCTTGACCCCTAAATTTTTTTG
** *
8401504 AATTTGTATCTTGACCCCTAATTTTTTTT
1 AATTTACATCTTGACCCCTAAATTTTTTT
8401533 ATAAATTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (30 bp):
AATTTACATCTTGACCCCTAAATTTTTTTG
Found at i:8402015 original size:15 final size:15
Alignment explanation
Indices: 8401980--8402023 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8401970 ACAAAAATAA
* *
8401980 AAGAGAAAGACAAAGG
1 AAGAAAAAGA-AAAAG
8401996 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
*
8402011 AAGAAAAGGAAAA
1 AAGAAAAAGAAAA
8402024 GGGGAGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAAG
Found at i:8402148 original size:13 final size:13
Alignment explanation
Indices: 8402105--8402153 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
8402095 GGTTGCTGAA
*
8402105 GAAGAAGAAAAAA
1 GAAGAAGAAAAAG
8402118 GAGAGAA-AAAAAG
1 GA-AGAAGAAAAAG
*
8402131 AAAGAAGAAAAAG
1 GAAGAAGAAAAAG
8402144 GAAGAAGAAA
1 GAAGAAGAAA
8402154 GGGAAAGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAAAG
Found at i:8402344 original size:24 final size:24
Alignment explanation
Indices: 8402315--8402392 Score: 156
Period size: 24 Copynumber: 3.2 Consensus size: 24
8402305 CCCAGGCCCA
8402315 AGCAGCAGGCCATTCCAGCAGTCC
1 AGCAGCAGGCCATTCCAGCAGTCC
8402339 AGCAGCAGGCCATTCCAGCAGTCC
1 AGCAGCAGGCCATTCCAGCAGTCC
8402363 AGCAGCAGGCCATTCCAGCAGTCC
1 AGCAGCAGGCCATTCCAGCAGTCC
8402387 AGCAGC
1 AGCAGC
8402393 TCCAGCCCAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.12
Consensus pattern (24 bp):
AGCAGCAGGCCATTCCAGCAGTCC
Found at i:8402398 original size:9 final size:8
Alignment explanation
Indices: 8402328--8402398 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
8402318 AGCAGGCCAT
8402328 TCCAGCAG
1 TCCAGCAG
8402336 TCCAGCAG
1 TCCAGCAG
*
8402344 --CAGGCCAT
1 TCCA-G-CAG
8402352 TCCAGCAG
1 TCCAGCAG
8402360 TCCAGCAG
1 TCCAGCAG
*
8402368 --CAGGCCAT
1 TCCA-G-CAG
8402376 TCCAGCAG
1 TCCAGCAG
8402384 TCCAGCAG
1 TCCAGCAG
8402392 CTCCAGC
1 -TCCAGC
8402399 CCAGCAGCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
6 4 0.08
7 2 0.04
8 32 0.64
9 8 0.16
10 4 0.08
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.13
Consensus pattern (8 bp):
TCCAGCAG
Found at i:8403047 original size:21 final size:22
Alignment explanation
Indices: 8403012--8403052 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8403002 CTCGTTTCAG
8403012 AAATTCTCGCGTTTCTAAAAAA
1 AAATTCTCGCGTTTCTAAAAAA
*
8403034 AAATT-TCGTGTTTCTAAAA
1 AAATTCTCGCGTTTCTAAAA
8403053 TTCTTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (22 bp):
AAATTCTCGCGTTTCTAAAAAA
Found at i:8403070 original size:38 final size:35
Alignment explanation
Indices: 8402990--8403093 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 35
8402980 TCACTTTTTA
*
8402990 TAAAAAAAATTTC-TCGTTTCAGAAATTCTCGCGTTT
1 TAAAAAAAATTTCGT-GTTTCA-AAATTCTCGCATTT
* *
8403026 CTAAAAAAAAATTTCGTGTTTCTAAAATTCTTGTATTT
1 -T-AAAAAAAATTTCGTGTTTC-AAAATTCTCGCATTT
8403064 T-AAAAAAATTTCGTGTTTTCAAAAATTCTC
1 TAAAAAAAATTTCGTG-TTTC-AAAATTCTC
8403094 ATGTTTCAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
35 14 0.24
36 12 0.21
37 2 0.03
38 28 0.48
39 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (35 bp):
TAAAAAAAATTTCGTGTTTCAAAATTCTCGCATTT
Found at i:8403098 original size:18 final size:18
Alignment explanation
Indices: 8403032--8403209 Score: 137
Period size: 17 Copynumber: 10.3 Consensus size: 18
8403022 GTTTCTAAAA
8403032 AAAAATT-TCGTG-TTTC
1 AAAAATTCTCGTGTTTTC
* * * *
8403048 TAAAATTCTTGTATTTTAA
1 AAAAATTCTCGTGTTTT-C
8403067 AAAAATT-TCGTGTTTTC
1 AAAAATTCTCGTGTTTTC
*
8403084 AAAAATTCTCATG-TTTC
1 AAAAATTCTCGTGTTTTC
8403101 AAAAA-TCT-GTGTTTTC
1 AAAAATTCTCGTGTTTTC
8403117 -AAAATTC-CAGTG-TTTC
1 AAAAATTCTC-GTGTTTTC
8403133 AAAAATT-T-GTGTTTTC
1 AAAAATTCTCGTGTTTTC
* *
8403149 AAAAAAATTTCCCGTGTTTTT
1 --AAAAA-TTCTCGTGTTTTC
* *
8403170 AAAAATTCCCGT-CTTTC
1 AAAAATTCTCGTGTTTTC
*
8403187 AAAAATTTTCGTGTTTTC
1 AAAAATTCTCGTGTTTTC
8403205 AAAAA
1 AAAAA
8403210 ATTGACCGTT
Statistics
Matches: 128, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
15 9 0.07
16 23 0.18
17 41 0.32
18 35 0.27
19 13 0.10
21 7 0.05
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (18 bp):
AAAAATTCTCGTGTTTTC
Found at i:8403120 original size:15 final size:16
Alignment explanation
Indices: 8403076--8403153 Score: 79
Period size: 16 Copynumber: 4.8 Consensus size: 16
8403066 AAAAAATTTC
8403076 GTGTTTTCAAAAATTCT
1 GTGTTTTCAAAAA-TCT
*
8403093 CATG-TTTCAAAAATCT
1 -GTGTTTTCAAAAATCT
* *
8403109 GTGTTTTCAAAATTCCA
1 GTGTTTTCAAAAAT-CT
*
8403126 GTG-TTTCAAAAATTT
1 GTGTTTTCAAAAATCT
8403141 GTGTTTTCAAAAA
1 GTGTTTTCAAAAA
8403154 AATTTCCCGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
15 5 0.10
16 30 0.60
17 13 0.26
18 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (16 bp):
GTGTTTTCAAAAATCT
Found at i:8403131 original size:32 final size:32
Alignment explanation
Indices: 8403067--8403152 Score: 129
Period size: 32 Copynumber: 2.6 Consensus size: 32
8403057 TGTATTTTAA
8403067 AAAAATTTCGTGTTTTCAAAAATTCTCATGTTTC
1 AAAAATTT-GTGTTTTC-AAAATTCTCATGTTTC
*
8403101 AAAAATCTGTGTTTTCAAAATTC-CAGTGTTTC
1 AAAAATTTGTGTTTTCAAAATTCTCA-TGTTTC
8403133 AAAAATTTGTGTTTTCAAAA
1 AAAAATTTGTGTTTTCAAAA
8403153 AAATTTCCCG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
31 2 0.04
32 32 0.65
33 8 0.16
34 7 0.14
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (32 bp):
AAAAATTTGTGTTTTCAAAATTCTCATGTTTC
Found at i:8403230 original size:54 final size:53
Alignment explanation
Indices: 8403112--8403230 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 53
8403102 AAAATCTGTG
* * **
8403112 TTTTCAAAATTCCAGTGTTTCAAAAATTTGTGTTTTCAAAAAAATTTCCCGTGT
1 TTTTAAAAATTCCAGTCTTTCAAAAATTTGTGTTTTCAAAAAAATTGACCG-GT
*
8403166 TTTTAAAAATTCCCGTCTTTCAAAAATTTTCGTGTTTTC-AAAAAATTGACC-GT
1 TTTTAAAAATTCCAGTCTTTCAAAAA-TTT-GTGTTTTCAAAAAAATTGACCGGT
8403219 TTTTAATAAATT
1 TTTTAA-AAATT
8403231 TTCATGTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
53 8 0.14
54 28 0.49
55 13 0.23
56 8 0.14
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (53 bp):
TTTTAAAAATTCCAGTCTTTCAAAAATTTGTGTTTTCAAAAAAATTGACCGGT
Found at i:8403336 original size:20 final size:19
Alignment explanation
Indices: 8403308--8403367 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
8403298 TTTGTGTTTT
8403308 AAAAAAATTCGTGTTTCAA
1 AAAAAAATTCGTGTTTCAA
8403327 AAAGAAAATTCGTGTTTTC--
1 AAA-AAAATTCGTG-TTTCAA
8403346 AAAAAAATCTCGTGTTTCAA
1 AAAAAAAT-TCGTGTTTCAA
8403366 AA
1 AA
8403368 TTTTCGTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 9 0.25
19 11 0.31
20 12 0.33
21 4 0.11
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (19 bp):
AAAAAAATTCGTGTTTCAA
Found at i:8403342 original size:37 final size:39
Alignment explanation
Indices: 8403284--8403367 Score: 127
Period size: 37 Copynumber: 2.2 Consensus size: 39
8403274 ATTTTTATGT
* * *
8403284 TTTCAAAAATAAATTTTGTGTTTT-AAAAAAAT-TCGTG
1 TTTCAAAAAGAAAATTCGTGTTTTCAAAAAAATCTCGTG
8403321 TTTCAAAAAGAAAATTCGTGTTTTCAAAAAAATCTCGTG
1 TTTCAAAAAGAAAATTCGTGTTTTCAAAAAAATCTCGTG
8403360 TTTCAAAA
1 TTTCAAAA
8403368 TTTTCGTGTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
37 21 0.50
38 8 0.19
39 13 0.31
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (39 bp):
TTTCAAAAAGAAAATTCGTGTTTTCAAAAAAATCTCGTG
Found at i:8406532 original size:19 final size:19
Alignment explanation
Indices: 8406487--8406547 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
8406477 ATCTAATTAC
8406487 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
8406508 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
8406527 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
8406546 AA
1 AA
8406548 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:8412855 original size:24 final size:24
Alignment explanation
Indices: 8412828--8412882 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
8412818 TAAAAATAAT
8412828 TATATTAAAAATTTTATTAAATTA
1 TATATTAAAAATTTTATTAAATTA
*** *
8412852 TATATTTTTATTTTTATTAAATTA
1 TATATTAAAAATTTTATTAAATTA
8412876 TAT-TTAA
1 TATATTAA
8412883 TAATAATTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTAAAAATTTTATTAAATTA
Found at i:8413332 original size:23 final size:21
Alignment explanation
Indices: 8413306--8413382 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 21
8413296 AAATTAAATT
8413306 ATTTTTAATGATTTTTTATAATA
1 ATTTTTAATGATTTTTT-T-ATA
8413329 ATTTTT-ATGATTTTTTTATA
1 ATTTTTAATGATTTTTTTATA
* *
8413349 ATGTTATAATGAATTTTTTTATG
1 AT-TTTTAATG-ATTTTTTTATA
*
8413372 ATTTTTTATGA
1 ATTTTTAATGA
8413383 AAAGGTCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
20 5 0.11
21 5 0.11
22 19 0.40
23 18 0.38
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (21 bp):
ATTTTTAATGATTTTTTTATA
Found at i:8413382 original size:22 final size:23
Alignment explanation
Indices: 8413317--8413383 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
8413307 TTTTTAATGA
*
8413317 TTTTTTATAATAATTTTTATG-AT
1 TTTTTTATAAT-GTTTTTATGAAT
* *
8413340 TTTTTTATAATGTTATAATGAAT
1 TTTTTTATAATGTTTTTATGAAT
*
8413363 TTTTTTATGAT-TTTTTATGAA
1 TTTTTTATAATGTTTTTATGAA
8413384 AAGGTCATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTTTTATAATGTTTTTATGAAT
Found at i:8416165 original size:15 final size:15
Alignment explanation
Indices: 8416149--8416253 Score: 138
Period size: 15 Copynumber: 7.0 Consensus size: 15
8416139 TAACTTTGGG
* *
8416149 GGTGGCGGCTATGGG
1 GGTGGTGGCTATGGC
8416164 GGTGGTGGCTATGGC
1 GGTGGTGGCTATGGC
*
8416179 GGTGGTGGCTACGGC
1 GGTGGTGGCTATGGC
*
8416194 GGTGGTGGCTATGGA
1 GGTGGTGGCTATGGC
* *
8416209 GGCGGTGGCTATGGT
1 GGTGGTGGCTATGGC
*
8416224 GGTGGTGGCTATGGT
1 GGTGGTGGCTATGGC
*
8416239 GGTGGTGACTATGGC
1 GGTGGTGGCTATGGC
8416254 AGAAATGCTG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 80 1.00
ACGTcount: A:0.09, C:0.12, G:0.53, T:0.26
Consensus pattern (15 bp):
GGTGGTGGCTATGGC
Found at i:8420999 original size:29 final size:26
Alignment explanation
Indices: 8420933--8421035 Score: 90
Period size: 25 Copynumber: 4.0 Consensus size: 26
8420923 AAAAAATTAT
*
8420933 AAAA-AATT-AATATATATAATTAAA
1 AAAATAATTAAATATATATAATAAAA
*
8420957 AAAATAA-AAAATATATAT-ATAAAA
1 AAAATAATTAAATATATATAATAAAA
**
8420981 TAAAAGTAATTAAATATATATAA-ATTA
1 -AAAA-TAATTAAATATATATAATAAAA
* *
8421008 AAAATTATTAAAAAATATATAATAAAA
1 AAAATAATT-AAATATATATAATAAAA
8421035 A
1 A
8421036 GAAACCTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
24 9 0.15
25 19 0.31
26 18 0.29
27 15 0.24
28 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (26 bp):
AAAATAATTAAATATATATAATAAAA
Found at i:8447188 original size:15 final size:15
Alignment explanation
Indices: 8447168--8447201 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8447158 AAAGAAAGTC
8447168 CAAACTTAATGTCCA
1 CAAACTTAATGTCCA
*
8447183 CAAACTTAATGTCCT
1 CAAACTTAATGTCCA
8447198 CAAA
1 CAAA
8447202 ACCAGTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (15 bp):
CAAACTTAATGTCCA
Found at i:8448228 original size:12 final size:11
Alignment explanation
Indices: 8448150--8448239 Score: 98
Period size: 11 Copynumber: 8.4 Consensus size: 11
8448140 TAAAAATTAA
8448150 AAAAAGTATTTT
1 AAAAA-TATTTT
8448162 AAAAATATTTT
1 AAAAATATTTT
*
8448173 TAAAATATTTT
1 AAAAATATTTT
8448184 AAAAATATTTT
1 AAAAATATTTT
*
8448195 --AAA-A-TTA
1 AAAAATATTTT
* *
8448202 AAAAATAATTA
1 AAAAATATTTT
8448213 AAAAAGTATTTT
1 AAAAA-TATTTT
8448225 AAAAATATTTT
1 AAAAATATTTT
8448236 AAAA
1 AAAA
8448240 TTAAAAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
7 2 0.03
8 1 0.01
9 6 0.09
10 1 0.01
11 44 0.65
12 14 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:8448230 original size:41 final size:39
Alignment explanation
Indices: 8448174--8448259 Score: 145
Period size: 41 Copynumber: 2.2 Consensus size: 39
8448164 AAATATTTTT
8448174 AAAATATTTTAAAAATATTTTAAAATTAAAAAATAATTAA
1 AAAATATTTTAAAAATATTTTAAAATTAAAAAA-AATTAA
*
8448214 AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTAAAAAAAATTAA
8448254 AAAATA
1 AAAATA
8448260 AATATATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
39 2 0.05
40 13 0.30
41 29 0.66
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (39 bp):
AAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTAA
Found at i:8448230 original size:52 final size:54
Alignment explanation
Indices: 8448135--8448239 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 54
8448125 ACCAAAAATT
* * *
8448135 TATTTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTTAAAATATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAGTAATTAAAAAATATTTTAAAAATATTTTAAAAA
8448189 TATTTT-AAAATT-AAAAAA-TAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAAATTAAAAAAAGTAATTAAAAAA-TATTTTAAAAATATTTTAAAA
8448240 TTAAAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
51 9 0.19
52 26 0.55
53 6 0.13
54 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (54 bp):
TATTTTAAAAATTAAAAAAAGTAATTAAAAAATATTTTAAAAATATTTTAAAAA
Found at i:8448269 original size:17 final size:17
Alignment explanation
Indices: 8448224--8448269 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
8448214 AAAAGTATTT
* *
8448224 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
8448241 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
8448258 TAAATATATTTA
1 TAAAAATATTTA
8448270 TTATATCGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:8457370 original size:20 final size:21
Alignment explanation
Indices: 8457342--8457381 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8457332 CGCTTTTTGG
*
8457342 ATAAGATATATT-ATTTAATA
1 ATAAAATATATTAATTTAATA
*
8457362 ATAAAATATTTTAATTTAAT
1 ATAAAATATATTAATTTAAT
8457382 TTTAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
ATAAAATATATTAATTTAATA
Found at i:8476308 original size:5 final size:5
Alignment explanation
Indices: 8476285--8476327 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
8476275 TTTTTATGTT
*
8476285 TTATA -TATA TTAT- TT-TA TTATA TTATA TTGTA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
8476328 AAATTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 8 0.24
5 24 0.73
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:8476313 original size:15 final size:15
Alignment explanation
Indices: 8476290--8476327 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
8476280 ATGTTTTATA
8476290 TATATTAT-TT-TAT
1 TATATTATATTGTAT
8476303 TATATTATATTGTAT
1 TATATTATATTGTAT
8476318 TATATTATAT
1 TATATTATAT
8476328 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.35
14 2 0.09
15 13 0.57
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TATATTATATTGTAT
Found at i:8477544 original size:23 final size:23
Alignment explanation
Indices: 8477517--8477584 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
8477507 CCTTGCCGAC
8477517 CAGGCACTTTATGTGTCGTATCT
1 CAGGCACTTTATGTGTCGTATCT
* *
8477540 CAGGCACTTTATGTGTCTTATAT
1 CAGGCACTTTATGTGTCGTATCT
* **
8477563 CAGGCACCTCGTGTGTCGTATC
1 CAGGCACTTTATGTGTCGTATC
8477585 AGGCACCTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (23 bp):
CAGGCACTTTATGTGTCGTATCT
Found at i:8477584 original size:21 final size:21
Alignment explanation
Indices: 8477560--8477611 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
8477550 ATGTGTCTTA
8477560 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
*
8477581 TATCAGGCACCTCGTGTGTTG
1 TATCAGGCACCTCGTGTGTCG
*
8477602 TTTCAGGCAC
1 TATCAGGCAC
8477612 TTATATGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (21 bp):
TATCAGGCACCTCGTGTGTCG
Found at i:8491724 original size:60 final size:61
Alignment explanation
Indices: 8491626--8491750 Score: 243
Period size: 60 Copynumber: 2.1 Consensus size: 61
8491616 AAGTTTTCAA
8491626 TTGGAACAATAGCTGCACATAATTCGCTTGGTTTTACCAGTCCATGCTCTCAAACTTGTTT
1 TTGGAACAATAGCTGCACATAATTCGCTTGGTTTTACCAGTCCATGCTCTCAAACTTGTTT
8491687 TTGG-ACAATAGCTGCACATAATTCGCTTGGTTTTACCAGTCCATGCTCTCAAACTTGTTT
1 TTGGAACAATAGCTGCACATAATTCGCTTGGTTTTACCAGTCCATGCTCTCAAACTTGTTT
8491747 TTGG
1 TTGG
8491751 TTATTTGGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 60 0.94
61 4 0.06
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (61 bp):
TTGGAACAATAGCTGCACATAATTCGCTTGGTTTTACCAGTCCATGCTCTCAAACTTGTTT
Found at i:8497058 original size:22 final size:22
Alignment explanation
Indices: 8497015--8497074 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
8497005 TACTCATATT
*
8497015 TATATTTTTAAA-ATATTCATA
1 TATATTATTAAATATATTCATA
*
8497036 TTTATTATTAAATATATAT-ATA
1 TATATTATTAAATATAT-TCATA
8497058 TATATTAATATAAATAT
1 TATATT-AT-TAAATAT
8497075 TTTTCAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 10 0.31
22 12 0.38
23 3 0.09
24 7 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATTATTAAATATATTCATA
Found at i:8497166 original size:20 final size:21
Alignment explanation
Indices: 8497138--8497183 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
8497128 TTATAATAAA
* *
8497138 ATTGTAATATTAAATAAT-TT
1 ATTGAAATAATAAATAATATT
*
8497158 ATTGAAATAATGAATAATATT
1 ATTGAAATAATAAATAATATT
8497179 ATTGA
1 ATTGA
8497184 TTATAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
ATTGAAATAATAAATAATATT
Found at i:8500376 original size:17 final size:18
Alignment explanation
Indices: 8500341--8500378 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
8500331 AATATTCTAA
*
8500341 AAAACGTATTTTTATTTT
1 AAAACGTATTTTTACTTT
*
8500359 AAAACGT-TTTTTCCTTT
1 AAAACGTATTTTTACTTT
8500376 AAA
1 AAA
8500379 GAAAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (18 bp):
AAAACGTATTTTTACTTT
Found at i:8502167 original size:31 final size:31
Alignment explanation
Indices: 8502108--8502170 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
8502098 ATTTCAATCA
*
8502108 TTATACTTTTCGAATTGGTAAATTTTAGTCC
1 TTATACTTTTCGAATTGGTAAATATTAGTCC
**
8502139 TTATACTTTTC-AATTTTTGAAATATTAGTCC
1 TTATACTTTTCGAATTGGT-AAATATTAGTCC
8502170 T
1 T
8502171 GGCTCAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.51
Consensus pattern (31 bp):
TTATACTTTTCGAATTGGTAAATATTAGTCC
Found at i:8506345 original size:6 final size:6
Alignment explanation
Indices: 8506334--8506359 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8506324 GGACAACCTT
8506334 GAATTA GAATTA GAATTA GAATTA GA
1 GAATTA GAATTA GAATTA GAATTA GA
8506360 TGTAATATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (6 bp):
GAATTA
Found at i:8521610 original size:12 final size:12
Alignment explanation
Indices: 8521593--8521620 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8521583 CTAAATCCTT
8521593 TCTCTAATATTC
1 TCTCTAATATTC
8521605 TCTCTAATATTC
1 TCTCTAATATTC
8521617 TCTC
1 TCTC
8521621 AAATTCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTCTAATATTC
Found at i:8521626 original size:22 final size:22
Alignment explanation
Indices: 8521591--8521655 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
8521581 AACTAAATCC
8521591 TTTCTCT-AATATTCTCTCT-AA
1 TTTCTCTCAA-ATTCTCTCTCAA
8521612 TATTCTCTCAAATTC-CTCTCAA
1 T-TTCTCTCAAATTCTCTCTCAA
*
8521634 TTTGCTCTCAATTTC-CTCTCAA
1 TTT-CTCTCAAATTCTCTCTCAA
8521656 ATTCCTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 7 0.18
22 30 0.77
23 2 0.05
ACGTcount: A:0.23, C:0.29, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTCTCTCAAATTCTCTCTCAA
Found at i:8521632 original size:11 final size:11
Alignment explanation
Indices: 8521616--8521661 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
8521606 CTCTAATATT
8521616 CTCTCAAATTC
1 CTCTCAAATTC
* *
8521627 CTCTCAATTTG
1 CTCTCAAATTC
*
8521638 CTCTCAATTTC
1 CTCTCAAATTC
8521649 CTCTCAAATTC
1 CTCTCAAATTC
8521660 CT
1 CT
8521662 ATTTAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.22, C:0.35, G:0.02, T:0.41
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:8523531 original size:18 final size:18
Alignment explanation
Indices: 8523490--8523531 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8523480 GCCAGGGGCG
* *
8523490 TATCCTAACCCTTTTATG
1 TATCCTAACCCTTATATA
8523508 TATCCTAACCCTTATATA
1 TATCCTAACCCTTATATA
*
8523526 TTTCCT
1 TATCCT
8523532 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:8524162 original size:20 final size:21
Alignment explanation
Indices: 8524137--8524175 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
8524127 TTCAATTTAC
8524137 TAGATTATT-TTTTA-ATAAAA
1 TAGATT-TTCTTTTATATAAAA
8524157 TAGATTTTCTTTTATATAA
1 TAGATTTTCTTTTATATAA
8524176 GTCAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (21 bp):
TAGATTTTCTTTTATATAAAA
Found at i:8527164 original size:44 final size:44
Alignment explanation
Indices: 8527101--8527184 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
8527091 GGCCATGCAC
* *
8527101 TACTGTAGCAAAAGTGCGTCAACGTGGGAGCTTTTTTCAGGGGT
1 TACTGTAGCAAAAGTGCGTCAACGTGGGAACTTCTTTCAGGGGT
* *
8527145 TACTGTAGCAAATGTGCGTCCACGTGGGAACTTCTTTCAG
1 TACTGTAGCAAAAGTGCGTCAACGTGGGAACTTCTTTCAG
8527185 TACTTTTGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (44 bp):
TACTGTAGCAAAAGTGCGTCAACGTGGGAACTTCTTTCAGGGGT
Found at i:8527464 original size:125 final size:126
Alignment explanation
Indices: 8527132--8527558 Score: 588
Period size: 126 Copynumber: 3.4 Consensus size: 126
8527122 ACGTGGGAGC
* *** *
8527132 TTTTTTCAGGGGTTACTGTAGCAAATGTGCGTCCACGTGGGAACTTCTTTCAGTACTTT-TGCTG
1 TTTTTTCAGGGGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTA-TTTCTGCTG
* * *
8527196 ACAAAGCCTCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAAAAACGTCTACTCAAAATTA
65 ACAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * * *
8527258 TTTTTTCAGGGGCTACTGTAGCAAAAATGCGTCCACATGGGAGCTTATTTCAGTACTTCTGCTGA
1 TTTTTTCAGGGGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTATTTCTGCTGA
* * *
8527323 CAAAACATCCTGCTTAAAGCATTTTTGACACTGTTTGCTCAGAAACGTCTACTCGGAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* *
8527384 TTTTTT-AGGGGATACTGTAGTAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTATTTCTGCTGA
1 TTTTTTCAGGGGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTATTTCTGCTGA
* * * *
8527448 CAAAGCATCATTCTTAAAGTGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* ** * * *
8527509 TTTTCTCAGGACCTATTGTAGCAAAAGCGCGTCCACGTGGGATCTTCTTT
1 TTTTTTCAGGGGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTT
8527559 AAATTAACAA
Statistics
Matches: 265, Mismatches: 34, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
125 113 0.43
126 152 0.57
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
TTTTTTCAGGGGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTATTTCTGCTGA
CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
Found at i:8527693 original size:97 final size:96
Alignment explanation
Indices: 8527581--8527888 Score: 307
Period size: 96 Copynumber: 3.2 Consensus size: 96
8527571 ATATTAAATT
* * * *
8527581 AAGTAACCCTAAACCCTAATTTATTTAAATTTTTACTTAAAAATCCTAAACACTAAGCCCTAAAT
1 AAGTAACCCTAAACCCTAATTTATTT-GATTTTTTCTTAAAAACCCTAAACACTAAACCCT-AAT
* *
8527646 -TAATTTATTAAA-AATTTATAATTAATTTACTC
64 CTAAATT-TTAAATAATTTATAATTAAATTACTC
* * * *
8527678 AAGTAACCTTGAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTTAACTCTAAACCCTAATCT
1 AAGTAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCT
** *
8527743 AAATTTTAAATTTTTTTTAATTAAATTACTC
66 AAATTTTAAATAATTTATAATTAAATTACTC
* * ** ** *
8527774 AAGTAACCCTAAACCCTAAGTTAATTGATTTTTTCTTAAAAACAATAAACAC-AAAAACTAATCC
1 AAGTAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCT
* * * * * *
8527838 AATTTTTAAAAAAATTATAATTAATTTAATT
66 AAATTTTAAATAATTTATAATTAAATTACTC
* **
8527869 GACAAACCCTAAACCCTAAT
1 AAGTAACCCTAAACCCTAAT
8527889 CCCTTACTTA
Statistics
Matches: 172, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
95 55 0.32
96 93 0.54
97 24 0.14
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (96 bp):
AAGTAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCT
AAATTTTAAATAATTTATAATTAAATTACTC
Found at i:8532663 original size:12 final size:12
Alignment explanation
Indices: 8532646--8532686 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
8532636 TTTACTTTAA
8532646 ATATATTCATAT
1 ATATATTCATAT
8532658 ATATA-T-ATAT
1 ATATATTCATAT
*
8532668 ATATATTCACAT
1 ATATATTCATAT
8532680 ATATATT
1 ATATATT
8532687 ATTTTACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 9 0.35
11 2 0.08
12 15 0.58
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATATTCATAT
Found at i:8533258 original size:13 final size:12
Alignment explanation
Indices: 8533236--8533300 Score: 67
Period size: 13 Copynumber: 5.1 Consensus size: 12
8533226 AACATTCAAA
8533236 ATTTTCAAAAGC
1 ATTTTCAAAAGC
8533248 ATTTCTCAAAAGC
1 ATTT-TCAAAAGC
* *
8533261 ACTTTTCCACAGC
1 A-TTTTCAAAAGC
*
8533274 ACTTCTCAAAAGC
1 A-TTTTCAAAAGC
8533287 ACTTTTCAAAAGC
1 A-TTTTCAAAAGC
8533300 A
1 A
8533301 ATGAAGAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
12 4 0.09
13 38 0.84
14 3 0.07
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (12 bp):
ATTTTCAAAAGC
Found at i:8533300 original size:26 final size:26
Alignment explanation
Indices: 8533237--8533300 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
8533227 ACATTCAAAA
*
8533237 TTTTCAAAAGCATTTCTCAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
* *
8533263 TTTTCCACAGCACTTCTCAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
8533289 TTTTCAAAAGCA
1 TTTTCAAAAGCA
8533301 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.30
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGCAC
Found at i:8533924 original size:13 final size:13
Alignment explanation
Indices: 8533908--8533973 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
8533898 TTTAAACCAA
8533908 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
8533921 ACTTCTCAAAGGC
1 ACTTTTCAAAAGC
* *
8533934 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
8533947 ACTTTTCAAGAGC
1 ACTTTTCAAAAGC
*
8533960 AGTTTTCAAAAGC
1 ACTTTTCAAAAGC
8533973 A
1 A
8533974 ATAAAGAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:8535847 original size:20 final size:20
Alignment explanation
Indices: 8535807--8535852 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
8535797 TTTTTTAAAT
8535807 AATTTTTTATATATTTTT-A
1 AATTTTTTATATATTTTTAA
8535826 AATTTTTTA-ATATTTATATAA
1 AATTTTTTATATATTT-T-TAA
8535847 AATTTT
1 AATTTT
8535853 AGATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
20 1 0.04
21 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTTTTATATATTTTTAA
Found at i:8536821 original size:17 final size:16
Alignment explanation
Indices: 8536788--8536830 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
8536778 TTTACTTAAA
*
8536788 CTTATTTTTTAAGTCT
1 CTTATTTTTTAACTCT
8536804 CATT-TTTTTTAATCTCT
1 C-TTATTTTTTAA-CTCT
8536821 CTTATTTTTT
1 CTTATTTTTT
8536831 GAATGAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.67
Consensus pattern (16 bp):
CTTATTTTTTAACTCT
Found at i:8543028 original size:29 final size:28
Alignment explanation
Indices: 8542981--8543039 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
8542971 GTTATTTTTC
*
8542981 AATTAAATTTAGTTCTTAACCTTTAAAAA
1 AATTAAATTTAGATCTTAA-CTTTAAAAA
*
8543010 AATTAAATTTA-ATCATTAATTTTAAAAA
1 AATTAAATTTAGATC-TTAACTTTAAAAA
8543038 AA
1 AA
8543040 GAGTCGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (28 bp):
AATTAAATTTAGATCTTAACTTTAAAAA
Found at i:8561675 original size:2 final size:2
Alignment explanation
Indices: 8561668--8561692 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8561658 ATCTTGCAAC
8561668 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8561693 ACATTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8571429 original size:6 final size:6
Alignment explanation
Indices: 8571392--8571440 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
8571382 CCAAACAAAC
* * *
8571392 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA TAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
8571441 TTCAACACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:8571480 original size:45 final size:45
Alignment explanation
Indices: 8571418--8571575 Score: 190
Period size: 45 Copynumber: 3.4 Consensus size: 45
8571408 GTAACGGTAG
* * *
8571418 CAGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGTTGAAC
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTTGAAA
* *
8571463 CTGTAATAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAGTCGATAA
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGT----T-GA-AA
* * *
8571514 CAGTAATAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTTGAAA
8571559 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
8571576 GTCGACACAT
Statistics
Matches: 98, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
45 53 0.54
46 2 0.02
49 1 0.01
50 2 0.02
51 40 0.41
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTTGAAA
Found at i:8571520 original size:51 final size:50
Alignment explanation
Indices: 8571418--8571575 Score: 193
Period size: 51 Copynumber: 3.2 Consensus size: 50
8571408 GTAACGGTAG
* * *
8571418 CAGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGT---T-GA-AC
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGATCGATAA
* *
8571463 CTGTAATAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAGTCGATAA
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGA-TCGATAA
*
8571514 CAGTAATAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATC-AGTAA
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCG-ATCGA-TAA
8571565 CAGTAACAGTA
1 CAGTAACAGTA
8571576 GTCGACACAT
Statistics
Matches: 98, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
45 36 0.37
49 1 0.01
50 3 0.03
51 57 0.58
52 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (50 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGATCGATAA
Found at i:8572552 original size:9 final size:9
Alignment explanation
Indices: 8572538--8572587 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
8572528 CATTTGAATA
8572538 AATAATTAT
1 AATAATTAT
8572547 AATAATTAT
1 AATAATTAT
8572556 -ATACA-TAT
1 AATA-ATTAT
8572564 AATAATTAT
1 AATAATTAT
8572573 ATATAACTTA-
1 A-ATAA-TTAT
8572583 AATAA
1 AATAA
8572588 AATCTTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
10 5 0.14
11 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (9 bp):
AATAATTAT
Found at i:8573459 original size:14 final size:14
Alignment explanation
Indices: 8573416--8573467 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
8573406 TTAAAATAAA
8573416 TAAATAATTATTCATT
1 TAAATAA-TATT-ATT
*
8573432 TAATATTATAATTATT
1 TAA-ATAAT-ATTATT
8573448 TAAATAATATTATT
1 TAAATAATATTATT
8573462 TAAATA
1 TAAATA
8573468 GTCAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 12 0.38
15 4 0.12
16 10 0.31
17 6 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATAATATTATT
Found at i:8577459 original size:14 final size:14
Alignment explanation
Indices: 8577442--8577469 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8577432 CTCACATTTC
8577442 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
8577456 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
8577470 GATTTCTGCT
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:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:8577460 original size:19 final size:18
Alignment explanation
Indices: 8577422--8577466 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
8577412 TACGGTACGC
8577422 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
8577439 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
8577458 TTCTTTTCT
1 TTCTTTTCT
8577467 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:8580543 original size:35 final size:37
Alignment explanation
Indices: 8580504--8580580 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 37
8580494 TTATTAAATT
8580504 ATATTTAATAATA-ATTATGTTAA-AATATGATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
* * * *
8580539 ATATTT-ATATTATATTATTTTAATAATCTTATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
8580575 AT-TTTA
1 ATATTTA
8580581 TAACAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.14
35 18 0.51
36 12 0.34
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
ATATTTAATAATATATTATGTTAATAATATGATTAAA
Found at i:8580770 original size:45 final size:41
Alignment explanation
Indices: 8580652--8580773 Score: 124
Period size: 45 Copynumber: 2.9 Consensus size: 41
8580642 TTTTTCCCTT
* *
8580652 ATGCTATTACACCTCTATTCCATT-CAACCAAGC--ACAAGA
1 ATGCTATTACGCCTCTATTCCATTACAA-CAACCAAACAAGA
* * *
8580691 ATACTATTACGCATCTATTCCATTACATTCAACCAAACAATTGA
1 ATGCTATTACGCCTCTATTCCATTACA-ACAACCAAACAA--GA
8580735 ATTGCTATTACGCCTCTATTCCATTACAACGAACCAAAC
1 A-TGCTATTACGCCTCTATTCCATTACAAC-AACCAAAC
8580774 GTGCCGTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
39 21 0.31
40 6 0.09
42 4 0.06
44 4 0.06
45 32 0.48
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (41 bp):
ATGCTATTACGCCTCTATTCCATTACAACAACCAAACAAGA
Found at i:8586895 original size:37 final size:37
Alignment explanation
Indices: 8586841--8586923 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
8586831 AGTAATAAAA
* * *
8586841 CACACCGAAATGCTATGCCCGAAGGCTAAATCAATAT
1 CACACCGAAATGATATGCCCAAAGGCTAAAACAATAT
*
8586878 CACACC-AAAGTGATATGCCCAAAGGCTAAAACAGTAT
1 CACACCGAAA-TGATATGCCCAAAGGCTAAAACAATAT
*
8586915 CACATCGAA
1 CACACCGAA
8586924 GTGTTACGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 3 0.08
37 34 0.87
38 2 0.05
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.17
Consensus pattern (37 bp):
CACACCGAAATGATATGCCCAAAGGCTAAAACAATAT
Found at i:8615325 original size:104 final size:103
Alignment explanation
Indices: 8614981--8615349 Score: 605
Period size: 103 Copynumber: 3.6 Consensus size: 103
8614971 AACCGTTATT
* *
8614981 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
8615046 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
*
8615084 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
8615149 ATTAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
* *
8615187 GGTGGATATCGCACTTAGTACCACCAATGAAATCGGGGAATCAACACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
8615252 AATCAGCACATAGCAACCCCCTTTCGCATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATAC
* **
8615292 GGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
8615350 TTTATATACA
Statistics
Matches: 248, Mismatches: 15, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
103 127 0.51
104 82 0.33
105 38 0.15
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
Found at i:8615713 original size:30 final size:29
Alignment explanation
Indices: 8615679--8615743 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8615669 TAATCCACCA
8615679 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
8615709 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
8615739 CCCAA
1 CCCAA
8615744 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:8615717 original size:31 final size:30
Alignment explanation
Indices: 8615686--8615743 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8615676 CCACCCAACT
8615686 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
8615716 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
8615744 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:8621683 original size:93 final size:92
Alignment explanation
Indices: 8621516--8621728 Score: 291
Period size: 93 Copynumber: 2.3 Consensus size: 92
8621506 ACTTAGCGAG
* ** * **
8621516 GTGTCTGTTTTATAACTTGTGAATTTTGCTAAACGCCTTAAGTGGCTAGTAGTTCATCTGCTATT
1 GTGTCTGCTTTATAACTTGTGAATTTTGCTAAACGCCTTAAAAGGCTAGCAGTTCATCTGCTAGC
*
8621581 AAACATAGTGAGTAGTTTATCTCTCGGA
66 AAACATAGTGAGTAGTTTACCTCT-GGA
*
8621609 GTGTCTGCTTTATAACTTGTGAATTTTGCTAAACGTCTTAAAAGGCTAGCAGTTCATCTGCTAGC
1 GTGTCTGCTTTATAACTTGTGAATTTTGCTAAACGCCTTAAAAGGCTAGCAGTTCATCTGCTAGC
* *
8621674 AAACTTAGTGAGTAGTTTACCTCTTGA
66 AAACATAGTGAGTAGTTTACCTCTGGA
* * *
8621701 GATGTTTGCTTTATAAGTTATGAATTTT
1 G-TGTCTGCTTTATAACTTGTGAATTTT
8621729 TCTATAAGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
92 3 0.03
93 103 0.97
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (92 bp):
GTGTCTGCTTTATAACTTGTGAATTTTGCTAAACGCCTTAAAAGGCTAGCAGTTCATCTGCTAGC
AAACATAGTGAGTAGTTTACCTCTGGA
Found at i:8621736 original size:19 final size:19
Alignment explanation
Indices: 8621712--8621751 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8621702 ATGTTTGCTT
8621712 TATAAGTTATGAATTTTTC
1 TATAAGTTATGAATTTTTC
8621731 TATAAGTTATGAATTTTTC
1 TATAAGTTATGAATTTTTC
8621750 TA
1 TA
8621752 AGTGCTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (19 bp):
TATAAGTTATGAATTTTTC
Found at i:8623906 original size:59 final size:59
Alignment explanation
Indices: 8623775--8623908 Score: 207
Period size: 59 Copynumber: 2.3 Consensus size: 59
8623765 AAGTTGTGGA
8623775 TTTAGTCCTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTCCTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
* * * *
8623834 TTTAATCAC-TATACTTAATTTGGTCAATTTTGGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTC-CTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
*
8623893 TTTTGTCCTTATACTT
1 TTTAGTCCTTATACTT
8623909 TTCAAATTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
58 1 0.01
59 65 0.97
60 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (59 bp):
TTTAGTCCTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
Found at i:8623909 original size:31 final size:31
Alignment explanation
Indices: 8623775--8623916 Score: 100
Period size: 31 Copynumber: 4.8 Consensus size: 31
8623765 AAGTTGTGGA
* *
8623775 TTTAGTCCTTATAC--TT-AATTTGATCAAT
1 TTTAGTCCTTATACTTTTAAAATTGGTCAAT
* * **
8623803 TGTAGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTCCTTATACTTTTAAAATTGGTCAAT
* *
8623834 TTTAATCAC-TATAC--TT-AATTTGGTCAAT
1 TTTAGTC-CTTATACTTTTAAAATTGGTCAAT
* * **
8623862 TTTGGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTCCTTATACTTTTAAAATTGGTCAAT
* *
8623893 TTTTGTCCTTATACTTTTCAAATT
1 TTTAGTCCTTATACTTTTAAAATT
8623917 TTAAAATTTT
Statistics
Matches: 83, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
27 1 0.01
28 28 0.34
29 2 0.02
30 4 0.05
31 47 0.57
32 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTAGTCCTTATACTTTTAAAATTGGTCAAT
Found at i:8627874 original size:3 final size:3
Alignment explanation
Indices: 8627853--8627896 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
8627843 CAAAGCTTCC
* *
8627853 CCA CCG CCA CCA CCG CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
8627897 TCCTGGTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.27, C:0.68, G:0.05, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:8629471 original size:106 final size:105
Alignment explanation
Indices: 8629286--8629481 Score: 252
Period size: 106 Copynumber: 1.8 Consensus size: 105
8629276 TCATGGAATT
* ** *
8629286 TAGGTAAAAAGATGCCTTTCTGGACATTTATTAAATAATTTGTGTTTATTACCATGTAACTTTAT
1 TAGGTAAAAAGATGCCTTTCTGGAAATTTATTAAATAA-TTGCATTTATTACCATGAAACTTTAT
* *
8629351 AAAACCATCATAATGGTTATTATTTCCCCCCTTCTCCGCTG
65 AAAACCATCATAATGATGATTATTTCCCCCCTTCTCCGCTG
* * *
8629392 TAGGT-AAAGGATGCCTTTCTGGAAATTTATTAAATGA-TGCATTTATTGCCTGTATGAAACTTT
1 TAGGTAAAAAGATGCCTTTCTGGAAATTTATTAAATAATTGCATTTATTACC---ATGAAACTTT
*
8629455 ATAAAATCATCATAATGATGATTATTT
63 ATAAAACCATCATAATGATGATTATTT
8629482 TCCTGTTCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
103 10 0.13
105 29 0.38
106 38 0.49
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (105 bp):
TAGGTAAAAAGATGCCTTTCTGGAAATTTATTAAATAATTGCATTTATTACCATGAAACTTTATA
AAACCATCATAATGATGATTATTTCCCCCCTTCTCCGCTG
Found at i:8641783 original size:31 final size:28
Alignment explanation
Indices: 8641741--8641815 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 28
8641731 AAATATTTTT
8641741 ATTTTTTTAATTTTAAAATACTTTTTTAAA
1 ATTTTTTTAATTTTAAAATA--TTTTTAAA
8641771 ATTTTTTGTAATTTTAAAATATTTTTAAA
1 ATTTTTT-TAATTTTAAAATATTTTTAAA
*
8641800 ATACTTTTTAAATTTT
1 AT--TTTTTTAATTTT
8641816 TTTTAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
29 10 0.24
30 13 0.32
31 18 0.44
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (28 bp):
ATTTTTTTAATTTTAAAATATTTTTAAA
Found at i:8641813 original size:40 final size:42
Alignment explanation
Indices: 8641751--8641842 Score: 161
Period size: 40 Copynumber: 2.2 Consensus size: 42
8641741 ATTTTTTTAA
8641751 TTTTAAAATACTTTTTTAAAATTTTTTGTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAAATTTTTTGTAATTTTAAAATAT
*
8641793 TTTTAAAATAC-TTTTT-AAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAAATTTTTTGTAATTTTAAAATAT
8641833 TTTTAAAATA
1 TTTTAAAATA
8641843 AATTTTTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 33 0.67
41 5 0.10
42 11 0.22
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (42 bp):
TTTTAAAATACTTTTTTAAAATTTTTTGTAATTTTAAAATAT
Found at i:8641836 original size:11 final size:11
Alignment explanation
Indices: 8641782--8641842 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
8641772 TTTTTTGTAA
8641782 TTTTAAAATAT
1 TTTTAAAATAT
8641793 TTTTAAAATACT
1 TTTTAAAATA-T
8641805 TTTT-AAAT-T
1 TTTTAAAATAT
* *
8641814 TTTT---TTAA
1 TTTTAAAATAT
8641822 TTTTAAAATAT
1 TTTTAAAATAT
8641833 TTTTAAAATA
1 TTTTAAAATA
8641843 AATTTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.02
8 4 0.10
9 5 0.12
11 26 0.63
12 5 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:8641878 original size:22 final size:21
Alignment explanation
Indices: 8641829--8641878 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
8641819 TAATTTTAAA
8641829 ATATTTTTAAAATAAATTTTT
1 ATATTTTTAAAATAAATTTTT
*
8641850 TTAATTTTTAAAATAAATTTTT
1 AT-ATTTTTAAAATAAATTTTT
8641872 GATATTT
1 -ATATTT
8641879 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATTTTTAAAATAAATTTTT
Found at i:8644447 original size:6 final size:6
Alignment explanation
Indices: 8644436--8644468 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
8644426 AAACTTACAT
8644436 ACATGA ACATGA ACATGA ACATGA ACATGA ACA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACA
8644469 GTAGTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (6 bp):
ACATGA
Found at i:8651290 original size:21 final size:22
Alignment explanation
Indices: 8651244--8651293 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
8651234 ACGTCTCAAC
8651244 TTTATTATTTTAACTAAAGACA
1 TTTATTATTTTAACTAAAGACA
* * *
8651266 -TTATTATTTTTA-TAAATATA
1 TTTATTATTTTAACTAAAGACA
8651286 TTTATTAT
1 TTTATTAT
8651294 GTAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTATTATTTTAACTAAAGACA
Found at i:8656521 original size:9 final size:9
Alignment explanation
Indices: 8656504--8656543 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
8656494 ATTTAATTGG
8656504 TAATTAATT
1 TAATTAATT
*
8656513 TAGTTAATT
1 TAATTAATT
8656522 TAATTAATT
1 TAATTAATT
* *
8656531 AAAATAATT
1 TAATTAATT
8656540 TAAT
1 TAAT
8656544 AATATTTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
TAATTAATT
Found at i:8660113 original size:16 final size:16
Alignment explanation
Indices: 8660072--8660113 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
8660062 AAATAATTTA
8660072 TTAAAAATT-AAAAAT
1 TTAAAAATTAAAAAAT
*
8660087 TAAAAAAATTAAAAAAT
1 T-TAAAAATTAAAAAAT
*
8660104 TTAAATATTA
1 TTAAAAATTA
8660114 GTTCAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.05
16 14 0.64
17 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAAATTAAAAAAT
Found at i:8662195 original size:29 final size:31
Alignment explanation
Indices: 8662162--8662226 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
8662152 ATACTTCAGA
* *
8662162 TATCACATTAAATATTTT-C-AAAGTATAAG
1 TATCACATTAAACATTTTACTAAAGTACAAG
*
8662191 TATCACATTAGACATTTTACTAAAGTACAAG
1 TATCACATTAAACATTTTACTAAAGTACAAG
8662222 TATCA
1 TATCA
8662227 AATAATATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.52
30 1 0.03
31 14 0.45
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (31 bp):
TATCACATTAAACATTTTACTAAAGTACAAG
Found at i:8662253 original size:31 final size:31
Alignment explanation
Indices: 8662218--8662319 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
8662208 TACTAAAGTA
*
8662218 CAAGTATCAAATAATATACAAATTGATAGTT
1 CAAGTATCAAATAATATACAATTTGATAGTT
* * * * *
8662249 CAAGTA-C-CATATTAGACATTTTATGAAAGTAT
1 CAAGTATCAAATAATATACA-ATT-TGATAGT-T
*
8662281 -AAGTACCAAATAATATACAATTTGATAGTT
1 CAAGTATCAAATAATATACAATTTGATAGTT
*
8662311 CAGGTATCA
1 CAAGTATCA
8662320 TATTAGACAT
Statistics
Matches: 52, Mismatches: 13, Indels: 12
0.68 0.17 0.16
Matches are distributed among these distances:
29 8 0.15
30 3 0.06
31 29 0.56
32 4 0.08
33 8 0.15
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (31 bp):
CAAGTATCAAATAATATACAATTTGATAGTT
Found at i:8662263 original size:62 final size:62
Alignment explanation
Indices: 8662188--8662332 Score: 220
Period size: 62 Copynumber: 2.3 Consensus size: 62
8662178 TTCAAAGTAT
* *
8662188 AAGTATCACATTAGACATTTTACT-AAAGTACAAGTATCAAATAATATACAAATTGATAGTTC
1 AAGTATCATATTAGACATTTTA-TGAAAGTACAAGTACCAAATAATATACAAATTGATAGTTC
* * *
8662250 AAGTACCATATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAATTTGATAGTTC
1 AAGTATCATATTAGACATTTTATGAAAGTACAAGTACCAAATAATATACAAATTGATAGTTC
*
8662312 AGGTATCATATTAGACATTTT
1 AAGTATCATATTAGACATTTT
8662333 CGAAGTATTA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
61 1 0.01
62 74 0.99
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (62 bp):
AAGTATCATATTAGACATTTTATGAAAGTACAAGTACCAAATAATATACAAATTGATAGTTC
Found at i:8662647 original size:20 final size:21
Alignment explanation
Indices: 8662614--8662652 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
8662604 AGAATTTTAA
8662614 TAGAAAGAGAAGA-GAGAATC
1 TAGAAAGAGAAGAGGAGAATC
8662634 TAGAAAGATG-AGAGGAGAA
1 TAGAAAGA-GAAGAGGAGAA
8662653 AGATAGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.33, T:0.10
Consensus pattern (21 bp):
TAGAAAGAGAAGAGGAGAATC
Found at i:8673920 original size:78 final size:78
Alignment explanation
Indices: 8673786--8673942 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
8673776 ATGCAAGTTT
* * * * *
8673786 CGAGTGTTGCTGTCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACCATTGCGAATTCAG
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
8673851 TCCTCATTAACCC
66 TCCTCATTAACCC
* * * *
8673864 CGAGTGTCGCTGCCTTATCAATGGAAGCTAAGCCAATTAAGTTAGAATCACAATTGCAAATTCAC
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
**
8673929 TCCTTGTTAACCC
66 TCCTCATTAACCC
8673942 C
1 C
8673943 TTGACTAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
TCCTCATTAACCC
Found at i:8674129 original size:34 final size:34
Alignment explanation
Indices: 8674086--8674153 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
8674076 TTAAATGTAG
8674086 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
8674120 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
8674154 GAATTTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
Found at i:8675847 original size:93 final size:92
Alignment explanation
Indices: 8675715--8675909 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
8675705 TTGATTTTAG
* *
8675715 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
8675779 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
8675807 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
8675872 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
8675900 CAAATTCATA
1 TAAATTCATA
8675910 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:8675967 original size:17 final size:17
Alignment explanation
Indices: 8675942--8675975 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8675932 ATAATTTTAA
*
8675942 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
8675959 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
8675976 TTGATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:8675984 original size:17 final size:18
Alignment explanation
Indices: 8675946--8675985 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
8675936 TTTTAAATTT
*
8675946 TATTAAATCATATATTTA
1 TATTAAATCATATATTGA
8675964 -ATTAAATCATAT-TTGA
1 TATTAAATCATATATTGA
8675980 TATTAA
1 TATTAA
8675986 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTGA
Found at i:8676100 original size:15 final size:15
Alignment explanation
Indices: 8676065--8676199 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
8676055 TTAAGAATTT
*
8676065 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8676079 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8676093 TATTTAATAATAAT-
1 TATTTAATTATAATA
8676107 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
8676121 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
8676136 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
8676158 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8676172 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8676186 TATTTAATAATAAT
1 TATTTAATTATAAT
8676200 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8676109 original size:120 final size:119
Alignment explanation
Indices: 8675941--8676159 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
8675931 AATAATTTTA
* * *
8675941 AATTTTATTAAATCATATATTTAATTAAATCATATTTGATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
8676004 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
8676060 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
8676124 TACAGTATCATATATTATGATTTGAGTAAATTCATA
64 TACAGTATCATATATTATGATTTGAGTAAATTCATA
8676160 TTAAATTATA
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
119 23 0.25
120 63 0.69
121 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:8676188 original size:16 final size:16
Alignment explanation
Indices: 8676167--8676208 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8676157 ATATTAAATT
*
8676167 ATATATTTTAATTATA
1 ATATATTTTAATAATA
8676183 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
8676198 AT-TATGTTTAA
1 ATATAT-TTTAA
8676209 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Done.