Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 29 of 240
Found at i:10146740 original size:107 final size:107
Alignment explanation
Indices: 10146496--10146857 Score: 526
Period size: 100 Copynumber: 3.4 Consensus size: 107
10146486 TATAATTATA
*
10146496 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAATTTTTTTTAAATGT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAATTTTTTTTAATTGT
*
10146561 ACTGGGTGCCGCCATTGACAGGCCAGCACC-AA---TT-TTT
66 ACTGGGTGCGGCCATTGACAGGCCAGCACCAAATTTTTATTT
* *
10146598 TTTA--TTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAATA-ATA-TTTTTTTAATTTG
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAATTTTTTTTAA-TTG
10146659 TACTGGGTGCTGGCCATTGACAGGCCAGCACCAAATTTTTATTT
65 TACTGGGTGC-GGCCATTGACAGGCCAGCACCAAATTTTTATTT
10146703 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAAATTTTTTTTAAATT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACG-AAAAAAAAAGAAATTTTTTTT-AATT
*
10146768 GTACTGGGTGCCGGCCATTGACAGGCCAGTACCCAAAAATTTTTATTT
64 GTACTGGGTG-CGGCCATTGACAGGCCAGCA-CC--AAATTTTTATTT
*
10146816 TTTTTATTTTTTCGTATACTGATATCTGATTCTGACACGAAA
1 TTTAT-TTTTTTCGTATACTGATATCTGATTCTGACACGAAA
10146858 TTTTTTTAAG
Statistics
Matches: 234, Mismatches: 8, Indels: 25
0.88 0.03 0.09
Matches are distributed among these distances:
98 9 0.04
99 14 0.06
100 60 0.26
101 2 0.01
102 4 0.02
104 2 0.01
105 7 0.03
107 32 0.14
108 8 0.03
109 2 0.01
110 37 0.16
111 5 0.02
113 19 0.08
114 33 0.14
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (107 bp):
TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAATTTTTTTTAATTGT
ACTGGGTGCGGCCATTGACAGGCCAGCACCAAATTTTTATTT
Found at i:10146979 original size:175 final size:170
Alignment explanation
Indices: 10146700--10147032 Score: 535
Period size: 177 Copynumber: 1.9 Consensus size: 170
10146690 CAAATTTTTA
*
10146700 TTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAAATTTTTTTTAA
1 TTTTTTAATTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAAATTTTTTTTAA
* ** *
10146765 ATTGTACTGGGTGCCGGCCATTGACAGGCCAGTACCCAAAAATTTTTATTTTTTTTATTTTTTCG
66 ATTGTACTGGGTGCCGGCCATTAACAGGCCAACACCC-AAAA---TT-TTTTTTAT-TTTTTTCG
*
10146830 TATACTGATATCTGATTCTGACACGAAATTTTTTTAAGCACCTAAAT
125 TATACTGATATCTGACTCTGACAC-AAATTTTTTTAAGCACCTAAAT
10146877 TTTTTTAATTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAG-AA-TTTTTTTAA
1 TTTTTTAATTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAAATTTTTTTTAA
10146940 ATTGTACTGGGTGCCGGCCATTAACAGGCCAACACCCAAAATTTTTTTTATTTTTTTCGTATACT
66 ATTGTACTGGGTGCCGGCCATTAACAGGCCAACACCCAAAATTTTTTTTATTTTTTTCGTATACT
10147005 GATATCTGACTCTGACACAAATTTTTTT
131 GATATCTGACTCTGACACAAATTTTTTT
10147033 TAAATTGTAC
Statistics
Matches: 150, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
168 10 0.07
169 31 0.21
170 7 0.05
171 2 0.01
174 4 0.03
175 43 0.29
176 2 0.01
177 51 0.34
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (170 bp):
TTTTTTAATTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAAATTTTTTTTAA
ATTGTACTGGGTGCCGGCCATTAACAGGCCAACACCCAAAATTTTTTTTATTTTTTTCGTATACT
GATATCTGACTCTGACACAAATTTTTTTAAGCACCTAAAT
Found at i:10165524 original size:97 final size:99
Alignment explanation
Indices: 10165384--10165606 Score: 274
Period size: 97 Copynumber: 2.2 Consensus size: 99
10165374 AGGGAAAAAA
*
10165384 GAAAAACAA-AAAAAAAA-TTTGGGTGCTGGCTTGTCAATAGCCGGCACCCAGTACAATTTAAAA
1 GAAAAA-AATAAAAAAAATTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAGTACAATTTAAAA
*
10165447 AAA-AATTT-GTGTCAGAGTCAGATATCAGTATAC
65 AAATAATTTCGTGTCAGAATCAGATATCAGTATAC
* * *
10165480 GAAAAAAATAAAAAAAATTTTGGGTGTTGGCCTGTTAATGGCCGGCACCCAGTACAATTTAAAAA
1 GAAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAGTACAATTTAAAAA
**
10165545 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
66 AA-------TAATTTCGTGTCAGAATCAGATATCAGTATAC
10165586 GAAAAAAATTAAAAAAAATTT
1 GAAAAAAA-TAAAAAAAATTT
10165607 AGGTGCTTAA
Statistics
Matches: 108, Mismatches: 7, Indels: 13
0.84 0.05 0.10
Matches are distributed among these distances:
95 2 0.02
96 14 0.13
97 45 0.42
105 3 0.03
106 32 0.30
107 12 0.11
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (99 bp):
GAAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAGTACAATTTAAAAA
AATAATTTCGTGTCAGAATCAGATATCAGTATAC
Found at i:10165738 original size:180 final size:171
Alignment explanation
Indices: 10165444--10165784 Score: 533
Period size: 181 Copynumber: 1.9 Consensus size: 171
10165434 GTACAATTTA
* **
10165444 AAAAAAAATTTGTGTCAGAGTCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTGTTG
1 AAAAAAAATTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTACTG
*
10165509 GCCTGTTAATGGCCGGCACCCAGTACAATTTAAAAAAATTCT-TTTTTTTTTCGTGTCAGAATCA
66 GCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAATTCTCTTTTTTTTTCGTGTCAGAATCA
10165573 GATATCAGTATACGAAAAAAATTAAAAAAAATTTAGGTGCTT
131 GATATCAGTATACGAAAAAAA-TAAAAAAAATTTAGGTGCTT
10165615 AAAAAAAATTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAATAAAAATTTT
1 AAAAAAAATTT-GTGTCAGAATCAGATATCAGTATACGAAAAAAAT------AAA-AAAAA-TTT
10165680 TGGGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATT-TCTTTTTTTTTCGT
57 TGGGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTT-AAAAAAATTCTCTTTTTTTTTCGT
10165744 GTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAT
121 GTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAT
10165785 AAAAATTTGG
Statistics
Matches: 155, Mismatches: 4, Indels: 13
0.90 0.02 0.08
Matches are distributed among these distances:
171 11 0.07
172 33 0.21
178 3 0.02
179 5 0.03
180 51 0.33
181 52 0.34
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (171 bp):
AAAAAAAATTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATTTTGGGTACTG
GCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAATTCTCTTTTTTTTTCGTGTCAGAATCA
GATATCAGTATACGAAAAAAATAAAAAAAATTTAGGTGCTT
Found at i:10165834 original size:112 final size:112
Alignment explanation
Indices: 10165623--10165991 Score: 573
Period size: 103 Copynumber: 3.4 Consensus size: 112
10165613 TTAAAAAAAA
*
10165623 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAATAAAAATTTTTGGGTACT
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT-AAAAAAAATAAAAA--TTTGGGTGCT
10165688 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTT
63 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTT
10165738 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATAAAAATTTGGGTGCTGGC
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATAAAAATTTGGGTGCTGGC
* * * *
10165803 CTGTCAATGGCCAGCACCCAGTACAAATT-AAAAAAATAT-TATTTT
66 CTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTT
10165848 TTTCGTGTCAGAATCAGATATCAGTATACG-AAAAAAT-----AAA-AAAAA-TT-GGTGCTGGC
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATAAAAATTTGGGTGCTGGC
10165904 CTGTCAATGGCCGGCACCCAGTAC-ATTTAAAAAAAAATTTCTTTTTT
66 CTGTCAATGGCCGGCACCCAGTACAATTT-AAAAAAAATTTCTTTTTT
10165951 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAA
1 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAA
10165992 TATAATTATA
Statistics
Matches: 238, Mismatches: 9, Indels: 22
0.88 0.03 0.08
Matches are distributed among these distances:
100 3 0.01
101 32 0.13
102 11 0.05
103 40 0.17
104 10 0.04
109 7 0.03
110 35 0.15
111 9 0.04
112 39 0.16
114 14 0.06
115 38 0.16
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (112 bp):
TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAATAAAAATTTGGGTGCTGGC
CTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTT
Found at i:10166450 original size:29 final size:29
Alignment explanation
Indices: 10166418--10166484 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
10166408 CCTATATATT
*
10166418 TTTTGTAAATTT-AGAATTTAGT-TTGTATA
1 TTTT-TAAATTTAAGAATTTAGTCCT-TATA
**
10166447 TTTTTATTTTTAAGAATTTAGTCCTTATA
1 TTTTTAAATTTAAGAATTTAGTCCTTATA
10166476 TTTTTAAAT
1 TTTTTAAAT
10166485 ATTACGAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 5 0.16
29 25 0.81
30 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTAAATTTAAGAATTTAGTCCTTATA
Found at i:10169193 original size:52 final size:48
Alignment explanation
Indices: 10169174--10169376 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
10169164 TGACAAGTGG
* *
10169174 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10169220 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
10169272 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
10169318 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10169364 AAAGTGATAAGTG
1 AAAGTGATAAGTG
10169377 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:10169228 original size:98 final size:98
Alignment explanation
Indices: 10169108--10169376 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
10169098 TTTGAGTACT
*
10169108 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10169173 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
10169206 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10169271 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
10169304 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
10169369 GATAAGTG
65 GAAAAGTG
10169377 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:10169384 original size:37 final size:36
Alignment explanation
Indices: 10169340--10169476 Score: 157
Period size: 37 Copynumber: 4.0 Consensus size: 36
10169330 GATAGCTTTA
10169340 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATC-AGAGACAAAGTGATAAGTG
*
10169377 GCTACACTTATCTGATCA-AG--AAA--CA-AAGT-
1 GCTACACTTATCTGATCAGAGACAAAGTGATAAGTG
* *
10169406 -CTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATC-AGAGACAAAGTGATAAGTG
*
10169442 GCTACACTTATCTGATCAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAGAGACAAAGTGATAAGTG
10169477 ATCATACGTA
Statistics
Matches: 84, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
28 16 0.19
29 1 0.01
30 5 0.06
31 1 0.01
32 3 0.04
33 3 0.04
34 1 0.01
35 16 0.19
36 5 0.06
37 33 0.39
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAGAGACAAAGTGATAAGTG
Found at i:10169418 original size:28 final size:28
Alignment explanation
Indices: 10169378--10169433 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10169368 TGATAAGTGG
10169378 CTACACTTATCTGATCAAGAAACAAAGT
1 CTACACTTATCTGATCAAGAAACAAAGT
10169406 CTACACTTATCTGATCAAGAAACAAAGT
1 CTACACTTATCTGATCAAGAAACAAAGT
10169434 GATAGGTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (28 bp):
CTACACTTATCTGATCAAGAAACAAAGT
Found at i:10170803 original size:58 final size:59
Alignment explanation
Indices: 10170728--10170846 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
10170718 CATGTGAACA
*
10170728 TGTGATTATGTGATTCCGTGTAGGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
10170787 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
10170845 TG
1 TG
10170847 ATTTCGTGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 54 0.92
59 5 0.08
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (59 bp):
TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:10170860 original size:49 final size:49
Alignment explanation
Indices: 10170788--10170930 Score: 223
Period size: 49 Copynumber: 2.9 Consensus size: 49
10170778 AGTGATATGT
* *
10170788 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* * *
10170837 GTGATATGTGATTTCGTGTAAGACCATAGTTAGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
10170886 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
10170931 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:10174136 original size:52 final size:48
Alignment explanation
Indices: 10174117--10174319 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
10174107 TGACAAGTGG
* *
10174117 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10174163 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
10174215 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
10174261 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10174307 AAAGTGATAAGTG
1 AAAGTGATAAGTG
10174320 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:10174171 original size:98 final size:98
Alignment explanation
Indices: 10174051--10174319 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
10174041 TTTGAGTACT
*
10174051 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10174116 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
10174149 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10174214 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
10174247 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
10174312 GATAAGTG
65 GAAAAGTG
10174320 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:10174327 original size:37 final size:36
Alignment explanation
Indices: 10174283--10174419 Score: 157
Period size: 37 Copynumber: 4.0 Consensus size: 36
10174273 GATAGCTTTA
10174283 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATC-AGAGACAAAGTGATAAGTG
*
10174320 GCTACACTTATCTGATCA-AG--AAA--CA-AAGT-
1 GCTACACTTATCTGATCAGAGACAAAGTGATAAGTG
* *
10174349 -CTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATC-AGAGACAAAGTGATAAGTG
*
10174385 GCTACACTTATCTGATCAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAGAGACAAAGTGATAAGTG
10174420 ATCATACGTA
Statistics
Matches: 84, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
28 16 0.19
29 1 0.01
30 5 0.06
31 1 0.01
32 3 0.04
33 3 0.04
34 1 0.01
35 16 0.19
36 5 0.06
37 33 0.39
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAGAGACAAAGTGATAAGTG
Found at i:10174361 original size:28 final size:28
Alignment explanation
Indices: 10174321--10174376 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10174311 TGATAAGTGG
10174321 CTACACTTATCTGATCAAGAAACAAAGT
1 CTACACTTATCTGATCAAGAAACAAAGT
10174349 CTACACTTATCTGATCAAGAAACAAAGT
1 CTACACTTATCTGATCAAGAAACAAAGT
10174377 GATAGGTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (28 bp):
CTACACTTATCTGATCAAGAAACAAAGT
Found at i:10175280 original size:112 final size:107
Alignment explanation
Indices: 10175110--10175656 Score: 483
Period size: 112 Copynumber: 5.3 Consensus size: 107
10175100 CTGGGTGCCG
*
10175110 GCACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGA
1 GCACCCAAA-ATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG-
*
10175175 AAAAAAATTATTTTT-AAATTGTACTGGGTACTGGCCATTGACAGGCCA
64 -----AATTATTTTTAAAATTGTACTGGGTACCGGCCATTGACAGGCCA
* * *
10175223 GTACCTAAAATTTTTTTTATTTTTTTCGTATACTGATATTTGATTCTGACACGAAAAAAAAAGAA
1 GCACCCAAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAA
* *
10175288 TTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
66 TTATTTTTAAAATTGTACTGGGTACCGGCCATTGACAGGCCA
*
10175330 GCACCCAAAA-----TTT-TTTTTTTCGTATACTAATATCTGATTCTGACACG----AAAAA-AA
1 GCACCCAAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAA
*
10175384 --A-TTTT-AATTTGTACTGGGT----G-C-----C-GG-CA
66 TTATTTTTAAAATTGTACTGGGTACCGGCCATTGACAGGCCA
* **
10175410 -C-CCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAA
1 GCACCCAAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAA
* * * *
10175473 TTTTTTTTAAAATTATACTGGGTGCCGGCCATTGACAGGTCA
66 TTATTTTTAAAATTGTACTGGGTACCGGCCATTGACAGGCCA
* * * * *
10175515 ACACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATTTGACTCTGACACAAAAAAACACAA
1 GCACCCAAA-ATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACAC-----GA-A-AA
* * * *
10175580 AAAAAGAATT-TCTTTTTAAATTGTACTGGGTGCCAGCCATTGACAGACCA
58 AAAAAGAATTAT-TTTTAAAATTGTACTGGGTACCGGCCATTGACAGGCCA
*
10175630 GCACCTAAAATTTTTTTT-TTGTTTTTC
1 GCACCCAAAATTTTTTTTATT-TTTTTC
10175657 TTTTTTTTCT
Statistics
Matches: 361, Mismatches: 33, Indels: 79
0.76 0.07 0.17
Matches are distributed among these distances:
78 4 0.01
79 1 0.00
80 2 0.01
81 2 0.01
82 1 0.00
83 3 0.01
84 33 0.09
87 1 0.00
88 6 0.02
89 2 0.01
92 17 0.05
93 16 0.04
96 2 0.01
97 6 0.02
98 1 0.00
101 32 0.09
102 3 0.01
103 1 0.00
104 2 0.01
105 2 0.01
106 10 0.03
107 43 0.12
108 41 0.11
112 52 0.14
113 10 0.03
114 16 0.04
115 52 0.14
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (107 bp):
GCACCCAAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAA
TTATTTTTAAAATTGTACTGGGTACCGGCCATTGACAGGCCA
Found at i:10175625 original size:115 final size:108
Alignment explanation
Indices: 10175408--10175655 Score: 318
Period size: 108 Copynumber: 2.2 Consensus size: 108
10175398 TGGGTGCCGG
* *
10175408 CACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAA
1 CACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAAAAAAAAAGAA
* **
10175473 TTTTTTTTAAAATTATACTGGGTGCCGGCCATTGACAGGTCAA
66 TTTTTTTTAAAATTATACTGGGTGCCAGCCATTGACAGACCAA
*
10175516 CACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATTTGACTCTGACACAAAAAAACACAAA
1 CACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC-----AA-A-AAA
* *
10175581 AAAAGAATTTCTTTTT-AAATTGTACTGGGTGCCAGCCATTGACAGACCAG
59 AAAAGAATTT-TTTTTAAAATTATACTGGGTGCCAGCCATTGACAGACCAA
* *
10175631 CACCTAAAATTTTTTTTTTGTTTTT
1 CACC-CAAATTTTTTTTTTATTTTT
10175656 CTTTTTTTTC
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
108 50 0.41
113 1 0.01
114 1 0.01
115 46 0.38
116 23 0.19
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (108 bp):
CACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAAAAAAAAAGAA
TTTTTTTTAAAATTATACTGGGTGCCAGCCATTGACAGACCAA
Found at i:10175646 original size:297 final size:290
Alignment explanation
Indices: 10175047--10175647 Score: 855
Period size: 297 Copynumber: 2.0 Consensus size: 290
10175037 ATTTTTTTTA
* * ****
10175047 TTTTTTCGTATATTGATATCTGATTCTGACACGAAAATTTTTTTTAATTTGTACTGGGTGCCGGC
1 TTTTTTCGTATACTAATATCTGATTCTGACACGAAAAAAAATTTTAATTTGTACTGGGTGCCGGC
10175112 ACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAA
66 ACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG---
* * ** *
10175177 AAAAATTATTTTTAAATTGTACTGGGTACTGGCCATTGACAGGCCAGTACCTAAAATTTTTTTTA
128 --AAATTATTTTTAAATTATACTGGGTACCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTA
* *
10175242 TTTTTTTCGTATACTGATATTTGATTCTGACACGAAAAAAAAAGAATTTTTTTTAAAATTGTACT
191 TTTTTTTCGTATACTGATATTTGACTCTGACACAAAAAAAAAAGAATTTTTTTTAAAATTGTACT
* *
10175307 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTT
256 GGGTGCCAGCCATTGACAGACCAGCACCCAAAA--TT
10175344 TTTTTTCGTATACTAATATCTGATTCTGACACGAAAAAAAATTTTAATTTGTACTGGGTGCCGGC
1 TTTTTTCGTATACTAATATCTGATTCTGACACGAAAAAAAATTTTAATTTGTACTGGGTGCCGGC
10175409 ACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG-AA
66 ACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAA
* * * *
10175473 TTTTTTTTAAAATTATACTGGGTGCCGGCCATTGACAGGTCAACACCCAAATTTTTTTTTTATTT
131 TTATTTTT-AAATTATACTGGGTACCGGCCATTGACAGGCCAACACCCAAA-ATTTTTTTTATTT
10175538 TTTTCGTATACTGATATTTGACTCTGACACAAAAAAACACAAAAAAAGAATTTCTTTTT-AAATT
194 TTTTCGTATACTGATATTTGACTCTGACAC-----AA-A-AAAAAAAGAATTT-TTTTTAAAATT
*
10175602 GTACTGGGTGCCAGCCATTGACAGACCAGCACCTAAAATT
251 GTACTGGGTGCCAGCCATTGACAGACCAGCACCCAAAATT
10175642 TTTTTT
1 TTTTTT
10175648 TTGTTTTTCT
Statistics
Matches: 274, Mismatches: 20, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
291 9 0.03
292 35 0.13
293 41 0.15
297 121 0.44
298 9 0.03
299 1 0.00
300 53 0.19
301 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (290 bp):
TTTTTTCGTATACTAATATCTGATTCTGACACGAAAAAAAATTTTAATTTGTACTGGGTGCCGGC
ACCCAAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAA
TTATTTTTAAATTATACTGGGTACCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTATTTTT
TTCGTATACTGATATTTGACTCTGACACAAAAAAAAAAGAATTTTTTTTAAAATTGTACTGGGTG
CCAGCCATTGACAGACCAGCACCCAAAATT
Found at i:10175671 original size:17 final size:17
Alignment explanation
Indices: 10175640--10175673 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10175630 GCACCTAAAA
* *
10175640 TTTTTTTTTTGTTTTTC
1 TTTTTTTTCTCTTTTTC
10175657 TTTTTTTTCTCTTTTTC
1 TTTTTTTTCTCTTTTTC
10175674 GTATATCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTTTTCTCTTTTTC
Found at i:10176720 original size:24 final size:23
Alignment explanation
Indices: 10176667--10176715 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
10176657 TGAAATATTC
*
10176667 TAAAATAAATATATTTTAAAAAT
1 TAAATTAAATATATTTTAAAAAT
*
10176690 TCAATTAAA-ATATTTTAAAAAT
1 TAAATTAAATATATTTTAAAAAT
10176712 TAAA
1 TAAA
10176716 GATTAGTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATTAAATATATTTTAAAAAT
Found at i:10183318 original size:14 final size:14
Alignment explanation
Indices: 10183299--10183325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10183289 GAACAATCTT
10183299 GCTTAAATTAATTA
1 GCTTAAATTAATTA
10183313 GCTTAAATTAATT
1 GCTTAAATTAATT
10183326 GATTTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
GCTTAAATTAATTA
Found at i:10192770 original size:17 final size:16
Alignment explanation
Indices: 10192724--10192773 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
10192714 CATGAACGGT
*
10192724 AGAGAGAAAAA-AAAA
1 AGAGAGAAAAAGAAGA
*
10192739 AGAGAGAAAGGAGAAGA
1 AGAGAGAAA-AAGAAGA
10192756 AGAGAAGAAAAAGAAGA
1 AGAG-AGAAAAAGAAGA
10192773 A
1 A
10192774 ATAAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 9 0.31
16 1 0.03
17 14 0.48
18 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGAGAGAAAAAGAAGA
Found at i:10192887 original size:44 final size:45
Alignment explanation
Indices: 10192834--10192921 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
10192824 TTAAAGAGTT
* *
10192834 TAATGTTGGTTTAGACTC-ACGACTTTGTAGTATATTGATATATA
1 TAATATTGGTTTAGACTCGACGACTTTGTAGTATACTGATATATA
*
10192878 TAATATTGGTTTAGACTCGACGACTTTGTAGTCTACTGATATAT
1 TAATATTGGTTTAGACTCGACGACTTTGTAGTATACTGATATAT
10192922 TCATGCTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 17 0.43
45 23 0.57
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.42
Consensus pattern (45 bp):
TAATATTGGTTTAGACTCGACGACTTTGTAGTATACTGATATATA
Found at i:10193983 original size:18 final size:18
Alignment explanation
Indices: 10193960--10193994 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10193950 CAAAATACCT
10193960 TATCATTCTTCTTGTTTG
1 TATCATTCTTCTTGTTTG
10193978 TATCATTCTTCTTGTTT
1 TATCATTCTTCTTGTTT
10193995 TCCTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (18 bp):
TATCATTCTTCTTGTTTG
Found at i:10194288 original size:49 final size:50
Alignment explanation
Indices: 10194234--10194341 Score: 155
Period size: 50 Copynumber: 2.2 Consensus size: 50
10194224 TTATTAAAAG
* * *
10194234 AAAAAAATTTAATATATAATATTCATTGGCG-CTATCAGATAGGCACCATT
1 AAAAAAA-TTAATATAAAATAATCATTGGCGCCTATCAAATAGGCACCATT
* *
10194284 AAAAAAATTAATATAAAATAATCATTGGCGCCTCTCAAATAGGCGCCATT
1 AAAAAAATTAATATAAAATAATCATTGGCGCCTATCAAATAGGCACCATT
10194334 AAAAAAAT
1 AAAAAAAT
10194342 AACTCATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
49 21 0.40
50 31 0.60
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (50 bp):
AAAAAAATTAATATAAAATAATCATTGGCGCCTATCAAATAGGCACCATT
Found at i:10194759 original size:18 final size:18
Alignment explanation
Indices: 10194736--10194770 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10194726 CGCCATGTTT
10194736 GTCTCTATTGATATGAAG
1 GTCTCTATTGATATGAAG
*
10194754 GTCTCTATTGGTATGAA
1 GTCTCTATTGATATGAA
10194771 TGAGCTTGTT
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:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (18 bp):
GTCTCTATTGATATGAAG
Found at i:10212381 original size:21 final size:21
Alignment explanation
Indices: 10212355--10212395 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10212345 ATCTGCTCAA
* *
10212355 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTATGGAGTAC
10212376 ACTCCACCTGCTATGGAGTA
1 ACTCCACCTGCTATGGAGTA
10212396 TTGCTCGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTATGGAGTAC
Found at i:10220241 original size:22 final size:22
Alignment explanation
Indices: 10220216--10220264 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
10220206 TATTTAACGT
*
10220216 ATTTGATAAAAAT-ATATATTTA
1 ATTTAATAAAAATAATAT-TTTA
*
10220238 ATTTTAATTAAAATAATATTTTA
1 A-TTTAATAAAAATAATATTTTA
10220261 ATTT
1 ATTT
10220265 TTTTTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTAATAAAAATAATATTTTA
Found at i:10221621 original size:16 final size:16
Alignment explanation
Indices: 10221580--10221621 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10221570 AATTTTATTT
*
10221580 TAATAATAAATTTAAA
1 TAATAATAATTTTAAA
*
10221596 AAATAATAATTTTAAA
1 TAATAATAATTTTAAA
*
10221612 TAATATTAAT
1 TAATAATAAT
10221622 CACATATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:10221669 original size:15 final size:15
Alignment explanation
Indices: 10221649--10221705 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
10221639 ATTCAATATT
10221649 AATATTTTAATAATA
1 AATATTTTAATAATA
*
10221664 AATATTTCTTACAATTATA
1 AATA-TT-TT--AATAATA
*
10221683 AATATATTAATAATA
1 AATATTTTAATAATA
10221698 AATATTTT
1 AATATTTT
10221706 GTAGTGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:10222194 original size:13 final size:14
Alignment explanation
Indices: 10222153--10222195 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
10222143 CCAGAAAAAT
10222153 AAGTCATTTTCCAA
1 AAGTCATTTTCCAA
* *
10222167 AAATTATTTTCCAA
1 AAGTCATTTTCCAA
10222181 AAGTCATTTT-CAA
1 AAGTCATTTTCCAA
10222194 AA
1 AA
10222196 AAACAAACAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (14 bp):
AAGTCATTTTCCAA
Found at i:10224362 original size:20 final size:20
Alignment explanation
Indices: 10224316--10224362 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
10224306 AGCTCGTTTC
*
10224316 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
10224336 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
10224356 CAGCTCA
1 CAGCTCA
10224363 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:10231356 original size:32 final size:33
Alignment explanation
Indices: 10231320--10231384 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
10231310 TGAAATATAT
*
10231320 ATAAAAATTATAAT-TTATAAAT-TTATAAAAAA
1 ATAAAAATTA-AATATTAAAAATATTATAAAAAA
* *
10231352 ATAAATATTAAATATTAAAAATATTTTAAAAAA
1 ATAAAAATTAAATATTAAAAATATTATAAAAAA
10231385 GTATATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 3 0.11
32 16 0.57
33 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (33 bp):
ATAAAAATTAAATATTAAAAATATTATAAAAAA
Found at i:10231615 original size:7 final size:8
Alignment explanation
Indices: 10231598--10231628 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
10231588 AATTTATTTT
10231598 AAAAATAA
1 AAAAATAA
10231606 AAAAATAA
1 AAAAATAA
10231614 AAAAATAA
1 AAAAATAA
10231622 AAAAATA
1 AAAAATA
10231629 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:10231915 original size:16 final size:14
Alignment explanation
Indices: 10231878--10231908 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10231868 GTCTAGAATC
10231878 ATTCTAGACAAATG
1 ATTCTAGACAAATG
10231892 ATTCTAGACAAATG
1 ATTCTAGACAAATG
10231906 ATT
1 ATT
10231909 GTCTAGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
ATTCTAGACAAATG
Found at i:10241640 original size:39 final size:39
Alignment explanation
Indices: 10241559--10241633 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
10241549 ACACGTATAT
*
10241559 ATATTTTTTATAATTTATTTAATATATATATACATACTC
1 ATATTTTTTATAATATATTTAATATATATATACATACTC
* *
10241598 ATATTTTTTAT-ATATATTTTATAATTTATATACATA
1 ATATTTTTTATAATATATTTAAT-ATATATATACATA
10241634 TCCATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 9 0.28
39 23 0.72
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (39 bp):
ATATTTTTTATAATATATTTAATATATATATACATACTC
Found at i:10241654 original size:14 final size:14
Alignment explanation
Indices: 10241637--10241666 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10241627 ATACATATCC
10241637 ATATATATATACAT
1 ATATATATATACAT
*
10241651 ATATCTATATACAT
1 ATATATATATACAT
10241665 AT
1 AT
10241667 TTTTTTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATATATACAT
Found at i:10245251 original size:14 final size:14
Alignment explanation
Indices: 10245232--10245260 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10245222 GCTTGTTTTC
10245232 TTTTCTTTTGCGGG
1 TTTTCTTTTGCGGG
10245246 TTTTCTTTTGCGGG
1 TTTTCTTTTGCGGG
10245260 T
1 T
10245261 GGAGCAGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.28, T:0.59
Consensus pattern (14 bp):
TTTTCTTTTGCGGG
Found at i:10249363 original size:24 final size:26
Alignment explanation
Indices: 10249327--10249378 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
10249317 TGATAGGTGA
*
10249327 TTTTCTTCGTCTTTTATTTCTTTCTC
1 TTTTCTTCGTCTTTGATTTCTTTCTC
* *
10249353 TTTT-TTC-TCTTTGATTTTTTTTTC
1 TTTTCTTCGTCTTTGATTTCTTTCTC
10249377 TT
1 TT
10249379 GGTGCACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 16 0.70
25 3 0.13
26 4 0.17
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTTCTTCGTCTTTGATTTCTTTCTC
Found at i:10263943 original size:14 final size:14
Alignment explanation
Indices: 10263924--10263950 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10263914 TTCTGCTTGT
10263924 TTATTTTATTTTAC
1 TTATTTTATTTTAC
10263938 TTATTTTATTTTA
1 TTATTTTATTTTA
10263951 TCTTTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTTTAC
Found at i:10264754 original size:3 final size:3
Alignment explanation
Indices: 10264711--10264791 Score: 67
Period size: 3 Copynumber: 26.0 Consensus size: 3
10264701 TTTAGCAATC
* *
10264711 TTA TTA TT- TTT TTAA TTA TT- TTAA TGTA TTA TCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* *
10264758 TTA TTA CTA TTA TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
10264792 GTTTTATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
2 4 0.06
3 49 0.77
4 10 0.16
5 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10266865 original size:46 final size:46
Alignment explanation
Indices: 10266766--10267091 Score: 394
Period size: 46 Copynumber: 7.6 Consensus size: 46
10266756 TACATATGAT
*
10266766 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
10266809 CACTTATCACTTTGTCACTTGATCAGATAA-TAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGT-GTAGCTAAGGCTAC
* *
10266855 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
10266901 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
10266937 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
10266983 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
10267019 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
10267065 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
10267092 AGTACTCAAA
Statistics
Matches: 248, Mismatches: 10, Indels: 47
0.81 0.03 0.15
Matches are distributed among these distances:
36 57 0.23
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.04
44 11 0.04
45 18 0.07
46 132 0.53
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:10266942 original size:36 final size:36
Alignment explanation
Indices: 10266901--10267055 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
10266891 CTAAGGCTAA
10266901 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
10266937 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
10266979 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
10267019 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
10267055 C
1 C
10267056 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:10266992 original size:82 final size:82
Alignment explanation
Indices: 10266855--10267091 Score: 411
Period size: 82 Copynumber: 2.9 Consensus size: 82
10266845 CTAAGGCTAC
* * *
10266855 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
10266920 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
10266937 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
10267002 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
10267019 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
10267084 TGATCAGA
66 TGATCAGA
10267092 AGTACTCAAA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 147 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTATAG
Found at i:10267069 original size:128 final size:132
Alignment explanation
Indices: 10266766--10267091 Score: 398
Period size: 128 Copynumber: 2.5 Consensus size: 132
10266756 TACATATGAT
* *
10266766 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTACCACTTATCACTTTATCACTT
*
10266829 GATCAGATAATAGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
65 GATCAGATAATAGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCTA
10266894 AGGCTAA
129 AGG---A
*
10266901 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TAG----CACTTATCACTTTTTCACTTG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTACCACTTATCACTTTATCACTTG
* *
10266958 ATCAGATAAGT-GTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-A
66 ATCAGATAA-TAGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAA
10267018 -G-
130 GGA
*
10267019 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTACCACTTATCACTTTATCACT
10267084 TGATCAGA
64 TGATCAGA
10267092 AGTACTCAAA
Statistics
Matches: 171, Mismatches: 7, Indels: 33
0.81 0.03 0.16
Matches are distributed among these distances:
118 29 0.17
120 3 0.02
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.01
126 2 0.01
128 96 0.56
129 1 0.01
132 1 0.01
133 2 0.01
135 13 0.08
136 5 0.03
137 12 0.07
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (132 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTACCACTTATCACTTTATCACTTG
ATCAGATAATAGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAG
GA
Found at i:10268818 original size:10 final size:10
Alignment explanation
Indices: 10268799--10268830 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
10268789 TTAACACTCC
10268799 ATAAATATTT
1 ATAAATATTT
*
10268809 ATAAAAATTT
1 ATAAATATTT
10268819 ATAAATATTT
1 ATAAATATTT
10268829 AT
1 AT
10268831 GGCTTGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAATATTT
Found at i:10269198 original size:17 final size:17
Alignment explanation
Indices: 10269161--10269197 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10269151 GGAGGAAAAC
10269161 AAAATGAGAAACAGAAG
1 AAAATGAGAAACAGAAG
10269178 AAAATG-GAAA-ATGAAG
1 AAAATGAGAAACA-GAAG
10269194 AAAA
1 AAAA
10269198 AATAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 12 0.63
17 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.08
Consensus pattern (17 bp):
AAAATGAGAAACAGAAG
Found at i:10274835 original size:162 final size:162
Alignment explanation
Indices: 10274568--10274888 Score: 538
Period size: 162 Copynumber: 2.0 Consensus size: 162
10274558 GAAGGAAGAT
*
10274568 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGGAAAAGGAAAACTGCAAAG
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGGAAAACTGCAAAG
**
10274633 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACGCTGCAGATGAGATTAA
66 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
10274698 GCAAACAACATATAGGACTGAAACTCCACCGC
131 GCAAACAACATATAGGACTGAAACTCCACCGC
* *
10274730 CTGCAAAGCTAGCTGGTACTGTCAATGGTGGTTCATTGTTGCCCCAGAAAAAGG-GAACTG-AGA
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCC-GAAAAAGGAAAACTGCA-A
* *
10274793 AGAAAAGTTCTAAAATTGATCCACATCAGTTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
64 AGAAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
*
10274858 AAGCAAACAACATATAGGATTGAAACTCCAC
129 AAGCAAACAACATATAGGACTGAAACTCCAC
10274889 TTCCTGCAGA
Statistics
Matches: 149, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
161 1 0.01
162 141 0.95
163 7 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (162 bp):
CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGGAAAACTGCAAAG
AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
GCAAACAACATATAGGACTGAAACTCCACCGC
Found at i:10288045 original size:18 final size:18
Alignment explanation
Indices: 10288003--10288046 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
10287993 ATTCCCACTC
*
10288003 ATAATAATAATACTAATA
1 ATAATACTAATACTAATA
10288021 ATAATACTAATACTAATA
1 ATAATACTAATACTAATA
*
10288039 TTAATACT
1 ATAATACT
10288047 TACCTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATACTAATACTAATA
Found at i:10288046 original size:12 final size:12
Alignment explanation
Indices: 10288004--10288044 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
10287994 TTCCCACTCA
10288004 TAATAATAATAC
1 TAATAATAATAC
10288016 TAATAATAATAC
1 TAATAATAATAC
* *
10288028 TAATACTAATAT
1 TAATAATAATAC
10288040 TAATA
1 TAATA
10288045 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:10288976 original size:14 final size:17
Alignment explanation
Indices: 10288957--10288994 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
10288947 ATTTATTTCT
10288957 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
10288971 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
10288988 TAATATA
1 TAATATA
10288995 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:10289002 original size:12 final size:11
Alignment explanation
Indices: 10288974--10289017 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
10288964 ATATTTATAA
10288974 TATAATTAATT
1 TATAATTAATT
*
10288985 TAATAATATACTT
1 T-ATAAT-TAATT
10288998 TATAATTAATT
1 TATAATTAATT
10289009 TATATATTA
1 TATA-ATTA
10289018 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:10289021 original size:20 final size:23
Alignment explanation
Indices: 10288969--10289031 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
10288959 ATATAATATT
10288969 TATA-ATATAATTAATTTAATAA
1 TATATATATAATTAATTTAATAA
* *
10288991 TATACTTTATAATTAATTTATATAT
1 TATA-TATATAATTAATTTA-ATAA
* *
10289016 TATATAAATAAATAAT
1 TATATATATAATTAAT
10289032 ATAAATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATAATTAATTTAATAA
Found at i:10289033 original size:20 final size:20
Alignment explanation
Indices: 10288986--10289034 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
10288976 TAATTAATTT
*
10288986 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* *
10289006 ATTTATATA-TTATATAAATA
1 AATAATATACTT-TATAAATA
10289026 AATAATATA
1 AATAATATA
10289035 AATATCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:10291035 original size:15 final size:15
Alignment explanation
Indices: 10290988--10291037 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
10290978 TAATATTTTC
* *
10290988 ATTATTATTGTTATT
1 ATTATTATTGATACT
10291003 ATTATTATT-ACT-CAT
1 ATTATTATTGA-TAC-T
10291018 ATTATTATTGATACT
1 ATTATTATTGATACT
10291033 ATTAT
1 ATTAT
10291038 ATTTAGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 27 0.93
16 2 0.07
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (15 bp):
ATTATTATTGATACT
Found at i:10299088 original size:15 final size:14
Alignment explanation
Indices: 10299067--10299102 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
10299057 ATAATCCTTA
*
10299067 ATAATTATCTTAAT
1 ATAATTATCCTAAT
10299081 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
10299096 ATAATTA
1 ATAATTA
10299103 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:10300868 original size:14 final size:13
Alignment explanation
Indices: 10300845--10300886 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10300835 TAATATTTGA
10300845 TTTATTATTTTAT
1 TTTATTATTTTAT
10300858 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
10300871 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
10300885 TT
1 TT
10300887 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:10303161 original size:5 final size:6
Alignment explanation
Indices: 10303144--10303169 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10303134 ATTAAATATA
10303144 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
10303170 ATCAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:10303909 original size:32 final size:32
Alignment explanation
Indices: 10303872--10303934 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
10303862 ATGTTTATAT
*
10303872 TTTTTTAATACTTTTT-AATTTAAAAAAATTAA
1 TTTTTT-AGACTTTTTAAATTTAAAAAAATTAA
*
10303904 TTTTTTAGGCTTTTTAAATTTAAAAAAATTA
1 TTTTTTAGACTTTTTAAATTTAAAAAAATTA
10303935 TTAATTGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTTTTAGACTTTTTAAATTTAAAAAAATTAA
Found at i:10304250 original size:7 final size:7
Alignment explanation
Indices: 10304238--10304263 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10304228 GTAAAAATAT
10304238 AAATTTA
1 AAATTTA
10304245 AAATTTA
1 AAATTTA
10304252 AAATTTA
1 AAATTTA
10304259 AAATT
1 AAATT
10304264 AAATTGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:10304413 original size:23 final size:25
Alignment explanation
Indices: 10304382--10304438 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
10304372 AATTTCATAG
*
10304382 TGTACATTTTTAAAT-AAA-TAA-TA
1 TGTA-ATTTTGAAATGAAATTAATTA
10304405 TGTTAATTTTGAAATGAAATTAATTA
1 TG-TAATTTTGAAATGAAATTAATTA
10304431 TGTAATTT
1 TGTAATTT
10304439 ATTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 11 0.38
24 5 0.17
25 9 0.31
26 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (25 bp):
TGTAATTTTGAAATGAAATTAATTA
Found at i:10312996 original size:14 final size:13
Alignment explanation
Indices: 10312973--10313014 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10312963 TAATCTTTGA
10312973 TTTATTATTTTAT
1 TTTATTATTTTAT
10312986 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
10312999 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
10313013 TT
1 TT
10313015 GACTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:10313655 original size:36 final size:35
Alignment explanation
Indices: 10313605--10313683 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
10313595 GATGTTGGAG
10313605 ATATTTTAGATTAATTAAATAAATATTAGTTTATTA
1 ATATTTTAGATTAATT-AATAAATATTAGTTTATTA
** * *
10313641 ATATTTTA-ATTTAATTTTTAAATATTATTTTTTTA
1 ATATTTTAGA-TTAATTAATAAATATTAGTTTATTA
*
10313676 TTATTTTA
1 ATATTTTA
10313684 TTATTTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 23 0.62
36 14 0.38
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (35 bp):
ATATTTTAGATTAATTAATAAATATTAGTTTATTA
Found at i:10316124 original size:25 final size:25
Alignment explanation
Indices: 10316096--10316249 Score: 181
Period size: 25 Copynumber: 6.3 Consensus size: 25
10316086 GGAGTTTAGC
10316096 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
*
10316121 GTGCTTTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
*
10316146 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
* ** *
10316171 GTGCTCTCTGATTACTAATACGTTA
1 GTGCTCTCTGATTATTAGCACGTCA
* *
10316196 GTGCTCTTTGATTATTAGCACATTC-
1 GTGCTCTCTGATTATTAGCAC-GTCA
* *
10316221 GTGCTCTCT-A-TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACGTCA
10316243 GTGCTCT
1 GTGCTCT
10316250 TTGTTTAATA
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
21 2 0.02
22 13 0.12
23 2 0.02
24 1 0.01
25 94 0.83
26 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACGTCA
Found at i:10318273 original size:12 final size:12
Alignment explanation
Indices: 10318258--10318282 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10318248 TTTTTATACG
10318258 TACTATTATATA
1 TACTATTATATA
10318270 TACTATTATATA
1 TACTATTATATA
10318282 T
1 T
10318283 TTTAAATGTA
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TACTATTATATA
Found at i:10323012 original size:15 final size:15
Alignment explanation
Indices: 10322992--10323021 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10322982 TAAATTATAA
*
10322992 AAAATACAAAAATAC
1 AAAATAAAAAAATAC
10323007 AAAATAAAAAAATAC
1 AAAATAAAAAAATAC
10323022 GACAATTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAAATAC
Found at i:10323133 original size:15 final size:15
Alignment explanation
Indices: 10323110--10323140 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10323100 GTTTTTTTCT
10323110 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
10323125 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
10323140 T
1 T
10323141 TCTAAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:10325755 original size:23 final size:22
Alignment explanation
Indices: 10325703--10325755 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
10325693 TCCACGTCTT
*
10325703 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
10325725 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
10325748 TTTCTTTT
1 TTTCTTTT
10325756 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:10331297 original size:106 final size:107
Alignment explanation
Indices: 10331106--10331304 Score: 305
Period size: 106 Copynumber: 1.9 Consensus size: 107
10331096 AACCGTACTT
*
10331106 TAAAGTTTTAAGAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAACACGTTAGGGC
1 TAAAGTTTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAACACGTTAGGGC
10331171 ACATATTCCCGATCTTCCAAACGCGAAATATTGCCTCATTTG
66 ACATATTCCCGATCTTCCAAACGCGAAATATTGCCTCATTTG
* * * *
10331213 TAAAG-TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAATCGAAACCCAACATGTTAGGGC
1 TAAAGTTTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAACACGTTAGGGC
*
10331277 ACGA-A-TCCTCGATTTTCCAAACGCGAAA
66 AC-ATATTCC-CGATCTTCCAAACGCGAAA
10331305 CATTACCTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
105 3 0.04
106 75 0.89
107 6 0.07
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (107 bp):
TAAAGTTTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAACACGTTAGGGC
ACATATTCCCGATCTTCCAAACGCGAAATATTGCCTCATTTG
Found at i:10332750 original size:6 final size:6
Alignment explanation
Indices: 10332735--10332796 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
10332725 CAGATTCGTG
* *
10332735 AAAT-A AAATAA AAATAA AAATAA AAAT-A AAACAA AAATGAA AAGTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA
* *
10332782 ATAGAA AAA-AA AAAT
1 AAATAA AAATAA AAAT
10332797 CAACCTTTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.28
6 28 0.61
7 5 0.11
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:10332756 original size:12 final size:12
Alignment explanation
Indices: 10332735--10332796 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 12
10332725 CAGATTCGTG
10332735 AAAT-AAAATAA
1 AAATAAAAATAA
10332746 AAATAAAAATAA
1 AAATAAAAATAA
*
10332758 AAAT-AAAACAA
1 AAATAAAAATAA
*
10332769 AAATGAAAAGTAA
1 AAAT-AAAAATAA
* *
10332782 ATAGAAAAA-AA
1 AAATAAAAATAA
10332793 AAAT
1 AAAT
10332797 CAACCTTTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
11 18 0.45
12 15 0.38
13 7 0.17
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:10332765 original size:23 final size:24
Alignment explanation
Indices: 10332735--10332796 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
10332725 CAGATTCGTG
*
10332735 AAATAAAATAAAAAT-AAAAATAA
1 AAATAAAAAAAAAATGAAAAATAA
* *
10332758 AAATAAAACAAAAATGAAAAGTAA
1 AAATAAAAAAAAAATGAAAAATAA
* *
10332782 ATAGAAAAAAAAAAT
1 AAATAAAAAAAAAAT
10332797 CAACCTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (24 bp):
AAATAAAAAAAAAATGAAAAATAA
Found at i:10337598 original size:42 final size:42
Alignment explanation
Indices: 10337531--10337620 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
10337521 CATTTTTCGC
* **
10337531 GAAATTGCGTCCACGTCGGCACGATGTCAGGGTACGCGCCAA
1 GAAATCGCGTCCACGTCAACACGATGTCAGGGTACGCGCCAA
* *
10337573 GAAATCGCGTCCACGTCAACGCGATGTCAGGGTACGCGCCAG
1 GAAATCGCGTCCACGTCAACACGATGTCAGGGTACGCGCCAA
10337615 GAAATC
1 GAAATC
10337621 TCGAAAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.16
Consensus pattern (42 bp):
GAAATCGCGTCCACGTCAACACGATGTCAGGGTACGCGCCAA
Found at i:10344467 original size:2 final size:2
Alignment explanation
Indices: 10344460--10344501 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10344450 ACCTCGCTCC
10344460 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10344502 TGCATTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10347608 original size:3 final size:3
Alignment explanation
Indices: 10347602--10347649 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
10347592 TTTTTGAAAT
10347602 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
10347650 TTGACGATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10358997 original size:17 final size:16
Alignment explanation
Indices: 10358956--10358998 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
10358946 TTATACATTA
10358956 TTTAAAATATATTATT
1 TTTAAAATATATTATT
* *
10358972 TGTAAAAATGTATTATT
1 T-TTAAAATATATTATT
10358989 TTTATAAATA
1 TTTA-AAATA
10358999 AATTTAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTAAAATATATTATT
Found at i:10362165 original size:22 final size:21
Alignment explanation
Indices: 10362134--10362175 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
10362124 TTCCTGCAAA
*
10362134 AATAAAATAGTAAAAATAAAT
1 AATAAAATAGGAAAAATAAAT
*
10362155 AATAATAATAGGAAAATTAAA
1 AATAA-AATAGGAAAAATAAA
10362176 ATGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AATAAAATAGGAAAAATAAAT
Found at i:10387726 original size:21 final size:18
Alignment explanation
Indices: 10387677--10387719 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
10387667 GTGTATGGTG
10387677 TTCTTCAAATTATTGGGC
1 TTCTTCAAATTATTGGGC
10387695 TTCTTCAAATTATTGGGC
1 TTCTTCAAATTATTGGGC
10387713 TTCTTCA
1 TTCTTCA
10387720 TAGAATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.47
Consensus pattern (18 bp):
TTCTTCAAATTATTGGGC
Found at i:10411523 original size:20 final size:21
Alignment explanation
Indices: 10411485--10411524 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10411475 AAATGCATTC
10411485 ATGTTTAAATTGTTGTGATTT
1 ATGTTTAAATTGTTGTGATTT
*
10411506 ATGTTTGAATTG-TGTGATT
1 ATGTTTAAATTGTTGTGATT
10411525 AATGAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (21 bp):
ATGTTTAAATTGTTGTGATTT
Found at i:10411930 original size:21 final size:22
Alignment explanation
Indices: 10411904--10411953 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
10411894 TATGATTAGT
10411904 ATAAGTTAACTAT-CTATGTATG
1 ATAAGTTAACTATGCTAT-TATG
*
10411926 -TAAG-TAATTATGCTATTATG
1 ATAAGTTAACTATGCTATTATG
10411946 ATAAGTTA
1 ATAAGTTA
10411954 TAAGATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 10 0.42
21 12 0.50
22 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (22 bp):
ATAAGTTAACTATGCTATTATG
Found at i:10416795 original size:24 final size:26
Alignment explanation
Indices: 10416751--10416800 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
10416741 ATAATAGATC
10416751 CAAATATTGAAAATGCATGAA-AATAA
1 CAAATATT-AAAATGCATGAACAATAA
*
10416777 CAAATATT-AAATGCTTGAACAATA
1 CAAATATTAAAATGCATGAACAATA
10416801 TTGCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (26 bp):
CAAATATTAAAATGCATGAACAATAA
Found at i:10416846 original size:16 final size:16
Alignment explanation
Indices: 10416819--10416859 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
10416809 ATAATGGTTA
10416819 AAATAAATAAGA-GAAT
1 AAATAAA-AAGATGAAT
10416835 CAAATAAAAAGATGAAT
1 -AAATAAAAAGATGAAT
10416852 AAATAAAA
1 AAATAAAA
10416860 CCTATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (16 bp):
AAATAAAAAGATGAAT
Found at i:10431263 original size:13 final size:13
Alignment explanation
Indices: 10431224--10431264 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
10431214 AAGTGTTGTG
10431224 GAGAAGTGCTTTT
1 GAGAAGTGCTTTT
*
10431237 CAGAAGTGCTTTT
1 GAGAAGTGCTTTT
10431250 GAGAAGTGCTTTT
1 GAGAAGTGCTTTT
10431263 GA
1 GA
10431265 AAATTTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (13 bp):
GAGAAGTGCTTTT
Found at i:10432669 original size:21 final size:22
Alignment explanation
Indices: 10432643--10432687 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10432633 TTCAACTTAA
*
10432643 AATT-AATTTAAAAT-TATAATT
1 AATTAAATTGAAAATATA-AATT
10432664 AATTAAATTGAAAATATAAATT
1 AATTAAATTGAAAATATAAATT
10432686 AA
1 AA
10432688 GTGATATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 15 0.71
23 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTAAATTGAAAATATAAATT
Found at i:10436034 original size:21 final size:21
Alignment explanation
Indices: 10436008--10436051 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10435998 CATTGCTTCT
* *
10436008 AAAAAACATTTTTGGGACAAA
1 AAAAAACACTTTTGAGACAAA
*
10436029 AAAAAACACTTTTGAGATAAA
1 AAAAAACACTTTTGAGACAAA
10436050 AA
1 AA
10436052 CATTGCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAAAACACTTTTGAGACAAA
Found at i:10447472 original size:20 final size:20
Alignment explanation
Indices: 10447447--10447496 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10447437 TGGCTTAAAA
10447447 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10447467 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10447484 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10447497 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10452110 original size:20 final size:20
Alignment explanation
Indices: 10452085--10452134 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10452075 TGGCTTAAAA
10452085 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10452105 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10452122 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10452135 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10468709 original size:13 final size:13
Alignment explanation
Indices: 10468691--10468715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10468681 AGTTCTTTAT
10468691 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
10468704 TGCTTTTGAGAA
1 TGCTTTTGAGAA
10468716 ATTTGAGTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:10470842 original size:71 final size:71
Alignment explanation
Indices: 10470753--10470927 Score: 244
Period size: 72 Copynumber: 2.5 Consensus size: 71
10470743 AAAATCATAT
* * * *
10470753 ATAAACAACTACTGATAAAACTAATTTAGTATAAATAAGTAGAATATAAATTCAATATCCAAAGA
1 ATAAACAACTATTGATAAAACTAATTTAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAA
10470818 CCAAAC
66 CCAAAC
* * *
10470824 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATGTCCAAA
1 ATAAACAACTATTGATAAAACTA-ATTTA-GCATAAATAAGTAGAACATAAATTCAATATCCAAA
10470888 AACCAAAC
64 AACCAAAC
* *
10470896 ATAAATAACTATTGATAAAACTAGTTTAGCAT
1 ATAAACAACTATTGATAAAACTAATTTAGCAT
10470928 TGTTGTTTAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 27 0.30
72 63 0.70
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAA
CCAAAC
Found at i:10473010 original size:62 final size:62
Alignment explanation
Indices: 10472934--10473053 Score: 188
Period size: 62 Copynumber: 1.9 Consensus size: 62
10472924 TCTTTTTTTT
*
10472934 AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAACAA-AAAAACAAACAAAAACAA
1 AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAA-AACAAAAAAAAACAAAAACAA
* * *
10472996 AAACATCAAATTGAACTATTATTTCGAAAACATGCGGCAAAAACAAAAAAAAACAAAA
1 AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAAAACAAAAAAAAACAAAA
10473054 CCATGGCCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 2 0.04
62 51 0.96
ACGTcount: A:0.61, C:0.15, G:0.07, T:0.17
Consensus pattern (62 bp):
AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAAAACAAAAAAAAACAAAAACAA
Found at i:10474609 original size:110 final size:116
Alignment explanation
Indices: 10474426--10474641 Score: 286
Period size: 110 Copynumber: 1.9 Consensus size: 116
10474416 TCAAAACCTT
*
10474426 AAATTTATTTCCAATTTTGCATAAAAAAGTTCATATATTTTTTTCAAGGACAAAACACATGAAAC
1 AAATTTATTCCCAATTTTGCATAAAAAAGTTCA-ATATTTTTTTCAAGGACAAAACACATGAAAC
10474491 ACGAAATATAGCTAAA-TAAAACG-ACCCCAGAAGCTTACATTTCAATGCCTCC
65 ACGAAATATAGCTAAATTAAAA-GAACCCC-GAAGCTTACATTTCAATGCCTCC
** * *
10474543 AAATTTA-TCCCAATTTTGCATCGAAAA-TTC-A-ATTTTTTT-AAGGATAAAACA-ATGAAATA
1 AAATTTATTCCCAATTTTGCATAAAAAAGTTCAATATTTTTTTCAAGGACAAAACACATGAAACA
* *
10474602 TGAAATATAGCTAAATTAAAAGAACCCCGAAGTTTACATT
66 CGAAATATAGCTAAATTAAAAGAACCCCGAAGCTTACATT
10474642 ACAGCACAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
110 33 0.37
111 21 0.23
112 8 0.09
113 1 0.01
115 3 0.03
116 17 0.19
117 7 0.08
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (116 bp):
AAATTTATTCCCAATTTTGCATAAAAAAGTTCAATATTTTTTTCAAGGACAAAACACATGAAACA
CGAAATATAGCTAAATTAAAAGAACCCCGAAGCTTACATTTCAATGCCTCC
Found at i:10478062 original size:22 final size:22
Alignment explanation
Indices: 10478029--10478084 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
10478019 TTTTCACAAA
10478029 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTCAATTTCCTTC
*
10478052 TAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
10478074 CAAAATTCTCT
1 CAAAATTCTCT
10478085 TAAACTCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (22 bp):
CAAAATTCTCTCAATTTCCTTC
Found at i:10478196 original size:28 final size:29
Alignment explanation
Indices: 10478141--10478198 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
10478131 ATTCAATTTC
*
10478141 ATTTTTTTACGAAAATTTTAAATATTTTT
1 ATTTTTTTACAAAAATTTTAAATATTTTT
10478170 ATTTTTTTA-AAATAATTTTAAA-ATTTTT
1 ATTTTTTTACAAA-AATTTTAAATATTTTT
10478198 A
1 A
10478199 ATATTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
ATTTTTTTACAAAAATTTTAAATATTTTT
Found at i:10478325 original size:14 final size:15
Alignment explanation
Indices: 10478296--10478329 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10478286 AAATTTTAAA
10478296 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
10478311 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
10478325 TTTTA
1 TTTTA
10478330 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:10479299 original size:7 final size:7
Alignment explanation
Indices: 10479287--10479318 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
10479277 AGTGGATTGA
10479287 TATTTAG
1 TATTTAG
10479294 TATTTAG
1 TATTTAG
10479301 TATTTAG
1 TATTTAG
10479308 TATTTAG
1 TATTTAG
10479315 TATT
1 TATT
10479319 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:10480205 original size:24 final size:24
Alignment explanation
Indices: 10480178--10480224 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10480168 TTCAAACTTC
* *
10480178 GTCGTCGTTTATGATGCAAACACT
1 GTCGCCGTTCATGATGCAAACACT
*
10480202 GTCGCCGTTCGTGATGCAAACAC
1 GTCGCCGTTCATGATGCAAACAC
10480225 CACCACATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (24 bp):
GTCGCCGTTCATGATGCAAACACT
Found at i:10480333 original size:21 final size:21
Alignment explanation
Indices: 10480286--10480335 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
10480276 CAGATGCCGA
*
10480286 ACCGGAAGAACAACAATCACC
1 ACCGGAAGAACAACAACCACC
* * * *
10480307 ATCGGAGGAAGAACAACCGCC
1 ACCGGAAGAACAACAACCACC
10480328 ACCGGAAG
1 ACCGGAAG
10480336 CTAGAGGAAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.30, G:0.24, T:0.04
Consensus pattern (21 bp):
ACCGGAAGAACAACAACCACC
Found at i:10480697 original size:29 final size:29
Alignment explanation
Indices: 10480505--10480691 Score: 286
Period size: 29 Copynumber: 6.5 Consensus size: 29
10480495 TTTTGATATT
*
10480505 ATTTGATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
10480533 ATTTAATTAAAAACCCAAACCTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
10480562 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
10480591 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
10480620 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
10480649 ATTTAATTAAAAACACTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
10480678 ATTTAATTAAAAAC
1 ATTTAATTAAAAAC
10480692 TGTAACACCC
Statistics
Matches: 142, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 17 0.12
29 125 0.88
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:10481888 original size:23 final size:23
Alignment explanation
Indices: 10481862--10481959 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
10481852 ATAAGTGCCA
10481862 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10481885 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
10481908 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10481930 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10481953 CACTGAT
1 CACTGAT
10481960 TAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:10481927 original size:45 final size:45
Alignment explanation
Indices: 10481869--10481957 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
10481859 CCACACTGAT
* *
10481869 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
10481914 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
10481958 ATTAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:10482843 original size:29 final size:29
Alignment explanation
Indices: 10482810--10483077 Score: 351
Period size: 29 Copynumber: 9.3 Consensus size: 29
10482800 GGGCTATCAC
* *
10482810 AAAAACCCTAACCCTAACCCATTTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
***
10482839 AAAAACCCTAACCCTAGTTTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
**
10482868 AAAAACCCTAACCCTAATTTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
**
10482897 -AAAACCCTAACCCTAATTTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
* * *
10482925 AAAAATCCTAACCCTAACCCATTTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
***
10482954 AAAAACCCTAACCCTAGTTTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
10482983 -AAAACCCTAAACCCTAACCTAATTTAATT
1 AAAAACCCT-AACCCTAACCTAATTTAATT
* *
10483012 AAAAACCCTAACCCTAACCCATTTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
*
10483041 AAAAACCCTAACCCTAAACTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATT
10483070 AAAAACCC
1 AAAAACCC
10483078 ATTTTAATTA
Statistics
Matches: 211, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
28 36 0.17
29 167 0.79
30 8 0.04
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (29 bp):
AAAAACCCTAACCCTAACCTAATTTAATT
Found at i:10482880 original size:58 final size:58
Alignment explanation
Indices: 10482810--10483077 Score: 387
Period size: 58 Copynumber: 4.6 Consensus size: 58
10482800 GGGCTATCAC
* * *
10482810 AAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATTTAATTTAATT
**
10482868 AAAAACCCTAACCCTAATTTAATTTAATT-AAAACCCTAACCCTAATTTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATTTAATTTAATT
* * * *
10482925 AAAAATCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATT
1 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATTTAATTTAATT
*** *
10482983 -AAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATT
1 AAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATTTAATTTAATT
*
10483041 AAAAACCCTAACCCTAAACTAATTTAATTAAAAACCC
1 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
10483078 ATTTTAATTA
Statistics
Matches: 187, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
57 58 0.31
58 121 0.65
59 8 0.04
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (58 bp):
AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATTTAATTTAATT
Found at i:10483006 original size:115 final size:116
Alignment explanation
Indices: 10482810--10483077 Score: 423
Period size: 115 Copynumber: 2.3 Consensus size: 116
10482800 GGGCTATCAC
10482810 AAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATTAAAAACC
1 AAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATTAAAAACC
** ***
10482875 CTAACCCTAATTTAATTTAATT-AAAACCCTAACCCTAATTTAATTTAATT
66 CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCAATTTAATT
*
10482925 AAAAATCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATT-AAAACC
1 AAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATTAAAAACC
*
10482989 CTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCATTTTAATT
66 CT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCAATTTAATT
* * *
10483041 AAAAACCCTAACCCTAAACTAATTTAATTAAAAACCC
1 AAAAACCCTAACCCTAACCCATTTTAATTAAAAACCC
10483078 ATTTTAATTA
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
114 8 0.06
115 75 0.54
116 57 0.41
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (116 bp):
AAAAACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATTAAAAACC
CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCAATTTAATT
Found at i:10496488 original size:21 final size:20
Alignment explanation
Indices: 10496464--10496502 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10496454 TGTTTTTAAC
10496464 TAAAACAAAATTTATTTTTAT
1 TAAAACAAAA-TTATTTTTAT
* *
10496485 TAAAGCACAATTATTTTT
1 TAAAACAAAATTATTTTT
10496503 TAAAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAAACAAAATTATTTTTAT
Found at i:10498211 original size:13 final size:13
Alignment explanation
Indices: 10498193--10498222 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10498183 AACTCCACCC
10498193 TTTCTCTCGTCCT
1 TTTCTCTCGTCCT
10498206 TTTCTCTCGTCCT
1 TTTCTCTCGTCCT
10498219 TTTC
1 TTTC
10498223 ATTTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.37, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTCTCTCGTCCT
Found at i:10498533 original size:24 final size:24
Alignment explanation
Indices: 10498500--10498570 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
10498490 TCCTTTTCCA
*
10498500 GCACCCGAGCCTTCCAGTCCCTTT
1 GCACCAGAGCCTTCCAGTCCCTTT
* ** *
10498524 GCACCTGAGCCTGCTTCTGGTCCTTTT
1 GCACCAGAG-C--CTTCCAGTCCCTTT
10498551 GCACCAGAGCCTTCCAGTCC
1 GCACCAGAGCCTTCCAGTCC
10498571 ATCCGCACCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
24 16 0.43
25 1 0.03
26 1 0.03
27 19 0.51
ACGTcount: A:0.13, C:0.41, G:0.20, T:0.27
Consensus pattern (24 bp):
GCACCAGAGCCTTCCAGTCCCTTT
Found at i:10510769 original size:206 final size:205
Alignment explanation
Indices: 10510413--10510815 Score: 716
Period size: 206 Copynumber: 2.0 Consensus size: 205
10510403 TAACCCTATT
*
10510413 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATGACGTT
1 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATAACGTT
10510478 ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
66 ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
* * * *
10510543 TTAGCCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTATCCGAAA
131 TTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAAA
10510608 ACAGACTCAA
196 ACAGACTCAA
* * * *
10510618 AACGAGACACATACTCAAAATGGATACGTGGATCCGTCACCCGGGTTTTTCGGCAACGATAACGT
1 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGG-TTTTCAGCAACGATAACGT
10510683 TATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCT
65 TATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCT
10510748 GTTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAA
130 GTTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAA
10510813 AAC
195 AAC
10510816 TATGGTTTTC
Statistics
Matches: 188, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
205 42 0.22
206 146 0.78
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (205 bp):
AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATAACGTT
ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
TTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAAA
ACAGACTCAA
Found at i:10520837 original size:31 final size:31
Alignment explanation
Indices: 10520772--10520833 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
10520762 AATATTAAAA
*
10520772 TATTAAAATAAAATATTATATTTTTTAATAT
1 TATTAAAATAAAATATTATATTATTTAATAT
10520803 TATTAAACAT-AAATATT-TAATTATTT-ATAT
1 TATTAAA-ATAAAATATTAT-ATTATTTAATAT
10520833 T
1 T
10520834 TATTCATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 6 0.21
31 20 0.71
32 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TATTAAAATAAAATATTATATTATTTAATAT
Found at i:10520987 original size:15 final size:15
Alignment explanation
Indices: 10520967--10521037 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 15
10520957 ACTCGATATT
10520967 AATATTTTAATAATA
1 AATATTTTAATAATA
*
10520982 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
10521001 AATATATTAATAATA
1 AATATTTTAATAATA
10521016 AATATTTT-ATAGTATA
1 AATATTTTAATA--ATA
10521032 AATATT
1 AATATT
10521038 AAAATATGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.07
15 18 0.39
16 10 0.22
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:10521005 original size:34 final size:31
Alignment explanation
Indices: 10520967--10521037 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 31
10520957 ACTCGATATT
*
10520967 AATATTTTAATAATAAATATTTATTATAATTATA
1 AATATTTTAATAATAAATA-TT-TTAT-AGTATA
*
10521001 AATATATTAATAATAAATATTTTATAGTATA
1 AATATTTTAATAATAAATATTTTATAGTATA
10521032 AATATT
1 AATATT
10521038 AAAATATGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 10 0.29
32 4 0.12
33 2 0.06
34 18 0.53
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATTTTAATAATAAATATTTTATAGTATA
Found at i:10521562 original size:26 final size:26
Alignment explanation
Indices: 10521527--10521584 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
10521517 GCTCCATTTG
*
10521527 ATTTTTGAAAGTAATTTCT-ATTTTC-
1 ATTTTTGAAAATAATTT-TAATTTTCT
10521552 ATTTTTAGAAAATAATTTTAATTTTCT
1 ATTTTT-GAAAATAATTTTAATTTTCT
10521579 ATTTTT
1 ATTTTT
10521585 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 7 0.24
26 16 0.55
27 6 0.21
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
ATTTTTGAAAATAATTTTAATTTTCT
Found at i:10527732 original size:17 final size:17
Alignment explanation
Indices: 10527710--10527748 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
10527700 TATAATTAAT
10527710 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
10527727 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
10527744 CTTAA
1 TTTAA
10527749 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:10527835 original size:17 final size:17
Alignment explanation
Indices: 10527786--10527852 Score: 80
Period size: 17 Copynumber: 3.8 Consensus size: 17
10527776 AAAGATTTTC
*
10527786 TAAATATATTTAAAATTT
1 TAAATATA-TTAAAAGTT
* **
10527804 TAAAAAGCTTAAAAAGTT
1 TAAATATATT-AAAAGTT
10527822 TAAATATATTAAAAGTT
1 TAAATATATTAAAAGTT
10527839 TAAATATATTAAAA
1 TAAATATATTAAAA
10527853 AATGTTAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 23 0.56
18 18 0.44
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (17 bp):
TAAATATATTAAAAGTT
Found at i:10527865 original size:19 final size:18
Alignment explanation
Indices: 10527786--10527853 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
10527776 AAAGATTTTC
* *
10527786 TAAATATATTTAAAATTT
1 TAAATATATTAAAAAGTT
* **
10527804 TAAAAAGCTTAAAAAGTT
1 TAAATATATTAAAAAGTT
10527822 TAAATATATT-AAAAGTT
1 TAAATATATTAAAAAGTT
10527839 TAAATATATTAAAAA
1 TAAATATATTAAAAA
10527854 ATGTTAAGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 17 0.41
18 24 0.59
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (18 bp):
TAAATATATTAAAAAGTT
Found at i:10527949 original size:178 final size:181
Alignment explanation
Indices: 10527745--10528078 Score: 462
Period size: 178 Copynumber: 1.9 Consensus size: 181
10527735 TTTAATATAC
10527745 TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTA-AAA
1 TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTAGAAA
** * * * *
10527809 AGCTT-AAAAAGTTTAAATATATTAAAAGTTTAAATATATT-AA-AAAATGTTAAGTATAACCAA
66 A-CTTAAAAAAACTTAAAAAAATTAAAAGTTTAAATATATTAAAGAAAAGGATAAGTATAACCAA
**
10527871 TTTTAAAATTTTAAAATTTTTAATATATATTTTTAAAAATATATTTTAAAATT
130 -TTTAAAATTTTAAAATACTTAATATATATTTTTAAAAATATATTTTAAAATT
** * * * *
10527924 TTAATATAT-TTTTTAATAGGTAAAGAGGAAAAATATTTTTTTAGTATATTTAAAATTTTAGAAA
1 TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTAGAAA
* *
10527988 ACTTAAAAAAACTTAAAAAAATTAAAATTTTAAATATGTTAAAGAAAAGGATAAGTATAACCAAT
66 ACTTAAAAAAACTTAAAAAAATTAAAAGTTTAAATATATTAAAGAAAAGGATAAGTATAACCAAT
*
10528053 TTAAAATTTTAATATACTTAATATAT
131 TTAAAATTTTAAAATACTTAATATAT
10528079 TTAAATATAT
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
178 48 0.36
179 42 0.31
180 26 0.19
181 18 0.13
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (181 bp):
TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTAGAAA
ACTTAAAAAAACTTAAAAAAATTAAAAGTTTAAATATATTAAAGAAAAGGATAAGTATAACCAAT
TTAAAATTTTAAAATACTTAATATATATTTTTAAAAATATATTTTAAAATT
Found at i:10527998 original size:10 final size:10
Alignment explanation
Indices: 10527985--10528014 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10527975 AAAATTTTAG
10527985 AAAACTTAAA
1 AAAACTTAAA
10527995 AAAACTTAAA
1 AAAACTTAAA
10528005 AAAA-TTAAA
1 AAAACTTAAA
10528014 A
1 A
10528015 TTTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAACTTAAA
Found at i:10528091 original size:18 final size:19
Alignment explanation
Indices: 10528053--10528097 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10528043 TATAACCAAT
10528053 TTAAAAT-TTT-AATATAC
1 TTAAAATATTTAAATATAC
*
10528070 TTAATATATTTAAATATA-
1 TTAAAATATTTAAATATAC
10528088 TTAAAATATT
1 TTAAAATATT
10528098 GAACATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATATTTAAATATAC
Found at i:10529960 original size:20 final size:20
Alignment explanation
Indices: 10529912--10529952 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
10529902 AAAGAAAAAA
10529912 TAGGACAAGGCTCCAAGGCG
1 TAGGACAAGGCTCCAAGGCG
10529932 TAGGACAAGGCTCCAAGGCG
1 TAGGACAAGGCTCCAAGGCG
10529952 T
1 T
10529953 GTATCAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.34, T:0.12
Consensus pattern (20 bp):
TAGGACAAGGCTCCAAGGCG
Found at i:10530062 original size:59 final size:60
Alignment explanation
Indices: 10529968--10530088 Score: 226
Period size: 59 Copynumber: 2.0 Consensus size: 60
10529958 AAGCCACTAT
10529968 CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
1 CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
*
10530028 CTTTAATGTTATATTCCC-CACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
1 CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
10530087 CT
1 CT
10530089 CGAGGATACA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 43 0.72
60 17 0.28
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (60 bp):
CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
Done.