Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 98 of 126
Found at i:29909170 original size:16 final size:16
Alignment explanation
Indices: 29909149--29909190 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
29909139 TTATTAAATT
*
29909149 ATATATTTTAATTATA
1 ATATATTTTAATAATA
29909165 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
29909180 AT-TATGTTTAA
1 ATATAT-TTTAA
29909191 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
Found at i:29909175 original size:15 final size:15
Alignment explanation
Indices: 29909140--29909181 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29909130 ATAAAAATTT
*
29909140 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29909154 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29909168 TATTTAATAATAAT
1 TATTTAATTATAAT
29909182 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29909275 original size:137 final size:136
Alignment explanation
Indices: 29908998--29909432 Score: 516
Period size: 137 Copynumber: 3.0 Consensus size: 136
29908988 AATTATTAAG
**** *
29908998 AATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTA
*
29909063 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAAC-A-AAT-TTCTGC
66 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATAATATT-TAC
* *
29909125 TAATTATAAA
130 CAA--A-ACA
29909135 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTA
29909200 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTAC
66 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATAAT-ATTTAC
29909265 CAAAACA
130 CAAAACA
* *
29909272 AATTTATGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
1 AA-TT-T--T-A-T-T-A-AA--TTA-TATATT-T-TA-ATT-A-T--AATATATTTAATAATAA
* *
29909337 TTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATCATCTTATTAAAATTTAAATAAC
47 TTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAAC
29909402 AATAACAATAATCATTTACCAAAACA
112 AATAACAATAAT-ATTTACCAAAACA
29909428 AATTT
1 AATTT
29909433 ATGCTAAGGG
Statistics
Matches: 262, Mismatches: 13, Indels: 29
0.86 0.04 0.10
Matches are distributed among these distances:
137 116 0.44
138 4 0.02
139 4 0.02
140 4 0.02
141 3 0.01
142 1 0.00
143 1 0.00
144 1 0.00
145 1 0.00
146 2 0.01
148 3 0.01
149 5 0.02
150 1 0.00
151 2 0.01
152 2 0.01
153 1 0.00
154 2 0.01
155 2 0.01
156 107 0.41
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (136 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTA
AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATAATATTTACC
AAAACA
Found at i:29909295 original size:156 final size:156
Alignment explanation
Indices: 29909112--29909439 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
29909102 AAATAACAAT
* *
29909112 AACAAATTTCTGCTAATTATAAAAATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
1 AACAAATTTATGCTAATTATAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
29909177 ATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAA
29909242 TAACAATAACAATAATAATTTACCAA
131 TAACAATAACAATAATAATTTACCAA
*
29909268 AACAAATTTATGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAAATTTATGCTAATTATAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
29909333 ATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATCATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAA
*
29909398 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATAATTTACCAA
29909424 AACAAATTTATGCTAA
1 AACAAATTTATGCTAA
29909440 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (156 bp):
AACAAATTTATGCTAATTATAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATAATTTACCAA
Found at i:29909320 original size:18 final size:17
Alignment explanation
Indices: 29909292--29909326 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29909282 AATTATAAGA
*
29909292 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
29909309 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
29909327 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:29909570 original size:45 final size:41
Alignment explanation
Indices: 29909472--29909581 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
29909462 TTTTCCATTA
29909472 TGCTATTACACCTCTATTCCATT-C-AACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACAAACCAAACACAAGAT
* * ***
29909511 TACTATTACGCCTCTATTCCATTACATTTAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACA---AACCAAACACAAGA-T
* *
29909556 TGCTATTACACCTCTAATCCAATACA
1 TGCTATTACACCTCTATTCCATTACA
29909582 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 21 0.38
40 1 0.02
44 11 0.20
45 23 0.41
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (41 bp):
TGCTATTACACCTCTATTCCATTACAAACCAAACACAAGAT
Found at i:29909583 original size:16 final size:16
Alignment explanation
Indices: 29909562--29909597 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
29909552 GATTTGCTAT
29909562 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29909578 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29909594 TACA
1 TACA
29909598 GCAACCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:29911595 original size:35 final size:35
Alignment explanation
Indices: 29911567--29911642 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
29911557 TGTCTCACTG
*
29911567 AAGGGCCTATAAACCGTTTACACAGTGTCGCCTCA
1 AAGGACCTATAAACCGTTTACACAGTGTCGCCTCA
* ** *
29911602 AAGGACCTATAAATCGTTTACATGGTGTCGCCTTA
1 AAGGACCTATAAACCGTTTACACAGTGTCGCCTCA
29911637 AAGGAC
1 AAGGAC
29911643 AAGTCAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (35 bp):
AAGGACCTATAAACCGTTTACACAGTGTCGCCTCA
Found at i:29922946 original size:3 final size:3
Alignment explanation
Indices: 29922932--29922979 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
29922922 AAGGGCCCAA
* * * *
29922932 ATT ATC ATT ATT ATT ATT ACT ATT AAT ATT ATT ATT AAAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
29922978 AT
1 AT
29922980 CTTTTTTTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:29922974 original size:13 final size:12
Alignment explanation
Indices: 29922938--29922979 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
29922928 CCAAATTATC
*
29922938 ATTATTATTATT
1 ATTATTAATATT
*
29922950 ACTATTAATATT
1 ATTATTAATATT
29922962 ATTATTAAATATT
1 ATTATT-AATATT
29922975 ATTAT
1 ATTAT
29922980 CTTTTTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:29923569 original size:153 final size:152
Alignment explanation
Indices: 29923325--29923934 Score: 731
Period size: 153 Copynumber: 4.0 Consensus size: 152
29923315 GATTTTTATT
* *
29923325 AAAAAGAGAAAATTTAGATTTTAAAAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAATTT
1 AAAAAGAGAAAATTTAAATTTTAAAAATAAAAATATGTTTTTT-AGTCATTTTAAAGGAAAGTTT
* * *
29923390 AAAAATTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAATATAAAAGCTTTGATCTTTAAGA
65 AAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAGA
29923455 AAAGTAGTGATTTTTTTAAGAAA
130 AAAGTAGTGATTTTTTTAAGAAA
*
29923478 AAAAAGGAGAAAATTTAAATTTTAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGGAAAGTTT
1 AAAAA-GAGAAAATTTAAATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTT
* * * *
29923543 AAAATTTTAAAACAAATTTTTTATTTTTTTCAACTATTTCAAAATAAAAGTTTTTATCTTTAAGA
65 AAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAGA
29923608 AAAGTAGTGATTATTTTTAAAAGAAAA
130 AAAGTAGTGATT-TTTTT--AAG-AAA
* * *
29923635 AAAAAGAGGAAGTTTAGATTTTAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAAGTT
1 AAAAAGAGAAAATTTAAATTTTAAAAATAAAAATATG--TTTTTTAGTCATTTTAAAGGAAAGTT
* *
29923700 TAAAATTTTAAAACAAAGTTTTAATTTTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAA
64 TAAAATTTTAAAACAAAGTTTTGA-TTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAA
*
29923765 GAAAAATAGT-ATTTTTTT------
128 GAAAAGTAGTGATTTTTTTAAGAAA
* * ** * * * *
29923783 --AAAGAG--AGTTTAGATTTTTTTAAATAAAAATCTATTTTTTAGTCATTTTAAAGAAAATGTG
1 AAAAAGAGAAAATTTA-AATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAA-GTT
** * ** * *
29923844 TAGATTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAAT-AAAGTTTTGATTTTTAA
64 TA-AAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAA
*
29923908 GAAAAGTAGTGATTTTGTTAAAGAAA
128 GAAAAGTAGTGATTTT-TTTAAGAAA
29923934 A
1 A
29923935 CTTTTATTTT
Statistics
Matches: 399, Mismatches: 38, Indels: 41
0.83 0.08 0.09
Matches are distributed among these distances:
143 45 0.11
144 34 0.09
145 36 0.09
146 6 0.02
153 95 0.24
154 42 0.11
156 32 0.08
157 13 0.03
158 50 0.13
159 46 0.12
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (152 bp):
AAAAAGAGAAAATTTAAATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTA
AAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAGAA
AAGTAGTGATTTTTTTAAGAAA
Found at i:29923633 original size:144 final size:142
Alignment explanation
Indices: 29923485--29923934 Score: 481
Period size: 158 Copynumber: 3.0 Consensus size: 142
29923475 AAAAAAAAGG
*
29923485 AGAAAATTTAAATTTTAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGGAAAGTTTAAAATTT
1 AGAAAATTTAAATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTT
* * *
29923550 TAAAACAAATTTTTTATTTTTTTCAACTATTTCAAAATAAAAGTTTTTATCTTTAAGAAAAGTAG
66 TAAAACAAAGTTTTAATTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAAGAAAAGTAG
29923615 TGATTATTTTTAAA
131 TGATT-TTTTT-AA
*
29923629 AGAAAAAAAAAGAGGAAGTTTAGATTTTAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGG
1 AG--------A-A--AA-TTTAAATTTTAAAAATAAAAATATG--TTTTTTAGTCATTTTAAAGG
**
29923694 AAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTTTTTCAACTATTTCAAAATAAAAACTTTGAT
52 AAAGTTTAAAATTTTAAAACAAAGTTTTAA-TTTTTTTCAACTATTTCAAAATAAAAGTTTTGAT
*
29923759 CTTTAAGAAAAATAGT-ATTTTTTTAA
116 CTTTAAGAAAAGTAGTGATTTTTTTAA
* * * ** * * * * **
29923785 AGAGAGTTTAGATTTTTTTAAATAAAAATCTATTTTTTAGTCATTTTAAAGAAAATGTGTAGATT
1 AGAAAATTTA-AATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAA-GTTTA-AAA
* * ** *
29923850 TTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAAT-AAAGTTTTGATTTTTAAGAAAAG
63 TTTTAAAACAAAGTTTTAATTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAAGAAAAG
*
29923914 TAGTGATTTTGTTAA
128 TAGTGATTTTTTTAA
29923929 AGAAAA
1 AGAAAA
29923935 CTTTTATTTT
Statistics
Matches: 256, Mismatches: 31, Indels: 38
0.79 0.10 0.12
Matches are distributed among these distances:
143 45 0.18
144 42 0.16
145 35 0.14
148 1 0.00
152 1 0.00
153 1 0.00
155 2 0.01
156 28 0.11
157 5 0.02
158 50 0.20
159 46 0.18
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (142 bp):
AGAAAATTTAAATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTT
TAAAACAAAGTTTTAATTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAAGAAAAGTAG
TGATTTTTTTAA
Found at i:29923944 original size:144 final size:143
Alignment explanation
Indices: 29923674--29923938 Score: 345
Period size: 143 Copynumber: 1.8 Consensus size: 143
29923664 AAAATATGTT
* * *
29923674 TTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTTTTTCAACTAT
1 TTTTTTAGTCATTTTAAAGAAAAGTGTAAAATTTTAAAACAAAGTTTTAATTCTTTTTCAACTAT
* * *
29923739 TTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGTATTTTTTTAAAGAGAGTTTAGATTTTTTT
66 TTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGTATTTTGTTAAAGAAACTTTAGATTTTTTT
29923804 AAATAAAAATCTA
131 AAATAAAAATCTA
** *
29923817 TTTTTTAGTCATTTTAAAGAAAATGTGTAGATTTTTTAAAACAAAGTTTTGA-TCTTTTTCAACT
1 TTTTTTAGTCATTTTAAAGAAAA-GTGTA-AAATTTTAAAACAAAGTTTTAATTCTTTTTCAACT
** ** * *
29923881 ATTTTGAAAT-AAAGTTTTGATTTTTAAGAAAAGTAGTGATTTTGTTAAAGAAAACTTT
64 ATTTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGT-ATTTTGTTAAAG-AAACTTT
29923939 TATTTTGCAA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
143 45 0.44
144 34 0.33
145 24 0.23
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (143 bp):
TTTTTTAGTCATTTTAAAGAAAAGTGTAAAATTTTAAAACAAAGTTTTAATTCTTTTTCAACTAT
TTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGTATTTTGTTAAAGAAACTTTAGATTTTTTT
AAATAAAAATCTA
Found at i:29923956 original size:144 final size:143
Alignment explanation
Indices: 29923647--29923956 Score: 331
Period size: 144 Copynumber: 2.2 Consensus size: 143
29923637 AAAGAGGAAG
* * * * *
29923647 TTTAGATTTT-AAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAA
1 TTTAGATTTTGCAAAA-AAAAA-ATCTATTTTTTAGTCATTTTAAAGAAAAGTGTAAAATTTTAA
*
29923711 AACAAAGTTTTAATTTTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGTA
64 AACAAAGTTTTAATTCTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGTA
* * *
29923776 TTTTTTTAAAGAGAG
129 TTTTGTTAAAGAAAC
*** * **
29923791 TTTAGATTTTTTTAAATAAAAATCTATTTTTTAGTCATTTTAAAGAAAATGTGTAGATTTTTTAA
1 TTTAGATTTTGCAAAAAAAAAATCTATTTTTTAGTCATTTTAAAGAAAA-GTGTA-AAATTTTAA
* ** ** * *
29923856 AACAAAGTTTTGA-TCTTTTTCAACTATTTTGAAAT-AAAGTTTTGATTTTTAAGAAAAGTAGTG
64 AACAAAGTTTTAATTCTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGT-
29923919 ATTTTGTTAAAGAAAAC
128 ATTTTGTTAAAG-AAAC
*
29923936 TTT-TATTTTGCAAAAAAAAAA
1 TTTAGATTTTGCAAAAAAAAAA
29923957 ATTCAGCCAC
Statistics
Matches: 136, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
143 48 0.35
144 61 0.45
145 27 0.20
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (143 bp):
TTTAGATTTTGCAAAAAAAAAATCTATTTTTTAGTCATTTTAAAGAAAAGTGTAAAATTTTAAAA
CAAAGTTTTAATTCTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGTATT
TTGTTAAAGAAAC
Found at i:29937655 original size:33 final size:33
Alignment explanation
Indices: 29937604--29937672 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
29937594 TATCGAATCT
* * *
29937604 ACTTCCTCTAAAGCATACCTGTTAGTTTACTTC
1 ACTTCCCCCAAAGAATACCTGTTAGTTTACTTC
29937637 ACTTCCCCCAAAGAATACCTGTTAGTTTACTTC
1 ACTTCCCCCAAAGAATACCTGTTAGTTTACTTC
29937670 ACT
1 ACT
29937673 ATTTGCTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.36
Consensus pattern (33 bp):
ACTTCCCCCAAAGAATACCTGTTAGTTTACTTC
Found at i:29938586 original size:14 final size:14
Alignment explanation
Indices: 29938567--29938606 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
29938557 TTGATTGGCT
29938567 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
29938581 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
29938595 GGAAAATGTTTT
1 GTAAAATGTTTT
29938607 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:29938619 original size:34 final size:35
Alignment explanation
Indices: 29938575--29938641 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
29938565 CTGTAAAATG
* *
29938575 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
29938609 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
29938642 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:29938628 original size:20 final size:20
Alignment explanation
Indices: 29938590--29938629 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29938580 CGTAAAATGA
**
29938590 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
29938610 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
29938630 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:29946234 original size:25 final size:23
Alignment explanation
Indices: 29946203--29946258 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 23
29946193 AATTAACATG
29946203 AATTATTTTAAATATATAATATAT
1 AATTATTTTAAATATATAA-ATAT
*
29946227 AATATATTTTAAATATTTAAATAT
1 AAT-TATTTTAAATATATAAATAT
29946251 AATTATTT
1 AATTATTT
29946259 GTAATTAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 5 0.17
24 10 0.33
25 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATTTTAAATATATAAATAT
Found at i:29949366 original size:30 final size:30
Alignment explanation
Indices: 29949330--29949387 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
29949320 GACCATGCCA
29949330 GTCATAGCAAATTGGTACTTATGGTCTTAT
1 GTCATAGCAAATTGGTACTTATGGTCTTAT
29949360 GTCATAGCAAATTGGTACTTATGGTCTT
1 GTCATAGCAAATTGGTACTTATGGTCTT
29949388 GTACAAATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (30 bp):
GTCATAGCAAATTGGTACTTATGGTCTTAT
Found at i:29949799 original size:74 final size:74
Alignment explanation
Indices: 29949678--29949826 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
29949668 CATCAGAAGC
*
29949678 TGCATGCGAGCCAATGGCACCTTAAGAGGCATGAAACTTTACACAGTTAGAATCTTCACATTTAC
1 TGCATGCGAGCCAATGGCACCTCAAGAGGCATGAAACTTTACACAGTTAGAATCTTCACATTTAC
29949743 CCCTAAAGT
66 CCCTAAAGT
29949752 TGCATGCGAGCCAATGGCACCTCAAGAGGCATGAAACTTTACACAGTTAGAATCTTCACATTTAC
1 TGCATGCGAGCCAATGGCACCTCAAGAGGCATGAAACTTTACACAGTTAGAATCTTCACATTTAC
29949817 CCCTAAAGT
66 CCCTAAAGT
29949826 T
1 T
29949827 CAGACTTCAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (74 bp):
TGCATGCGAGCCAATGGCACCTCAAGAGGCATGAAACTTTACACAGTTAGAATCTTCACATTTAC
CCCTAAAGT
Found at i:29950920 original size:18 final size:18
Alignment explanation
Indices: 29950882--29950925 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29950872 GCTTCGAAAC
* **
29950882 GGGAAAGGGAAGGGGTGG
1 GGGAAAGGGAAGGAGAAG
29950900 GGGAAAGGGAAGGAGAAG
1 GGGAAAGGGAAGGAGAAG
29950918 GGGAAAGG
1 GGGAAAGG
29950926 AGAGAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.61, T:0.02
Consensus pattern (18 bp):
GGGAAAGGGAAGGAGAAG
Found at i:29951529 original size:15 final size:15
Alignment explanation
Indices: 29951509--29951540 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
29951499 TCAAATCAAG
29951509 ATGTGAGAGCCTGAT
1 ATGTGAGAGCCTGAT
29951524 ATGTGAGAGCCTGAT
1 ATGTGAGAGCCTGAT
29951539 AT
1 AT
29951541 TCTCAAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.28
Consensus pattern (15 bp):
ATGTGAGAGCCTGAT
Found at i:29951755 original size:77 final size:77
Alignment explanation
Indices: 29951622--29951778 Score: 287
Period size: 77 Copynumber: 2.0 Consensus size: 77
29951612 CTCTTTCTAC
*
29951622 TTTAAGGATCGATGAATGTGGTATTAAAGCCATTACTTAGGAAGAGTGTCCAGGTTTTATGTATT
1 TTTAAGGATCGATGAATGTGGGATTAAAGCCATTACTTAGGAAGAGTGTCCAGGTTTTATGTATT
29951687 TATTTATGATAT
66 TATTTATGATAT
**
29951699 TTTAAGGATCGATGAATGTGGGATTAAAGCCATTACTTAGGAAGAGTGTCGTGGTTTTATGTATT
1 TTTAAGGATCGATGAATGTGGGATTAAAGCCATTACTTAGGAAGAGTGTCCAGGTTTTATGTATT
29951764 TATTTATGATAT
66 TATTTATGATAT
29951776 TTT
1 TTT
29951779 GGTGTTTTCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (77 bp):
TTTAAGGATCGATGAATGTGGGATTAAAGCCATTACTTAGGAAGAGTGTCCAGGTTTTATGTATT
TATTTATGATAT
Found at i:29961667 original size:22 final size:21
Alignment explanation
Indices: 29961642--29961690 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
29961632 AAGAATGCCC
29961642 AACAACTAATCCTTACCAAAGG
1 AACAAC-AATCCTTACCAAAGG
* * *
29961664 AACAACCATGCTTACCTAAGG
1 AACAACAATCCTTACCAAAGG
29961685 AACAAC
1 AACAAC
29961691 CACGAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (21 bp):
AACAACAATCCTTACCAAAGG
Found at i:29961679 original size:21 final size:21
Alignment explanation
Indices: 29961653--29961692 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
29961643 ACAACTAATC
29961653 CTTACCAAAGGAACAACCATG
1 CTTACCAAAGGAACAACCATG
*
29961674 CTTACCTAAGGAACAACCA
1 CTTACCAAAGGAACAACCA
29961693 CGAAACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.15
Consensus pattern (21 bp):
CTTACCAAAGGAACAACCATG
Found at i:29962149 original size:21 final size:21
Alignment explanation
Indices: 29962101--29962149 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
29962091 CTACTCAACA
29962101 AAATTAAAA--AAAAAAATAT
1 AAATTAAAACTAAAAAAATAT
*
29962120 TAATTAAAACTAAAAAAATA-
1 AAATTAAAACTAAAAAAATAT
29962140 AAATTGAAAA
1 AAATT-AAAA
29962150 GAAAATGCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATTAAAACTAAAAAAATAT
Found at i:29962780 original size:12 final size:11
Alignment explanation
Indices: 29962753--29962786 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
29962743 TATATATATT
29962753 TAAAAATAATA
1 TAAAAATAATA
29962764 TAAAAATAATA
1 TAAAAATAATA
29962775 TAAAAATTAATA
1 TAAAAA-TAATA
29962787 CGGGTGGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:29965389 original size:30 final size:30
Alignment explanation
Indices: 29965354--29965480 Score: 148
Period size: 30 Copynumber: 4.3 Consensus size: 30
29965344 CAAAAAATAA
*
29965354 AAAATTGCATTTTGACCCCTAAATTTTTTT
1 AAAATTACATTTTGACCCCTAAATTTTTTT
* * *
29965384 AAAATTATATTTTGACCCCTAAACTTGTTT
1 AAAATTACATTTTGACCCCTAAATTTTTTT
* * *
29965414 AAAATTACATTTTAACCCATAAA-ATTTTT
1 AAAATTACATTTTGACCCCTAAATTTTTTT
* * * *
29965443 AAAATTACGTTTTGACCCCAAAATTTTCTC
1 AAAATTACATTTTGACCCCTAAATTTTTTT
29965473 AAAATTAC
1 AAAATTAC
29965481 GTTTAGATAC
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
29 23 0.29
30 57 0.71
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAATTTTTTT
Found at i:29965477 original size:59 final size:60
Alignment explanation
Indices: 29965354--29965480 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 60
29965344 CAAAAAATAA
* * * * * *
29965354 AAAATTGCATTTTGACCCCTAAATTTTTTTAAAATTATATTTTGACCCCTAAACTTGTTT
1 AAAATTACATTTTAACCCATAAATATTTTTAAAATTACATTTTGACCCCTAAAATTGTTT
*
29965414 AAAATTACATTTTAACCCATAAA-ATTTTTAAAATTACGTTTTGACCCC-AAAATT-TTCT
1 AAAATTACATTTTAACCCATAAATATTTTTAAAATTACATTTTGACCCCTAAAATTGTT-T
29965472 CAAAATTAC
1 -AAAATTAC
29965481 GTTTAGATAC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 2 0.03
58 6 0.10
59 30 0.52
60 20 0.34
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (60 bp):
AAAATTACATTTTAACCCATAAATATTTTTAAAATTACATTTTGACCCCTAAAATTGTTT
Found at i:29965761 original size:30 final size:30
Alignment explanation
Indices: 29965726--29965852 Score: 148
Period size: 30 Copynumber: 4.3 Consensus size: 30
29965716 CAAAAAATAA
*
29965726 AAAATTGCATTTTGACCCCTAAATTTTTTT
1 AAAATTACATTTTGACCCCTAAATTTTTTT
* * *
29965756 AAAATTATATTTTGACCCCTAAACTTGTTT
1 AAAATTACATTTTGACCCCTAAATTTTTTT
* * *
29965786 AAAATTACATTTTAACCCATAAA-ATTTTT
1 AAAATTACATTTTGACCCCTAAATTTTTTT
* * * *
29965815 AAAATTACGTTTTGACCCCAAAATTTTCTC
1 AAAATTACATTTTGACCCCTAAATTTTTTT
29965845 AAAATTAC
1 AAAATTAC
29965853 GTTTAGANTA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
29 23 0.29
30 57 0.71
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAATTTTTTT
Found at i:29965799 original size:372 final size:372
Alignment explanation
Indices: 29965114--29965859 Score: 1476
Period size: 372 Copynumber: 2.0 Consensus size: 372
29965104 TTGACAATCC
29965114 GATACCAGGGTGTTGGGCTATCCTAGCTCGAGATATAAGGTGTAGCCGTATGTAGTGGTGTTGCT
1 GATACCAGGGTGTTGGGCTATCCTAGCTCGAGATATAAGGTGTAGCCGTATGTAGTGGTGTTGCT
29965179 ACTTGTTTCATAAAAAAAAAAAAGTATAACTTGAAAGCCAAATCATAACTTCAACACTAATTTTT
66 ACTTGTTTCATAAAAAAAAAAAAGTATAACTTGAAAGCCAAATCATAACTTCAACACTAATTTTT
29965244 AGTTCTTCAAATATGTAAATGAGAATATTATTTACCTAATGTAATCACTGAATTTTGTCCGGCTC
131 AGTTCTTCAAATATGTAAATGAGAATATTATTTACCTAATGTAATCACTGAATTTTGTCCGGCTC
29965309 GATTTCGTGTTTTTTTTTTAAATTTCAAAAAAATACAAAAAATAAAAAATTGCATTTTGACCCCT
196 GATTTCGTGTTTTTTTTTTAAATTTCAAAAAAATACAAAAAATAAAAAATTGCATTTTGACCCCT
29965374 AAATTTTTTTAAAATTATATTTTGACCCCTAAACTTGTTTAAAATTACATTTTAACCCATAAAAT
261 AAATTTTTTTAAAATTATATTTTGACCCCTAAACTTGTTTAAAATTACATTTTAACCCATAAAAT
29965439 TTTTAAAATTACGTTTTGACCCCAAAATTTTCTCAAAATTACGTTTA
326 TTTTAAAATTACGTTTTGACCCCAAAATTTTCTCAAAATTACGTTTA
29965486 GATACCAGGGTGTTGGGCTATCCTAGCTCGAGATATAAGGTGTAGCCGTATGTAGTGGTGTTGCT
1 GATACCAGGGTGTTGGGCTATCCTAGCTCGAGATATAAGGTGTAGCCGTATGTAGTGGTGTTGCT
29965551 ACTTGTTTCAT-AAAAAAAAAAAGTATAACTTGAAAGCCAAATCATAACTTCAACACTAATTTTT
66 ACTTGTTTCATAAAAAAAAAAAAGTATAACTTGAAAGCCAAATCATAACTTCAACACTAATTTTT
29965615 AGTTCTTCAAATATGTAAATGAGAATATTATTTACCTAATGTAATCACTGAATTTTGTCCGGCTC
131 AGTTCTTCAAATATGTAAATGAGAATATTATTTACCTAATGTAATCACTGAATTTTGTCCGGCTC
29965680 GATTTCGTGTTTTTTTTTTAAAATTTCAAAAAAATACAAAAAATAAAAAATTGCATTTTGACCCC
196 GATTTCGTGTTTTTTTTTT-AAATTTCAAAAAAATACAAAAAATAAAAAATTGCATTTTGACCCC
29965745 TAAATTTTTTTAAAATTATATTTTGACCCCTAAACTTGTTTAAAATTACATTTTAACCCATAAAA
260 TAAATTTTTTTAAAATTATATTTTGACCCCTAAACTTGTTTAAAATTACATTTTAACCCATAAAA
29965810 TTTTTAAAATTACGTTTTGACCCCAAAATTTTCTCAAAATTACGTTTA
325 TTTTTAAAATTACGTTTTGACCCCAAAATTTTCTCAAAATTACGTTTA
29965858 GA
1 GA
29965860 NTATTTGAAA
Statistics
Matches: 373, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
371 137 0.37
372 236 0.63
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (372 bp):
GATACCAGGGTGTTGGGCTATCCTAGCTCGAGATATAAGGTGTAGCCGTATGTAGTGGTGTTGCT
ACTTGTTTCATAAAAAAAAAAAAGTATAACTTGAAAGCCAAATCATAACTTCAACACTAATTTTT
AGTTCTTCAAATATGTAAATGAGAATATTATTTACCTAATGTAATCACTGAATTTTGTCCGGCTC
GATTTCGTGTTTTTTTTTTAAATTTCAAAAAAATACAAAAAATAAAAAATTGCATTTTGACCCCT
AAATTTTTTTAAAATTATATTTTGACCCCTAAACTTGTTTAAAATTACATTTTAACCCATAAAAT
TTTTAAAATTACGTTTTGACCCCAAAATTTTCTCAAAATTACGTTTA
Found at i:29965849 original size:59 final size:60
Alignment explanation
Indices: 29965726--29965852 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 60
29965716 CAAAAAATAA
* * * * * *
29965726 AAAATTGCATTTTGACCCCTAAATTTTTTTAAAATTATATTTTGACCCCTAAACTTGTTT
1 AAAATTACATTTTAACCCATAAATATTTTTAAAATTACATTTTGACCCCTAAAATTGTTT
*
29965786 AAAATTACATTTTAACCCATAAA-ATTTTTAAAATTACGTTTTGACCCC-AAAATT-TTCT
1 AAAATTACATTTTAACCCATAAATATTTTTAAAATTACATTTTGACCCCTAAAATTGTT-T
29965844 CAAAATTAC
1 -AAAATTAC
29965853 GTTTAGANTA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 2 0.03
58 6 0.10
59 30 0.52
60 20 0.34
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (60 bp):
AAAATTACATTTTAACCCATAAATATTTTTAAAATTACATTTTGACCCCTAAAATTGTTT
Found at i:29966671 original size:17 final size:17
Alignment explanation
Indices: 29966632--29966675 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
29966622 TTTATTGCTC
*
29966632 TATTAACTAT-TAAAAT
1 TATTAAATATATAAAAT
29966648 T-TTAAATATATAAAAT
1 TATTAAATATATAAAAT
29966664 TATTAAATATAT
1 TATTAAATATAT
29966676 TTAAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAATATATAAAAT
Found at i:29966680 original size:19 final size:17
Alignment explanation
Indices: 29966639--29966682 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
29966629 CTCTATTAAC
29966639 TATTAAAATTTTAAATA
1 TATTAAAATTTTAAATA
29966656 TA-TAAAATTATTAAATA
1 TATTAAAATT-TTAAATA
29966673 TATTTAAAAT
1 TA-TTAAAAT
29966683 GAAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 11 0.46
19 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAAATTTTAAATA
Found at i:29969231 original size:122 final size:125
Alignment explanation
Indices: 29968921--29969303 Score: 515
Period size: 122 Copynumber: 3.0 Consensus size: 125
29968911 TTGGGTTAGT
* *
29968921 ACGAATAACATATAAGTTGTTCAAAGTACTAATGGAAAGAAGTCCATCAAATAAATAAGGTCTTG
1 ACGAATAACATATAAG-TGTTCAAAGTACTAATAGAAAGAAGTCCATCAAATAAATAAGGCCTTG
* * *
29968986 CAAAAGGAATTGCAAATAAGTTGCAATTATGGAATCC-TAGTAGTATTGCAAAAGTTTTCCTTTG
65 C-AAAGGAATTGCAAATAAATTGCAATTATGGAATCCTTA-T-GCA-T-C-AAAG----CC-ATG
* *
29969050 TGTTA-GT
119 T-TCATGA
29969057 ACGAATAACATATAAGTTGTTCAAAGTACTAATAGAAAGAAGTCCATCAAATAAATAAGGCCTTG
1 ACGAATAACATATAAG-TGTTCAAAGTACTAATAGAAAGAAGTCCATCAAATAAATAAGGCCTTG
29969122 CAAAGGAATTGCAAATAAATTGCAATTATGGAATCCTTATGCATCAAAGCCATGTTCATGA
65 CAAAGGAATTGCAAATAAATTGCAATTATGGAATCCTTATGCATCAAAGCCATGTTCATGA
* * *
29969183 AC-AAT-GCTTTTAA-TGTTCAAAGTACTAATAGAAAGAAGTCCATCAAATAAATAAGGCCTTGC
1 ACGAATAACATATAAGTGTTCAAAGTACTAATAGAAAGAAGTCCATCAAATAAATAAGGCCTTGC
29969245 AAAGGAATTGCAAATAAATTGCAATTATGGAATCCTTATGCATCAAAGCCATGTTCATG
66 AAAGGAATTGCAAATAAATTGCAATTATGGAATCCTTATGCATCAAAGCCATGTTCATG
29969304 TTCAATCCGT
Statistics
Matches: 235, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
122 108 0.46
124 5 0.02
125 5 0.02
126 6 0.03
127 2 0.01
131 4 0.02
132 1 0.00
133 1 0.00
134 2 0.01
135 35 0.15
136 66 0.28
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (125 bp):
ACGAATAACATATAAGTGTTCAAAGTACTAATAGAAAGAAGTCCATCAAATAAATAAGGCCTTGC
AAAGGAATTGCAAATAAATTGCAATTATGGAATCCTTATGCATCAAAGCCATGTTCATGA
Found at i:29980176 original size:25 final size:25
Alignment explanation
Indices: 29980142--29980194 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
29980132 CAAGTGAACA
*
29980142 GTCTGTTCTGACTAGGATAAAATGT
1 GTCTGTTCTGACTAAGATAAAATGT
29980167 GTCTGTTCTGACTAAGATAAAATGT
1 GTCTGTTCTGACTAAGATAAAATGT
29980192 GTC
1 GTC
29980195 GACTTAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (25 bp):
GTCTGTTCTGACTAAGATAAAATGT
Found at i:29997646 original size:7 final size:7
Alignment explanation
Indices: 29997634--29997660 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
29997624 ATATTTTTTT
29997634 ATTTGAC
1 ATTTGAC
29997641 ATTTGAC
1 ATTTGAC
29997648 ATTTGAC
1 ATTTGAC
29997655 ATTTGA
1 ATTTGA
29997661 ATTATCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (7 bp):
ATTTGAC
Found at i:30003254 original size:10 final size:10
Alignment explanation
Indices: 30003131--30003259 Score: 71
Period size: 10 Copynumber: 13.4 Consensus size: 10
30003121 CGAAAAAATG
30003131 ATAAAAAT-T
1 ATAAAAATAT
*
30003140 ATTAAAATCA-
1 ATAAAAAT-AT
30003150 ATAAAAATAT
1 ATAAAAATAT
30003160 -TAAAAAT-T
1 ATAAAAATAT
*
30003168 ATAGAATTATAT
1 ATA-AA-AATAT
*
30003180 ATAGAAATAT
1 ATAAAAATAT
30003190 ATAAAAATAT
1 ATAAAAATAT
** *
30003200 AT-TCAATTT
1 ATAAAAATAT
30003209 ATGAAAAAT-T
1 AT-AAAAATAT
*
30003219 ATTAAAAT-T
1 ATAAAAATAT
*
30003228 -TGAAAAT-T
1 ATAAAAATAT
30003236 ACT-AAAATAT
1 A-TAAAAATAT
30003246 ATAAAAATAT
1 ATAAAAATAT
30003256 ATAA
1 ATAA
30003260 TTTTTTTAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
8 8 0.09
9 35 0.37
10 41 0.44
11 6 0.06
12 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:30006045 original size:16 final size:17
Alignment explanation
Indices: 30006019--30006051 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
30006009 ATTATTTCCC
30006019 TAATCTATTTTTATAAT
1 TAATCTATTTTTATAAT
30006036 TAAT-TATTTTTATAAT
1 TAATCTATTTTTATAAT
30006052 ATTTTTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATCTATTTTTATAAT
Found at i:30006934 original size:24 final size:22
Alignment explanation
Indices: 30006899--30006960 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 22
30006889 GGCGCGACCC
30006899 ATTTTTTTAATAATATAATTTT
1 ATTTTTTTAATAATATAATTTT
* *
30006921 ATTTTTTGTAAATATTATTATTTT
1 ATTTTTT-T-AATAATATAATTTT
30006945 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
30006961 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.21
23 1 0.03
24 20 0.61
25 2 0.06
26 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAATAATATAATTTT
Found at i:30010547 original size:16 final size:16
Alignment explanation
Indices: 30010526--30010590 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
30010516 TGCTCGTAAT
30010526 AATTTGAGTTTGAGAA
1 AATTTGAGTTTGAGAA
30010542 AATTTGAGTTTGA-AA
1 AATTTGAGTTTGAGAA
* *** *
30010557 AAGTTCGAGACCGAAAA
1 AA-TTTGAGTTTGAGAA
30010574 AATTTGAGTTTG-GAA
1 AATTTGAGTTTGAGAA
30010589 AA
1 AA
30010591 GCCTGAGTCT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
15 8 0.21
16 26 0.68
17 4 0.11
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.31
Consensus pattern (16 bp):
AATTTGAGTTTGAGAA
Found at i:30012195 original size:19 final size:20
Alignment explanation
Indices: 30012133--30012207 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
30012123 TTGAATTTTA
*
30012133 ATAAAAGAA-TATTAAAAAT-
1 ATAAAA-AATTATAAAAAATC
* *
30012152 ATTAAAAAAATATAAAAAATT
1 A-TAAAAAATTATAAAAAATC
**
30012173 ATAAAATTTTATAAAAAA-C
1 ATAAAAAATTATAAAAAATC
30012192 ATAAAAAATTATAAAA
1 ATAAAAAATTATAAAA
30012208 TGCATAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (20 bp):
ATAAAAAATTATAAAAAATC
Found at i:30012213 original size:19 final size:19
Alignment explanation
Indices: 30012154--30012217 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
30012144 TTAAAAATAT
* *
30012154 TAAAAAAATATAAAAAATTA
1 TAAAAAATTATAAAAAA-CA
**
30012174 TAAAATTTTATAAAAAACA
1 TAAAAAATTATAAAAAACA
**
30012193 TAAAAAATTATAAAATGCA
1 TAAAAAATTATAAAAAACA
30012212 TAAAAA
1 TAAAAA
30012218 GACCCTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAAATTATAAAAAACA
Found at i:30012217 original size:29 final size:28
Alignment explanation
Indices: 30012154--30012217 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
30012144 TTAAAAATAT
* **
30012154 TAAAAAAATATAAAAAATTATAAAATTT
1 TAAAAAAACATAAAAAATTATAAAATCA
30012182 TATAAAAAACATAAAAAATTATAAAATGCA
1 TA-AAAAAACATAAAAAATTATAAAAT-CA
30012212 TAAAAA
1 TAAAAA
30012218 GACCCTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 27 0.87
30 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAAAAAACATAAAAAATTATAAAATCA
Found at i:30012497 original size:12 final size:12
Alignment explanation
Indices: 30012480--30012504 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30012470 TTTCTATATA
30012480 TTTTATAATTTT
1 TTTTATAATTTT
30012492 TTTTATAATTTT
1 TTTTATAATTTT
30012504 T
1 T
30012505 AATAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:30012563 original size:29 final size:29
Alignment explanation
Indices: 30012491--30012564 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
30012481 TTTATAATTT
* *
30012491 TTTTTATAATTTTTAATAAATTTTAAGTA
1 TTTTTATAATTTTTATTAAAATTTAAGTA
30012520 TTTTTAT-ATTTTTATTAAAATTTAA-TAA
1 TTTTTATAATTTTTATTAAAATTTAAGT-A
30012548 TTTTTATAATTTTTATT
1 TTTTTATAATTTTTATT
30012565 GGTTTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 1 0.02
28 24 0.59
29 16 0.39
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTTATAATTTTTATTAAAATTTAAGTA
Found at i:30015731 original size:54 final size:54
Alignment explanation
Indices: 30015667--30015772 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
30015657 ACAAAGAGCA
30015667 ATTAATCAAGTCCGACAATGAGTTTTCCAACAAGTTTTACAAGGAGCTCTAGCG
1 ATTAATCAAGTCCGACAATGAGTTTTCCAACAAGTTTTACAAGGAGCTCTAGCG
*
30015721 ATTAATCAAGTTCGACAATGAGTTTTCCAACAAGTTTTACAAGGAGCTCTAG
1 ATTAATCAAGTCCGACAATGAGTTTTCCAACAAGTTTTACAAGGAGCTCTAG
30015773 GAACTTTGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (54 bp):
ATTAATCAAGTCCGACAATGAGTTTTCCAACAAGTTTTACAAGGAGCTCTAGCG
Found at i:30019995 original size:29 final size:30
Alignment explanation
Indices: 30019952--30020015 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
30019942 TTAAAAAATT
*
30019952 ATTTTATTTAATTA-TAATATATATTT-TAA
1 ATTTTATTTAATTATTAAAAT-TATTTATAA
*
30019981 ATTTTATTTATTTATTAAAATTATTTATAA
1 ATTTTATTTAATTATTAAAATTATTTATAA
30020011 ATTTT
1 ATTTT
30020016 TACAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTTTATTTAATTATTAAAATTATTTATAA
Found at i:30021229 original size:45 final size:45
Alignment explanation
Indices: 30021171--30021272 Score: 186
Period size: 45 Copynumber: 2.3 Consensus size: 45
30021161 CCCACTATCA
30021171 CCACATAAAGGTAATTAACTCAATAAGACATACTCAAACAATTAG
1 CCACATAAAGGTAATTAACTCAATAAGACATACTCAAACAATTAG
* *
30021216 CCACATAATGGTAATTAACTCAATAAGGCATACTCAAACAATTAG
1 CCACATAAAGGTAATTAACTCAATAAGACATACTCAAACAATTAG
30021261 CCACATAAAGGT
1 CCACATAAAGGT
30021273 TTAACATTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.23
Consensus pattern (45 bp):
CCACATAAAGGTAATTAACTCAATAAGACATACTCAAACAATTAG
Found at i:30029815 original size:45 final size:45
Alignment explanation
Indices: 30029751--30030248 Score: 687
Period size: 45 Copynumber: 11.1 Consensus size: 45
30029741 TTCAGAGAAC
30029751 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* *
30029796 AGATCGAGGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* *
30029841 AGATCGAGGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* *
30029886 AGATCGAGGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* *
30029931 AGATCGAAGATAGCAGATTTTGT-ATCCTGTATTGGCAGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* * * *
30029975 AGATCGAGGATAGCAAATCTTGTCTTCCAGTATTGGCAGCGAAAT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
*
30030020 AGATCGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
*
30030065 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
** *
30030110 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* * * * * ** * * *
30030155 AGATCGAAGACACCAG-CCTTGCCTTTCTGTGCTGACAACGAAGC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* * * *
30030199 AGA-CTGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGC
1 AGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
30030244 AGATC
1 AGATC
30030249 AAAAAACAAC
Statistics
Matches: 407, Mismatches: 42, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
43 1 0.00
44 71 0.17
45 334 0.82
46 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
Found at i:30030052 original size:179 final size:180
Alignment explanation
Indices: 30029751--30030148 Score: 681
Period size: 179 Copynumber: 2.2 Consensus size: 180
30029741 TTCAGAGAAC
*
30029751 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAAATCT
* * * * *
30029816 TGTCTTCCTGTATTAGCAGCGAAGTAGATCGAGGATAGTAGATCTTGTCTTCCTGTATTGGCAGC
66 TGTCTTCCAGTATTAGCAGCGAAATAGATCGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGC
* *
30029881 GAAGTAGATCGAGGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGT
131 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* *
30029931 AGATCGAAGATAGCAGATTTTGT-ATCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAAATCT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAAATCT
*
30029995 TGTCTTCCAGTATTGGCAGCGAAATAGATCGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGC
66 TGTCTTCCAGTATTAGCAGCGAAATAGATCGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGC
*
30030060 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
131 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
30030110 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
30030149 TAAAGCAGAT
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
179 167 0.82
180 36 0.18
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (180 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAAATCT
TGTCTTCCAGTATTAGCAGCGAAATAGATCGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGC
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
Found at i:30030141 original size:224 final size:224
Alignment explanation
Indices: 30029751--30030164 Score: 693
Period size: 224 Copynumber: 1.8 Consensus size: 224
30029741 TTCAGAGAAC
* * * * *
30029751 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCT
1 AGATCGAAGATAGCAAATCTTGTCTTCCAGTATTGGCAGCGAAATAGATCGAAGATAGCAAATCT
* *
30029816 TGTCTTCCTGTATTAGCAGCGAAGTAGATCGAGGATAGTAGATCTTGTCTTCCTGTATTGGCAGC
66 TGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
* * * *
30029881 GAAGTAGATCGAGGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCA
131 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGATAGCA
30029946 GATTTTGTATCCTGTATTGGCAGCGAAGT
196 GATTTTGTATCCTGTATTGGCAGCGAAGT
*
30029975 AGATCGAGGATAGCAAATCTTGTCTTCCAGTATTGGCAGCGAAATAGATCGAAGATAGCAAATCT
1 AGATCGAAGATAGCAAATCTTGTCTTCCAGTATTGGCAGCGAAATAGATCGAAGATAGCAAATCT
* *
30030040 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGTAGC
66 TGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
*
30030105 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGCAGATCGAAGA
131 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGA
30030165 CACCAGCCTT
Statistics
Matches: 175, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
224 175 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (224 bp):
AGATCGAAGATAGCAAATCTTGTCTTCCAGTATTGGCAGCGAAATAGATCGAAGATAGCAAATCT
TGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGATAGCA
GATTTTGTATCCTGTATTGGCAGCGAAGT
Found at i:30030210 original size:134 final size:134
Alignment explanation
Indices: 30029751--30030248 Score: 651
Period size: 134 Copynumber: 3.7 Consensus size: 134
30029741 TTCAGAGAAC
* *
30029751 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCT
1 AGATCGAAGATACCAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCT
* *
30029816 TGTCTTCCTGTATTAGCAGCGAAGTAGATCGAGGATAGTAGATCTTGTCTTCCTGTATTGGCAGC
65 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
*
30029881 GAAGT
130 AAAGT
* * * *
30029886 AGATCGAGGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATTT
1 AGATCGAAGATACCAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCT
* * *
30029951 TGT-ATCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAAATCTTGTCTTCCAGTATTGGCAGC
65 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
30030015 GAAA-T
130 -AAAGT
* *
30030020 AGATCGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCT
1 AGATCGAAGATA-CCAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCT
* * *
30030085 TGTCTTCCTGTATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGT
65 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
*
30030150 AAAGC
130 AAAGT
* * * * ** * * * *
30030155 AGATCGAAGACACCAGCCTTGCCTTTCTGTGCTGACAACGAAGCAGA-CTGAAGATAGCAGATCA
1 AGATCGAAGATACCAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAGCAGATCT
* * *
30030219 TGCCTTCCTGTACTGGCAGCGAAGCAGATC
65 TGTCTTCCTGTATTGGCAGCGAAGTAGATC
30030249 AAAAAACAAC
Statistics
Matches: 319, Mismatches: 39, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
133 1 0.00
134 185 0.58
135 133 0.42
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (134 bp):
AGATCGAAGATACCAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
GTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCTTGTCTTCCTGTATTGGCAGCA
AAGT
Found at i:30030210 original size:179 final size:178
Alignment explanation
Indices: 30029751--30030248 Score: 658
Period size: 179 Copynumber: 2.8 Consensus size: 178
30029741 TTCAGAGAAC
*
30029751 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATCT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATACCAG-TCT
* * *
30029816 TGTCTTCCTGTATTAGCAGCGAAGTAGATCGAGGATAGTAGATCTTGTCTTCCTGTATTGGCAGC
65 TGTCTTCCTGTATGA-CAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
* *
30029881 GAAGTAGATCGAGGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGT
129 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* * * *
30029931 AGATCGAAGATAGCAGATTTTGT-ATCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAAATCT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATA-CCAGTCT
* * * *
30029995 TGTCTTCCAGTATTGGCAGCGAAATAGATCGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGC
65 TGTCTTCCTGTA-TGACAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
*
30030060 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
129 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
** * * * *
30030110 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGCAGATCGAAGACACCAGCCTT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATACCAGTCTT
* * * * * * * *
30030175 GCCTTTCTGTGCTGACAACGAAGCAGA-CTGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGC
66 GTCTTCCTGT-ATGACAGCGAAGTAGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC
*
30030239 GAAGCAGATC
129 GAAGTAGATC
30030249 AAAAAACAAC
Statistics
Matches: 275, Mismatches: 38, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
178 1 0.00
179 223 0.81
180 51 0.19
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (178 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATACCAGTCTT
GTCTTCCTGTATGACAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
Found at i:30030213 original size:224 final size:224
Alignment explanation
Indices: 30029750--30030241 Score: 684
Period size: 224 Copynumber: 2.2 Consensus size: 224
30029740 CTTCAGAGAA
* * *
30029750 CAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAGGATAGCAGATC
1 CAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAGCAAATC
* *
30029815 TTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAGGATAGTAGATCTTGTCTTCCTGTATTGGCAG
66 TTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
* * * * * *
30029880 CGAAGTAGATCGAGGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
131 CGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACC
** * * *
30029945 AGATTTTGTATCCTGTATTGGCAGCGAAG
196 AGACCTTGTATCCTGTACTGACAACGAAG
* * * *
30029974 TAGATCGAGGATAGCAAATCTTGTCTTCCAGTATTGGCAGCGAAATAGATCGAAGATAGCAAATC
1 CAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAGCAAATC
* *
30030039 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGTAG
66 TTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
*
30030104 CGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGCAGATCGAAGACACC
131 CGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACC
* *
30030169 AG-CCTTGCCT-TTCTGTGCTGACAACGAAG
196 AGACCTTG--TATCCTGTACTGACAACGAAG
* * *
30030198 CAGA-CTGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAA
1 CAGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
30030242 GCAGATCAAA
Statistics
Matches: 233, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
223 4 0.02
224 228 0.98
225 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (224 bp):
CAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAGCAAATC
TTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
CGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACC
AGACCTTGTATCCTGTACTGACAACGAAG
Found at i:30038191 original size:3 final size:3
Alignment explanation
Indices: 30038185--30038281 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
30038175 CCTTTTTTTN
30038185 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30038233 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30038281 A
1 A
30038282 CAGGTTGTTG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30039359 original size:23 final size:22
Alignment explanation
Indices: 30039325--30039368 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
30039315 AATTTTTTTT
* *
30039325 AAAAAATCAAAAGCAAAATTTC
1 AAAAAATAAAAAGAAAAATTTC
*
30039347 AAAAAATTAAAAATAAAAATTT
1 AAAAAA-TAAAAAGAAAAATTT
30039369 TCAAGGTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAAATAAAAAGAAAAATTTC
Found at i:30041996 original size:26 final size:27
Alignment explanation
Indices: 30041967--30042035 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
30041957 CGATATATGA
30041967 CTCTTCGTGAGCTTCCCGATTAA-AGG
1 CTCTTCGTGAGCTTCCCGATTAATAGG
** * * *
30041993 CTCTTTATGAGCATCCTGATTAATTGG
1 CTCTTCGTGAGCTTCCCGATTAATAGG
*
30042020 CT-TGCGTGAGCTTCCC
1 CTCTTCGTGAGCTTCCC
30042036 TATATGGCTT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
CTCTTCGTGAGCTTCCCGATTAATAGG
Found at i:30042063 original size:23 final size:23
Alignment explanation
Indices: 30042017--30042063 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
30042007 CCTGATTAAT
* *
30042017 TGGCTTGCGTGAGCTTCCCTATA
1 TGGCTTGCGTGAACTTCCCGATA
* *
30042040 TGGCTTGCTTGAACTTCTCGATA
1 TGGCTTGCGTGAACTTCCCGATA
30042063 T
1 T
30042064 ATGGCTATCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (23 bp):
TGGCTTGCGTGAACTTCCCGATA
Found at i:30042131 original size:74 final size:73
Alignment explanation
Indices: 30042002--30042142 Score: 162
Period size: 74 Copynumber: 1.9 Consensus size: 73
30041992 GCTCTTTATG
* * * *
30042002 AGCATCCTGATTAATTGGCTTGCGTGAGCTTCCCTATATGGCTTGCTTGAACTTCTCGATATATG
1 AGCATCCTGATTAATTGGCTTGCGAGAGCTTCCCTATATGGCTCGCATGAACTTCTCAAT-TATG
30042067 GCTATCCAA
65 GCTATCCAA
* * *
30042076 AGCATCCTGATTAA-TGGCTCTTC-AGAGCTGTCCGT-TACTGGCTCGCATGAGCTTCTCAATTA
1 AGCATCCTGATTAATTGGCT-TGCGAGAGCT-TCCCTATA-TGGCTCGCATGAACTTCTCAATTA
30042138 TGGCT
63 TGGCT
30042143 CGCATGAGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
73 19 0.33
74 38 0.67
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (73 bp):
AGCATCCTGATTAATTGGCTTGCGAGAGCTTCCCTATATGGCTCGCATGAACTTCTCAATTATGG
CTATCCAA
Found at i:30050051 original size:23 final size:25
Alignment explanation
Indices: 30050011--30050063 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
30050001 TCTGATTAAT
*
30050011 TGGCTCGCATAAGCTTCCC-A-ATA
1 TGGCTCGCATAAACTTCCCGATATA
* *
30050034 TGGCTCGCTTAAATTTCCCGATATA
1 TGGCTCGCATAAACTTCCCGATATA
30050059 TGGCT
1 TGGCT
30050064 ATCCGAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.64
24 1 0.04
25 8 0.32
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (25 bp):
TGGCTCGCATAAACTTCCCGATATA
Found at i:30051524 original size:13 final size:13
Alignment explanation
Indices: 30051506--30051536 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
30051496 TGGCCATGTG
30051506 AGCCACACGGCCT
1 AGCCACACGGCCT
30051519 AGCCACACGGCCT
1 AGCCACACGGCCT
30051532 AGCCA
1 AGCCA
30051537 TACGAGCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.45, G:0.23, T:0.06
Consensus pattern (13 bp):
AGCCACACGGCCT
Found at i:30057961 original size:14 final size:15
Alignment explanation
Indices: 30057944--30057974 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30057934 CCTAGTATTG
30057944 TATAAAAAATATTTTA
1 TATAAAAAATA-TTTA
30057960 TATAAAAAATATTTA
1 TATAAAAAATATTTA
30057975 ATACCGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAAAAAATATTTA
Found at i:30064425 original size:96 final size:97
Alignment explanation
Indices: 30064260--30064449 Score: 310
Period size: 96 Copynumber: 2.0 Consensus size: 97
30064250 TCTGCCCAAT
* * *
30064260 TTGTAGCAAATCGATGGGAGATATGGCGGTAAGAAAATTATTTTTAAAAGCATATTACTGTTTTA
1 TTGTAGAAAATCGATGGGAGATATGGCAGTAAGAAAATTATTTTTAAAAGCATACTACTGTTTTA
* *
30064325 AGTTATGATTACATATAAAATTGTTTTAGCAG
66 AGTTATGACTACATACAAAATTGTTTTAGCAG
*
30064357 TTGTAGAAAATCGATGGGAGATATGGCAGTAAG-AAATTCTTTTTAAAAGCATACTACTGTTTTA
1 TTGTAGAAAATCGATGGGAGATATGGCAGTAAGAAAATTATTTTTAAAAGCATACTACTGTTTTA
*
30064421 AGTTATGACTACATACAAGATTGTTTTAG
66 AGTTATGACTACATACAAAATTGTTTTAG
30064450 GGTATAGGCA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
96 55 0.64
97 31 0.36
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (97 bp):
TTGTAGAAAATCGATGGGAGATATGGCAGTAAGAAAATTATTTTTAAAAGCATACTACTGTTTTA
AGTTATGACTACATACAAAATTGTTTTAGCAG
Found at i:30066837 original size:17 final size:18
Alignment explanation
Indices: 30066815--30066848 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30066805 ATAATTGTAA
30066815 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
30066832 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
30066849 CATAACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:30066866 original size:44 final size:44
Alignment explanation
Indices: 30066816--30066905 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
30066806 TAATTGTAAT
* * *
30066816 TTAAATTCTAATTATTTTTAAATGTGTAATTATCATAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
* *
30066860 TTAAATTATAATTGTTTTTAAATGTATAATTATCACGACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
30066904 TT
1 TT
30066906 TTATTTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
Found at i:30075006 original size:12 final size:12
Alignment explanation
Indices: 30074981--30075133 Score: 54
Period size: 12 Copynumber: 12.8 Consensus size: 12
30074971 TTTATCAAGA
30074981 TAAATATTAAAT
1 TAAATATTAAAT
30074993 TAAAT-TTAATAT
1 TAAATATTAA-AT
*
30075005 TAAATCTT--AT
1 TAAATATTAAAT
*
30075015 TAAAATAATGTAGA-
1 T-AAAT-AT-TAAAT
*
30075029 TAAACATTAAAT
1 TAAATATTAAAT
30075041 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
30075053 TAATATAATCATT
1 TAA-ATATTAAAT
*
30075066 TTAATATTAAAT
1 TAAATATTAAAT
* * *
30075078 TAATAAAATACTAT
1 TAA-ATATTA-AAT
*
30075092 TAAGATA-AAAAT
1 TAA-ATATTAAAT
30075104 T-AA-ATTAAAT
1 TAAATATTAAAT
*
30075114 TAAATATTAAAA
1 TAAATATTAAAT
30075126 T-AATATTA
1 TAAATATTA
30075134 TTTTTAGAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 33
0.66 0.13 0.21
Matches are distributed among these distances:
9 1 0.01
10 9 0.09
11 25 0.24
12 42 0.40
13 16 0.15
14 10 0.10
15 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:30075081 original size:20 final size:18
Alignment explanation
Indices: 30074933--30075082 Score: 60
Period size: 17 Copynumber: 8.7 Consensus size: 18
30074923 TTCAACTATG
30074933 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAAT-A-TTTAAT
30074954 ATTAAATTAATA--TAAT
1 ATTAAATTAATATTTAAT
* * * *
30074970 ATT-TATCAAGA-TAAAT
1 ATTAAATTAATATTTAAT
30074986 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
30075003 ATTAAATCT--TA-TTAA-
1 ATTAAAT-TAATATTTAAT
* *
30075018 AAT-AATGTAGATA---AAC
1 ATTAAAT-TA-ATATTTAAT
30075034 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
30075051 ATT-AATATAATCATTTTAAT
1 ATTAAAT-TAAT-A-TTTAAT
30075071 ATTAAATTAATA
1 ATTAAATTAATA
30075083 AAATACTATT
Statistics
Matches: 100, Mismatches: 11, Indels: 38
0.67 0.07 0.26
Matches are distributed among these distances:
14 5 0.05
15 10 0.10
16 25 0.25
17 29 0.29
18 1 0.01
19 3 0.03
20 18 0.18
21 9 0.09
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:30076627 original size:20 final size:21
Alignment explanation
Indices: 30076602--30076650 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
30076592 TATTGATCCA
*
30076602 GTATCGATACT-TTTCTTAAG
1 GTATCGATACTATTTCCTAAG
*
30076622 GTATCGAT-GTATTTCCTAAG
1 GTATCGATACTATTTCCTAAG
30076642 GTATCGATA
1 GTATCGATA
30076651 TTCCTGCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (21 bp):
GTATCGATACTATTTCCTAAG
Found at i:30077174 original size:19 final size:19
Alignment explanation
Indices: 30077150--30077187 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30077140 TAGGGAAATC
30077150 TTTAATTGTGGTAAGCTAA
1 TTTAATTGTGGTAAGCTAA
30077169 TTTAATTGTGGTAAGCTAA
1 TTTAATTGTGGTAAGCTAA
30077188 GTAGTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (19 bp):
TTTAATTGTGGTAAGCTAA
Found at i:30084501 original size:101 final size:101
Alignment explanation
Indices: 30084329--30084524 Score: 347
Period size: 101 Copynumber: 1.9 Consensus size: 101
30084319 ACAACTATGC
*
30084329 TATTTGCTAAGCAATAAGGAAGATGATAATGGTTGTTATCATATGTTAGAATCGAGTAACTCGAA
1 TATTTGCTAAGCAATAAGGAAGATGATAATGGTTGATATCATATGTTAGAATCGAGTAACTCGAA
* * *
30084394 TTATTATTTAAGTAAAATATAGTGGTAAAACTATAT
66 TCATTATTTAAATAAAATACAGTGGTAAAACTATAT
*
30084430 TATTTGCTAAGCAATAAGGAAGATGATAATGGTTGATATCATCTGTTAGAATCGAGTAACTCGAA
1 TATTTGCTAAGCAATAAGGAAGATGATAATGGTTGATATCATATGTTAGAATCGAGTAACTCGAA
30084495 TCATTATTTAAATAAAATACAGTGGTAAAA
66 TCATTATTTAAATAAAATACAGTGGTAAAA
30084525 TAAAATAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (101 bp):
TATTTGCTAAGCAATAAGGAAGATGATAATGGTTGATATCATATGTTAGAATCGAGTAACTCGAA
TCATTATTTAAATAAAATACAGTGGTAAAACTATAT
Found at i:30095327 original size:22 final size:22
Alignment explanation
Indices: 30095302--30095433 Score: 56
Period size: 22 Copynumber: 6.0 Consensus size: 22
30095292 GCTTGTATGA
30095302 GTTTAGCACTTCTGTGCTCTCT
1 GTTTAGCACTTCTGTGCTCTCT
** * * *
30095324 GTTTAGTGCTTCGGTACTCTTT
1 GTTTAGCACTTCTGTGCTCTCT
* *
30095346 GTTCAGTC-CTT-TGGTAG-TATCT
1 GTTTAG-CACTTCT-GT-GCTCTCT
* * * *
30095368 GATCAGCAC-TCCGATGCTCTTT
1 GTTTAGCACTTCTG-TGCTCTCT
* * *
30095390 GGTTAGCACTTTTGTGCTATCT
1 GTTTAGCACTTCTGTGCTCTCT
* *
30095412 GTTTAGCACTACGGTGCTCTCT
1 GTTTAGCACTTCTGTGCTCTCT
30095434 AGTGTGGTGT
Statistics
Matches: 76, Mismatches: 26, Indels: 16
0.64 0.22 0.14
Matches are distributed among these distances:
21 4 0.05
22 70 0.92
23 2 0.03
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.42
Consensus pattern (22 bp):
GTTTAGCACTTCTGTGCTCTCT
Found at i:30098619 original size:39 final size:39
Alignment explanation
Indices: 30098576--30098689 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 39
30098566 AGTACACCAG
* * * * *
30098576 CACACAGCTTGCTAGGCAAAAAGCCCAAATAATCA-TCGT
1 CACACAACTTGCTAGGCACATAGCCCGAATAATCACT-GA
*
30098615 CACACAACCTGCTAGGCACATAGCCCGAATAATCACTGA
1 CACACAACTTGCTAGGCACATAGCCCGAATAATCACTGA
*
30098654 CACACAACTTACTAGGCACATAGCCCGAATAATCAC
1 CACACAACTTGCTAGGCACATAGCCCGAATAATCAC
30098690 CGTATTTCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
39 65 0.98
40 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.17
Consensus pattern (39 bp):
CACACAACTTGCTAGGCACATAGCCCGAATAATCACTGA
Found at i:30103656 original size:45 final size:45
Alignment explanation
Indices: 30103606--30103840 Score: 230
Period size: 45 Copynumber: 5.3 Consensus size: 45
30103596 GTGGCTTTGT
* * *
30103606 CCACAACCTACACGTCAGCTTGTCTAC-AGATATTGGTGGTTTCAG
1 CCACAACCTACACGGCAGCTTGTTTGCGA-ATATTGGTGGTTTCAG
* * * * *
30103651 CCACAACCTACATGGAAACTTGTCTGCGAATATTGGTGGCTTC-G
1 CCACAACCTACACGGCAGCTTGTTTGCGAATATTGGTGGTTTCAG
*
30103695 TCCACAA-CTAGCACGGCAGCTTGTTTGCGAATATTGGTGGTTTCAC
1 -CCACAACCTA-CACGGCAGCTTGTTTGCGAATATTGGTGGTTTCAG
* * * *
30103741 CCACAACCTACATGGCAACTTGTTTTCGAATATTGGTGGCTTC-G
1 CCACAACCTACACGGCAGCTTGTTTGCGAATATTGGTGGTTTCAG
* * * *
30103785 TCCACAACCTACATGGTAGCTTGTTTGCAAAT-TTGGTGGTTT-AT
1 -CCACAACCTACACGGCAGCTTGTTTGCGAATATTGGTGGTTTCAG
*
30103829 CCGCAACCTACA
1 CCACAACCTACA
30103841 TGGAAGCTAT
Statistics
Matches: 159, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
43 11 0.07
44 13 0.08
45 131 0.82
46 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (45 bp):
CCACAACCTACACGGCAGCTTGTTTGCGAATATTGGTGGTTTCAG
Found at i:30103745 original size:90 final size:89
Alignment explanation
Indices: 30103592--30103877 Score: 355
Period size: 90 Copynumber: 3.2 Consensus size: 89
30103582 AGGAGGAAGA
* * * * *
30103592 ATTGGTGGCTTTGTCCACAACCTACACGTCAGCTTGTCTACAGATATTGGTGGTTTCAGCCACAA
1 ATTGGTGGCTTCGTCCACAACCTACACGGCAGCTTGTTTGCA-ATATTGGTGGTTTCACCCACAA
30103657 CCTACATGGAAACTTGTCTGCGAAT
65 CCTACATGGAAACTTGTCTGCGAAT
30103682 ATTGGTGGCTTCGTCCACAA-CTAGCACGGCAGCTTGTTTGCGAATATTGGTGGTTTCACCCACA
1 ATTGGTGGCTTCGTCCACAACCTA-CACGGCAGCTTGTTTGC-AATATTGGTGGTTTCACCCACA
* * *
30103746 ACCTACATGGCAACTTGTTTTCGAAT
64 ACCTACATGGAAACTTGTCTGCGAAT
* * * *
30103772 ATTGGTGGCTTCGTCCACAACCTACATGGTAGCTTGTTTGCAA-ATTTGGTGGTTT-ATCCGCAA
1 ATTGGTGGCTTCGTCCACAACCTACACGGCAGCTTGTTTGCAATA-TTGGTGGTTTCACCCACAA
* * **
30103835 CCTACATGGAAGC-TATCTGTAAAT
65 CCTACATGGAAACTTGTCTGCGAAT
*
30103859 ATTGGTGGCTTCGACCACA
1 ATTGGTGGCTTCGTCCACA
30103878 TCTTTTGTAG
Statistics
Matches: 172, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
87 24 0.14
88 18 0.10
89 15 0.09
90 111 0.65
91 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (89 bp):
ATTGGTGGCTTCGTCCACAACCTACACGGCAGCTTGTTTGCAATATTGGTGGTTTCACCCACAAC
CTACATGGAAACTTGTCTGCGAAT
Found at i:30103864 original size:43 final size:45
Alignment explanation
Indices: 30103592--30103870 Score: 217
Period size: 45 Copynumber: 6.3 Consensus size: 45
30103582 AGGAGGAAGA
** * ** * * *
30103592 ATTGGTGGCTTTGTCCACAACCTACACGTCAGCTTGTCTACAGAT
1 ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTATCTGCAAAT
* * * * *
30103637 ATTGGTGGTTTCAGCCACAACCTACATGGAAACTTGTCTGCGAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTATCTGCAAAT
* * * * * *
30103682 ATTGGTGGCTTCGTCCACAA-CTAGCACGGCAGCTTGTTTGCGAAT
1 ATTGGTGGCTTCATCCACAACCTA-CATGGAAGCTTATCTGCAAAT
* * * * * *
30103727 ATTGGTGGTTTCACCCACAACCTACATGGCAA-CTTGTTTTCGAAT
1 ATTGGTGGCTTCATCCACAACCTACATGG-AAGCTTATCTGCAAAT
* * * *
30103772 ATTGGTGGCTTCGTCCACAACCTACATGGTAGCTTGTTTGCAAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTATCTGCAAAT
* * *
30103817 -TTGGTGG-TTTATCCGCAACCTACATGGAAGC-TATCTGTAAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTATCTGCAAAT
30103859 ATTGGTGGCTTC
1 ATTGGTGGCTTC
30103871 GACCACATCT
Statistics
Matches: 190, Mismatches: 38, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
42 8 0.04
43 27 0.14
44 13 0.07
45 138 0.73
46 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (45 bp):
ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTATCTGCAAAT
Found at i:30105160 original size:30 final size:30
Alignment explanation
Indices: 30105114--30105192 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
30105104 AGCAAATTTG
*
30105114 ACTTGTTTGAAAATCATTTAAAATGATTTTA
1 ACTTGATTG-AAATCATTTAAAATGATTTTA
30105145 ACTTGATTGAAATCATTTAAAATGATTTTA
1 ACTTGATTGAAATCATTTAAAATGATTTTA
* *
30105175 ATTTGATTGAAATTATTT
1 ACTTGATTGAAATCATTT
30105193 GACTTGGTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 37 0.82
31 8 0.18
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (30 bp):
ACTTGATTGAAATCATTTAAAATGATTTTA
Found at i:30105503 original size:18 final size:18
Alignment explanation
Indices: 30105480--30105514 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30105470 ATGAGTTTAC
30105480 AAATATTTTAAACTATTG
1 AAATATTTTAAACTATTG
*
30105498 AAATATTTTAAATTATT
1 AAATATTTTAAACTATT
30105515 TATGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATATTTTAAACTATTG
Found at i:30106925 original size:24 final size:27
Alignment explanation
Indices: 30106869--30106928 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 27
30106859 GAGAAAATAT
* *
30106869 ATTTAATTTTCCTGTATTCAACAGTTC
1 ATTTAATTTTCATGTATTCAACACTTC
*
30106896 ACTTAATTTTCAT-T-TTCAA-ACTTC
1 ATTTAATTTTCATGTATTCAACACTTC
30106920 ATTTAATTT
1 ATTTAATTT
30106929 GAAAAAGCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 12 0.41
25 5 0.17
26 1 0.03
27 11 0.38
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.52
Consensus pattern (27 bp):
ATTTAATTTTCATGTATTCAACACTTC
Found at i:30107437 original size:16 final size:16
Alignment explanation
Indices: 30107416--30107468 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
30107406 ATCGGGTTGA
*
30107416 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
30107432 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
30107447 ---AATTAATTAATT-
1 GAAAATTAATTAATTG
30107459 -AAAATTAATT
1 GAAAATTAATT
30107469 TATGATGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 12 0.35
14 8 0.24
16 14 0.41
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:30107444 original size:4 final size:4
Alignment explanation
Indices: 30107435--30107468 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
30107425 TTAATTGGAA
30107435 AATT AATT AATT AATT AATT AATT AA-- AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
30107469 TATGATGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:30107795 original size:28 final size:26
Alignment explanation
Indices: 30107763--30107823 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
30107753 GGCTAAAAAT
*
30107763 AAAATATTGAGATATTATTATTATTCTA
1 AAAATAGTGAGA-ATT-TTATTATTCTA
* *
30107791 AAAATAGTGAGAATTTTTTTTTTCTA
1 AAAATAGTGAGAATTTTATTATTCTA
*
30107817 AATATAG
1 AAAATAG
30107824 ATTCTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 15 0.52
27 3 0.10
28 11 0.38
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (26 bp):
AAAATAGTGAGAATTTTATTATTCTA
Found at i:30115639 original size:23 final size:24
Alignment explanation
Indices: 30115595--30115652 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
30115585 AACATTCTAT
30115595 TATGTATGCATGTGCTGTAGCTGG
1 TATGTATGCATGTGCTGTAGCTGG
*
30115619 TATGTAT-CATGTG-TTTGAGCTGG
1 TATGTATGCATGTGCTGT-AGCTGG
30115642 TATGTATGCAT
1 TATGTATGCAT
30115653 CATTTTCGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 2 0.06
23 19 0.61
24 10 0.32
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.41
Consensus pattern (24 bp):
TATGTATGCATGTGCTGTAGCTGG
Found at i:30123895 original size:5 final size:5
Alignment explanation
Indices: 30123885--30123949 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
30123875 TAAGAATAAT
* * *
30123885 AAATA AAATA AACTA AAA-A TTAGTA AAATA AAA-A GAAATA AAATAA
1 AAATA AAATA AAATA AAATA -AAATA AAATA AAATA -AAATA AAAT-A
30123931 TAAATA AAATA AAATA AAA
1 -AAATA AAATA AAATA AAA
30123950 AAGAAGGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
4 2 0.04
5 38 0.79
6 4 0.08
7 4 0.08
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:30123916 original size:15 final size:15
Alignment explanation
Indices: 30123874--30123950 Score: 73
Period size: 15 Copynumber: 4.8 Consensus size: 15
30123864 AAATCTAAGT
30123874 ATAAGAATAATAAATAAA
1 ATAA-AATAA-AAAT-AA
* *
30123892 ATAAACTAAAAATTA
1 ATAAAATAAAAATAA
* *
30123907 GTAAAATAAAAAGAA
1 ATAAAATAAAAATAA
30123922 ATAAAATAATAAATAAA
1 ATAAAATAA-AAAT-AA
30123939 ATAAAATAAAAA
1 ATAAAATAAAAA
30123951 AGAAGGGGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
15 20 0.41
16 10 0.20
17 15 0.31
18 4 0.08
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (15 bp):
ATAAAATAAAAATAA
Found at i:30128239 original size:27 final size:27
Alignment explanation
Indices: 30128207--30128459 Score: 258
Period size: 27 Copynumber: 9.4 Consensus size: 27
30128197 GGCAATTTAT
30128207 CGAAATACCCTCGAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
30128234 CGAAATACCCTTGAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
30128261 CGAAATACCCCCGAAAGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * * *
30128288 CGAAATACCC-CCATAGTGTGAAATTAT
1 CGAAATACCCTCGA-AGGGTAAAATTAC
* **
30128315 TGAAATACCCTCGAACAGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
*
30128342 CGAAATACCCTTGAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
30128369 TGAAATACTCTTGAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
** * * *
30128396 TAAAATACCCTTGAAGGGTAAAAGTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
30128423 CAAAATATCCCT-GAAAGGTAAAATTAC
1 CGAAATA-CCCTCGAAGGGTAAAATTAC
*
30128450 CAAAATACCC
1 CGAAATACCC
30128460 ACATAGTGTG
Statistics
Matches: 194, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.03
27 183 0.94
28 6 0.03
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATTAC
Found at i:30128266 original size:54 final size:54
Alignment explanation
Indices: 30128203--30128459 Score: 306
Period size: 54 Copynumber: 4.8 Consensus size: 54
30128193 CATGGGCAAT
*
30128203 TTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTTGAAGGGTAAAA
1 TTATCGAAATACCCTCGAAAGGTAAAATTACCGAAATACCCTTGAAGGGTAAAA
* * ** * *
30128257 TTATCGAAATACCCCCGAAAGGTAAAATTATCGAAATACCC-CCATAGTGTGAAA
1 TTATCGAAATACCCTCGAAAGGTAAAATTACCGAAATACCCTTGA-AGGGTAAAA
*
30128311 TTATTGAAATACCCTCGAACA-GTAAAATTACCGAAATACCCTTGAAGGGTAAAA
1 TTATCGAAATACCCTCGAA-AGGTAAAATTACCGAAATACCCTTGAAGGGTAAAA
* * * **
30128365 TTA-CTGAAATACTCTTGAAGGGTAAAATTACTAAAATACCCTTGAAGGGTAAAA
1 TTATC-GAAATACCCTCGAAAGGTAAAATTACCGAAATACCCTTGAAGGGTAAAA
* * *
30128419 GTATCAAAATATCCCT-GAAAGGTAAAATTACCAAAATACCC
1 TTATCGAAATA-CCCTCGAAAGGTAAAATTACCGAAATACCC
30128460 ACATAGTGTG
Statistics
Matches: 171, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 164 0.96
55 6 0.04
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (54 bp):
TTATCGAAATACCCTCGAAAGGTAAAATTACCGAAATACCCTTGAAGGGTAAAA
Found at i:30128485 original size:81 final size:78
Alignment explanation
Indices: 30128237--30128488 Score: 227
Period size: 81 Copynumber: 3.1 Consensus size: 78
30128227 AAATTACCGA
* * *
30128237 AATACCCTTGAAGGGTAAAATTATCGAAATACCCCCGAAAGGTAAAATTATCGAAATACCCCCAT
1 AATACCCTTGAAGGGTAAAATTATCGAAATA-CCCTGAAAGGTAAAATTACCGAAATACCCACAT
*
30128302 AGTGTGAAATTATT
65 AGTGTGAAATTCTT
* ** * * * **
30128316 GAAATACCCTCGAACAGTAAAATTACCGAAATACCCTTGAAGGGTAAAATTACTGAAATACTCTT
1 --AATACCCTTGAAGGGTAAAATTATCGAAATACCC-TGAAAGGTAAAATTACCGAAATAC-CCA
* * * *
30128381 GA-AGGGTAAAATTACTAA
62 CATAGTGTGAAATT-CT-T
* * *
30128399 AATACCCTTGAAGGGTAAAAGTATCAAAATATCCCTGAAAGGTAAAATTACCAAAATACCCACAT
1 AATACCCTTGAAGGGTAAAATTATCGAAATA-CCCTGAAAGGTAAAATTACCGAAATACCCACAT
30128464 AGTGTGAAATGGTCTT
65 AGTGTGAAAT--TCTT
*
30128480 TATACCCTT
1 AATACCCTT
30128489 AGGAGATGAA
Statistics
Matches: 132, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
80 5 0.04
81 118 0.89
82 8 0.06
83 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (78 bp):
AATACCCTTGAAGGGTAAAATTATCGAAATACCCTGAAAGGTAAAATTACCGAAATACCCACATA
GTGTGAAATTCTT
Found at i:30128900 original size:28 final size:27
Alignment explanation
Indices: 30128833--30128900 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
30128823 TTGCATTTTA
* *
30128833 TGTACTATATTGGGTTAAGGCCCACAC
1 TGTACTGTATTGGGCTAAGGCCCACAC
* *
30128860 TGCTACTGAATTGGGCTAAGGCCCTCAC
1 TG-TACTGTATTGGGCTAAGGCCCACAC
30128888 TGTACTGTCATTG
1 TGTACTGT-ATTG
30128901 AATAGGGCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.21
28 27 0.79
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (27 bp):
TGTACTGTATTGGGCTAAGGCCCACAC
Found at i:30137249 original size:30 final size:30
Alignment explanation
Indices: 30137215--30137274 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
30137205 ATAACAACAA
30137215 GGGAAAGAACCAGATCAAATGAGGGTACTC
1 GGGAAAGAACCAGATCAAATGAGGGTACTC
*
30137245 GGGAAAGAGCCAGATCAAATGAGGGTACTC
1 GGGAAAGAACCAGATCAAATGAGGGTACTC
30137275 AAGAATCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.32, T:0.13
Consensus pattern (30 bp):
GGGAAAGAACCAGATCAAATGAGGGTACTC
Found at i:30141343 original size:20 final size:21
Alignment explanation
Indices: 30141296--30141341 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
30141286 AGTTGACGAG
*
30141296 AAAAAA-TAAATATATATTAT
1 AAAAAATTAAATATAAATTAT
*
30141316 AAAAAATTAAATATAAATTTT
1 AAAAAATTAAATATAAATTAT
30141337 AAAAA
1 AAAAA
30141342 TTTTAAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATTAAATATAAATTAT
Found at i:30146839 original size:21 final size:20
Alignment explanation
Indices: 30146786--30146870 Score: 75
Period size: 21 Copynumber: 4.2 Consensus size: 20
30146776 TTATTAACTA
* *
30146786 TTAAAAATTTTAAA-AATAT
1 TTAATAATTTTAAATAATTT
*
30146805 TT-ATAATTTCAAATAATTT
1 TTAATAATTTTAAATAATTT
*
30146824 TTAATTACTTTTAAATAACTTT
1 TTAA-TAATTTTAAATAA-TTT
* *
30146846 TTTATAATTTTTAATAATTGT
1 TTAATAATTTTAAATAATT-T
30146867 TTAA
1 TTAA
30146871 GAAACCACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
18 9 0.17
19 8 0.15
20 3 0.06
21 26 0.50
22 6 0.12
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (20 bp):
TTAATAATTTTAAATAATTT
Found at i:30146852 original size:11 final size:10
Alignment explanation
Indices: 30146793--30146870 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
30146783 CTATTAAAAA
*
30146793 TTTTAAAAAT
1 TTTTAATAAT
*
30146803 ATTT-ATAAT
1 TTTTAATAAT
**
30146812 TTCAAATAAT
1 TTTTAATAAT
*
30146822 TTTTAATTACT
1 TTTTAA-TAAT
*
30146833 TTTAAATAACT
1 TTTTAATAA-T
*
30146844 TTTTTATAAT
1 TTTTAATAAT
30146854 TTTTAATAAT
1 TTTTAATAAT
30146864 TGTTTAA
1 T-TTTAA
30146871 GAAACCACTT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
9 5 0.10
10 25 0.49
11 21 0.41
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:30152121 original size:27 final size:27
Alignment explanation
Indices: 30152086--30152167 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
30152076 TACATAGTAT
30152086 TGGTGCCTATCTGGGAGGCGCCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
* **
30152113 TGGTGCCTATCTGGGAGGCGCCATTAT
1 TGGTGCCTATCTGGGAGGCGCCAATGG
*
30152140 TGGTGCC-ATACTGAGAGGCGCCAATGG
1 TGGTGCCTAT-CTGGGAGGCGCCAATGG
30152167 T
1 T
30152168 CTGATTTTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.04
27 45 0.96
ACGTcount: A:0.17, C:0.22, G:0.37, T:0.24
Consensus pattern (27 bp):
TGGTGCCTATCTGGGAGGCGCCAATGG
Found at i:30152255 original size:18 final size:18
Alignment explanation
Indices: 30152234--30152270 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30152224 AAGAAATAAG
30152234 AAAGAAGGAAGCAAAAGA
1 AAAGAAGGAAGCAAAAGA
*
30152252 AAAGAAGGAAGGAAAAGA
1 AAAGAAGGAAGCAAAAGA
30152270 A
1 A
30152271 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGAAGGAAGCAAAAGA
Found at i:30152276 original size:22 final size:23
Alignment explanation
Indices: 30152223--30152276 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
30152213 TAGAGAAACG
30152223 GAAGAAATAAGAAAGAAGGAAGCAA
1 GAAGAAA-AAGAAAGAAGGAA-CAA
*
30152248 -AAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAAGAAGGAACAA
30152268 GAAGAAAAA
1 GAAGAAAAA
30152277 AATAAGGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 16 0.62
23 2 0.08
24 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (23 bp):
GAAGAAAAAGAAAGAAGGAACAA
Found at i:30155288 original size:22 final size:22
Alignment explanation
Indices: 30155262--30155303 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
30155252 AAAAACATTA
30155262 TAATTTTATTTACATAAAAAAC
1 TAATTTTATTTACATAAAAAAC
30155284 TAATTTTATTTACATAAAAA
1 TAATTTTATTTACATAAAAA
30155304 GAATCATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATTTTATTTACATAAAAAAC
Found at i:30157419 original size:38 final size:38
Alignment explanation
Indices: 30157376--30157457 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
30157366 AAAAAGTCAG
* *
30157376 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTAAATTTTT
*
30157414 TTATAATTAAACTTTTAATGAAATAATTTTAAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTAAATTTTT
30157452 TTATAA
1 TTATAA
30157458 ACTTTATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATAATTTTAAATTTTT
Found at i:30157567 original size:60 final size:60
Alignment explanation
Indices: 30157491--30157612 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
30157481 ATACTAAACT
* * * * * *
30157491 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATTTTAAAAT-ATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATT-AATTATAAAATAATTAC
*
30157551 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
30157611 AA
1 AA
30157613 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 10 0.19
60 44 0.81
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:30157677 original size:19 final size:19
Alignment explanation
Indices: 30157653--30157935 Score: 145
Period size: 19 Copynumber: 15.2 Consensus size: 19
30157643 ATATCCCGAC
30157653 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
30157672 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
* *
30157688 ATT-C-ATA--CAAAAAAA
1 ATTACAATATTCATACAAA
* *
30157703 ATTGCAATATTCATTCAAA
1 ATTACAATATTCATACAAA
* *
30157722 ATTATAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
30157738 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
30157752 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
30157771 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
30157792 ATTACAATATTCATATAAA
1 ATTACAATATTCATACAAA
* * *
30157811 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
30157831 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
30157853 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
* *
30157872 ATTAAAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
*
30157892 ATTAAAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
30157913 AGTTAGAATATTCATACAAA
1 A-TTACAATATTCATACAAA
30157933 ATT
1 ATT
30157936 CTAATCTAAA
Statistics
Matches: 203, Mismatches: 31, Indels: 60
0.69 0.11 0.20
Matches are distributed among these distances:
14 12 0.06
15 8 0.04
16 19 0.09
17 6 0.03
18 10 0.05
19 65 0.32
20 33 0.16
21 24 0.12
22 19 0.09
23 5 0.02
25 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:30157684 original size:27 final size:27
Alignment explanation
Indices: 30157653--30157802 Score: 168
Period size: 27 Copynumber: 6.1 Consensus size: 27
30157643 ATATCCCGAC
30157653 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
30157680 ATTACAATATTCATACAAAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* * *
30157703 ATTGCAATATTCATTCAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
30157730 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
30157752 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
30157779 ATT-C-ATA--CA-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
30157800 ATT
1 ATT
30157803 CATATAAAAT
Statistics
Matches: 110, Mismatches: 4, Indels: 24
0.80 0.03 0.17
Matches are distributed among these distances:
21 14 0.13
22 17 0.15
23 25 0.23
24 3 0.03
25 6 0.05
26 8 0.07
27 37 0.34
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:30157722 original size:50 final size:49
Alignment explanation
Indices: 30157600--30157781 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 49
30157590 AATTAATTAT
* *
30157600 AAAATAATTACAATATTCATACAAAAAATTACTATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** *
30157648 -CCGACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
30157696 AAAAAAAATTGCAATATTCATTCAAAATTATAATATTACAATATTCATAC
1 -AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
30157746 AAAAAAATTACAATATTCATACAAAATTACAATATT
1 AAAAAAATTACAATATTCATACAAAATTACAATATT
30157782 CATACAAAAA
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
45 19 0.17
46 1 0.01
47 18 0.16
48 1 0.01
49 33 0.29
50 41 0.36
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.32
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:30157922 original size:22 final size:21
Alignment explanation
Indices: 30157847--30157933 Score: 108
Period size: 20 Copynumber: 4.2 Consensus size: 21
30157837 ATTTAATTAT
*
30157847 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
*
30157869 --AACATTAAAATATTCATA-
1 AAAAAATTAAAATATTCATAC
30157887 AAAAAATTAAAATATTCATAC
1 AAAAAATTAAAATATTCATAC
*
30157908 AAAAAAGTTAGAATATTCATAC
1 AAAAAA-TTAAAATATTCATAC
30157930 AAAA
1 AAAA
30157934 TTCTAATCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
19 14 0.25
20 19 0.33
21 6 0.11
22 18 0.32
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:30157961 original size:61 final size:60
Alignment explanation
Indices: 30157776--30157962 Score: 164
Period size: 61 Copynumber: 3.1 Consensus size: 60
30157766 ACAAAATTAC
* * * *
30157776 AATATTCATACAAAAAATTACAATATTCATATAAAATACTAATCCAAAACTATAAATAC-A
1 AATATTCATACAAAAAATTACAATATTCATACAAAATTCTAAT-CTAAACTATAAAAACTA
* * * ** * ** * *
30157836 AAT-TTAATTATAAAATAATTACAATATTCATACAACATTAAAATATTCA-TAAAAAAATTAA
1 AATATTCA-TACAAAA-AATTACAATATTCATACAAAATTCTAATCTAAACTATAAAAACT-A
* *
30157897 AATATTCATACAAAAAAGTTAGAATATTCATACAAAATTCTAATCTAAACTATAAACACTA
1 AATATTCATACAAAAAA-TTACAATATTCATACAAAATTCTAATCTAAACTATAAAAACTA
30157958 AATAT
1 AATAT
30157963 AGATAATTTA
Statistics
Matches: 94, Mismatches: 26, Indels: 13
0.71 0.20 0.10
Matches are distributed among these distances:
59 9 0.10
60 12 0.13
61 63 0.67
62 10 0.11
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (60 bp):
AATATTCATACAAAAAATTACAATATTCATACAAAATTCTAATCTAAACTATAAAAACTA
Found at i:30158019 original size:12 final size:12
Alignment explanation
Indices: 30158002--30158027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30157992 AAAAATTCAC
30158002 AATATCTTCTAA
1 AATATCTTCTAA
30158014 AATATCTTCTAA
1 AATATCTTCTAA
30158026 AA
1 AA
30158028 AATTCACAAA
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:30158113 original size:3 final size:3
Alignment explanation
Indices: 30158107--30158144 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
30158097 TTTTCATTCT
*
30158107 TTC TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC -TC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
30158145 CCTTTCTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:30158126 original size:14 final size:14
Alignment explanation
Indices: 30158103--30158144 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
30158093 TTTTTTTTCA
30158103 TTCT-TTCTTCTTC
1 TTCTCTTCTTCTTC
30158116 TTCTCTTCTTCTTC
1 TTCTCTTCTTCTTC
30158130 TTCTCCTTC-TCTTC
1 TTCT-CTTCTTCTTC
30158144 T
1 T
30158145 CCTTTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCTCTTCTTCTTC
Found at i:30158145 original size:11 final size:11
Alignment explanation
Indices: 30158108--30158153 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
30158098 TTTCATTCTT
*
30158108 TCTTCTTCTTC
1 TCTTCTCCTTC
*
30158119 TCTTCTTC-T-
1 TCTTCTCCTTC
30158128 TCTTCTCCTTC
1 TCTTCTCCTTC
30158139 TCTTCTCCTTTC
1 TCTTCTCC-TTC
30158151 TCT
1 TCT
30158154 CTTTTTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 7 0.23
10 2 0.06
11 16 0.52
12 6 0.19
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (11 bp):
TCTTCTCCTTC
Found at i:30158154 original size:14 final size:13
Alignment explanation
Indices: 30158110--30158156 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
30158100 TCATTCTTTC
*
30158110 TTCTTCTTCTCTT
1 TTCTTCTTCTCCT
30158123 CTTCTTCTTCTCC-
1 -TTCTTCTTCTCCT
30158136 TTC-TCTTCTCCT
1 TTCTTCTTCTCCT
30158148 TTCTCTCTT
1 TTCT-TCTT
30158157 TTTTTTCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 8 0.28
12 6 0.21
14 15 0.52
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTCTTCTCCT
Found at i:30158154 original size:20 final size:21
Alignment explanation
Indices: 30158105--30158151 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
30158095 TTTTTTCATT
* *
30158105 CTTTCTTCTTCTTCTCTTCTT
1 CTTTCTTCTCCTTCTCTTCTC
30158126 C-TTCTTCTCCTTCTCTTCTC
1 CTTTCTTCTCCTTCTCTTCTC
30158146 CTTTCT
1 CTTTCT
30158152 CTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (21 bp):
CTTTCTTCTCCTTCTCTTCTC
Found at i:30166408 original size:29 final size:30
Alignment explanation
Indices: 30166371--30166430 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
30166361 CACGATCTGG
* * *
30166371 CACATGACCATGTG-GCAGCTCGTGTGGCT
1 CACACGACCATGTGTCCAGCCCGTGTGGCT
30166400 CACACGACCATGTGTCCAGCCCGTGTGGCT
1 CACACGACCATGTGTCCAGCCCGTGTGGCT
30166430 C
1 C
30166431 CTAAAACTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (30 bp):
CACACGACCATGTGTCCAGCCCGTGTGGCT
Found at i:30167214 original size:19 final size:19
Alignment explanation
Indices: 30167174--30167221 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
30167164 GGTTGATGAG
*
30167174 AAAAATAAATAAATATTAT
1 AAAAATAAATAAAAATTAT
*
30167193 AAAATTAAATATAAAATT-T
1 AAAAATAAATA-AAAATTAT
30167212 AAAAAGTAAA
1 AAAAA-TAAA
30167222 AATAAATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATAAATAAAAATTAT
Found at i:30176960 original size:46 final size:46
Alignment explanation
Indices: 30176900--30176995 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
30176890 TTTGGATAAT
30176900 GATT-AAGACACATCTCAAAGATTGAAAGT-AATTTCGAATATTAGA
1 GATTAAAGACACATCTCAAAGATTGAAAGTAAATTT-GAATATTAGA
* *
30176945 GATTAAAGATACATCTCAAAGATTGAAAGTAAATTTGAGTATTAGA
1 GATTAAAGACACATCTCAAAGATTGAAAGTAAATTTGAATATTAGA
30176991 GATTA
1 GATTA
30176996 CTTTTTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
45 4 0.09
46 38 0.81
47 5 0.11
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (46 bp):
GATTAAAGACACATCTCAAAGATTGAAAGTAAATTTGAATATTAGA
Found at i:30180418 original size:127 final size:127
Alignment explanation
Indices: 30180269--30180518 Score: 428
Period size: 127 Copynumber: 2.0 Consensus size: 127
30180259 TCCTCCAACC
30180269 TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
1 TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
* * *
30180334 CATACATAATTTCAAAATTCATACTTACTTACTTAAATACATGTAATCAATATTCATTTATG
66 CATACATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATCAATATTCATTTATG
* * *
30180396 TAACTGAAAGGCTAAGTACATGATTAATAATTACATTAATGACTAAATAAATGCATTTAATCTTA
1 TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
* *
30180461 CATGCATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATTAATATTCATT
66 CATACATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATCAATATTCATT
30180519 CATGCACTAA
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 115 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (127 bp):
TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
CATACATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATCAATATTCATTTATG
Found at i:30181589 original size:31 final size:33
Alignment explanation
Indices: 30181553--30181624 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 33
30181543 AAATTTCAAA
30181553 ATTTAAAAAAATATT-TATAATTTCTT-ATAATT
1 ATTTAAAAAAATATTCTATAATTT-TTAATAATT
* *
30181585 -TTT-AAATAATTTTCTATAATTTTTAATAATT
1 ATTTAAAAAAATATTCTATAATTTTTAATAATT
30181616 ATTTAAAAA
1 ATTTAAAAA
30181625 GCCACTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
30 10 0.30
31 17 0.52
32 3 0.09
33 3 0.09
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (33 bp):
ATTTAAAAAAATATTCTATAATTTTTAATAATT
Found at i:30181595 original size:11 final size:10
Alignment explanation
Indices: 30181569--30181621 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
30181559 AAAAATATTT
30181569 ATAATTTCTT-
1 ATAATTT-TTA
30181579 ATAATTTTTAA
1 ATAATTTTT-A
30181590 ATAATTTTCT-
1 ATAATTTT-TA
30181600 ATAATTTTTA
1 ATAATTTTTA
30181610 ATAATTATTTA
1 ATAATT-TTTA
30181621 A
1 A
30181622 AAAGCCACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.08
10 21 0.55
11 13 0.34
12 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:30181595 original size:21 final size:20
Alignment explanation
Indices: 30181569--30181615 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
30181559 AAAAATATTT
30181569 ATAA-TTTCTTATAATTTTTAA
1 ATAATTTTC-TATAATTTTT-A
30181590 ATAATTTTCTATAATTTTTA
1 ATAATTTTCTATAATTTTTA
30181610 ATAATT
1 ATAATT
30181616 ATTTAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATTTTCTATAATTTTTA
Found at i:30189415 original size:6 final size:6
Alignment explanation
Indices: 30189406--30189491 Score: 61
Period size: 6 Copynumber: 14.7 Consensus size: 6
30189396 AAAAAGGAAA
* ** **
30189406 AAAATC AAAATC AAAATC AAAATC GAAAA-C AAAA-- AGAAGA AAAAGA
1 AAAATC AAAATC AAAATC AAAATC -AAAATC AAAATC AAAATC AAAATC
* * * *
30189452 AAAATC AAAATC AAATTC AAATTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
30189492 AAGAGAGAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
4 3 0.04
5 4 0.06
6 59 0.84
7 4 0.06
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.14
Consensus pattern (6 bp):
AAAATC
Found at i:30189479 original size:40 final size:43
Alignment explanation
Indices: 30189388--30189493 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 43
30189378 GTTCAGATCC
30189388 AATTCAAAAAAAAGGAAAAAAATCAAAATCAAAATCAAAATCGA
1 AATTCAAAAAAAAGGAAAAAAA-CAAAATCAAAATCAAAATCGA
* * * *
30189432 AA-ACAAAAAGAA-GAAAAAGA-AAAATCAAAATCAAATTC-A
1 AATTCAAAAAAAAGGAAAAAAACAAAATCAAAATCAAAATCGA
*
30189471 AATTCAAAATGAAAATGAAAAAA
1 AATTCAAAA--AAAAGGAAAAAA
30189494 GAGAGAAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
39 3 0.06
40 22 0.43
42 10 0.20
43 14 0.27
44 2 0.04
ACGTcount: A:0.70, C:0.09, G:0.08, T:0.13
Consensus pattern (43 bp):
AATTCAAAAAAAAGGAAAAAAACAAAATCAAAATCAAAATCGA
Done.