Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 43 of 205
Found at i:12836921 original size:8 final size:9
Alignment explanation
Indices: 12836879--12836918 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
12836869 AATGTTAAAA
*
12836879 AAAAAAAAG
1 AAAAGAAAG
12836888 -AAAGAAAG
1 AAAAGAAAG
12836896 -AAAGAAAG
1 AAAAGAAAG
12836904 -AAAGAAAG
1 AAAAGAAAG
12836912 AAAAGAA
1 AAAAGAA
12836919 GAAGCTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:12837582 original size:29 final size:31
Alignment explanation
Indices: 12837518--12837583 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
12837508 GCTAAAATTA
*
12837518 AATTTTAAATTTTAATAGTTAATATTTTTAT
1 AATTTTAAATATTAATAGTTAATATTTTTAT
12837549 AATTTTAAAGTATTAA-A-TTAA-ATTTTTAT
1 AATTTTAAA-TATTAATAGTTAATATTTTTAT
*
12837578 TATTTT
1 AATTTT
12837584 TAAGAGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 13 0.41
30 4 0.12
31 10 0.31
32 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
AATTTTAAATATTAATAGTTAATATTTTTAT
Found at i:12837923 original size:18 final size:18
Alignment explanation
Indices: 12837893--12837928 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12837883 AATGTACAGG
12837893 TGACAGTTGTGAATATAA
1 TGACAGTTGTGAATATAA
12837911 TGACAAGTT-TGAATATAA
1 TGAC-AGTTGTGAATATAA
12837929 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (18 bp):
TGACAGTTGTGAATATAA
Found at i:12838005 original size:27 final size:25
Alignment explanation
Indices: 12837974--12838029 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
12837964 TTAAAATTAC
* *
12837974 ATATGAATTTTGATTTAATGTGCAATT
1 ATATGAACTTTAATTT-A-GTGCAATT
*
12838001 ATATGAACTTTAATTTAGTGTAATT
1 ATATGAACTTTAATTTAGTGCAATT
12838026 ATAT
1 ATAT
12838030 ACATGAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.42
26 1 0.04
27 14 0.54
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
ATATGAACTTTAATTTAGTGCAATT
Found at i:12838045 original size:30 final size:30
Alignment explanation
Indices: 12838006--12838077 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
12837996 CAATTATATG
*
12838006 AACTTTAATTTAGTGT-AATTATATACATGA
1 AACTTTAATTTAGT-TCAAATATATACATGA
* * *
12838036 AACTCTAATTGTGGTTCAAATATATACTTGA
1 AACTTTAATT-TAGTTCAAATATATACATGA
12838067 AACTTTAATTT
1 AACTTTAATTT
12838078 TAATTTAGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (30 bp):
AACTTTAATTTAGTTCAAATATATACATGA
Found at i:12838438 original size:19 final size:20
Alignment explanation
Indices: 12838389--12838428 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12838379 ATTTATATAA
12838389 ATTCACTAAAAATTAAAATT
1 ATTCACTAAAAATTAAAATT
12838409 ATTCACTAAAAATTAAAATT
1 ATTCACTAAAAATTAAAATT
12838429 TTCTTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTCACTAAAAATTAAAATT
Found at i:12858550 original size:19 final size:19
Alignment explanation
Indices: 12858474--12858549 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
12858464 AAATTTATAT
* *
12858474 TTTTAAAAAATTCTCAAAC
1 TTTTAAAAAATTCTAAAAA
12858493 TTTTAAAAAAATTCTAAAAA
1 TTTT-AAAAAATTCTAAAAA
* * *
12858513 ATATATAAAAAGT-T-AAAA
1 TTTTA-AAAAATTCTAAAAA
12858531 TTTTAAAAATATTCTAAAA
1 TTTTAAAAA-ATTCTAAAA
12858550 TAATAACTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 7 0.16
20 24 0.55
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.36
Consensus pattern (19 bp):
TTTTAAAAAATTCTAAAAA
Found at i:12879499 original size:15 final size:16
Alignment explanation
Indices: 12879475--12879507 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12879465 ATTCAAACAA
*
12879475 AACATTTTAATA-GCC
1 AACATGTTAATATGCC
12879490 AACATGTTAATATGCC
1 AACATGTTAATATGCC
12879506 AA
1 AA
12879508 TTCCTTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (16 bp):
AACATGTTAATATGCC
Found at i:12881246 original size:7 final size:7
Alignment explanation
Indices: 12881234--12881278 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
12881224 TTGTTTTCAT
12881234 TTATAAA
1 TTATAAA
12881241 TTATAAA
1 TTATAAA
*
12881248 TTATACA
1 TTATAAA
12881255 TTATAAA
1 TTATAAA
*
12881262 TAATTAAA
1 TTA-TAAA
12881270 TTATAAA
1 TTATAAA
12881277 TT
1 TT
12881279 TTATAACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (7 bp):
TTATAAA
Found at i:12881292 original size:16 final size:16
Alignment explanation
Indices: 12881271--12881304 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12881261 ATAATTAAAT
12881271 TATAAATTTTATAACA
1 TATAAATTTTATAACA
*
12881287 TATAAATTTTATACCA
1 TATAAATTTTATAACA
12881303 TA
1 TA
12881305 GTTTCCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAAATTTTATAACA
Found at i:12883566 original size:25 final size:25
Alignment explanation
Indices: 12883538--12883596 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
12883528 CTTGATTGAA
*
12883538 CTTCCCGTTATATAGCTC-ACATGAG
1 CTTCCCGTTATATAGCTCGA-AAGAG
*
12883563 CTTCCCGTTATATGGCTCGAAAGAG
1 CTTCCCGTTATATAGCTCGAAAGAG
12883588 CTTCCCGTT
1 CTTCCCGTT
12883597 TACATGTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (25 bp):
CTTCCCGTTATATAGCTCGAAAGAG
Found at i:12897530 original size:24 final size:24
Alignment explanation
Indices: 12897498--12897555 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
12897488 TGTTTCCTGA
12897498 TTAAATGCTCCTCGGAGCTACCCG
1 TTAAATGCTCCTCGGAGCTACCCG
* ** *
12897522 TTAAGTGCTTTTCGGAGCTACTCG
1 TTAAATGCTCCTCGGAGCTACCCG
*
12897546 TTATATGCTC
1 TTAAATGCTC
12897556 GCATGAGCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
TTAAATGCTCCTCGGAGCTACCCG
Found at i:12901581 original size:19 final size:20
Alignment explanation
Indices: 12901557--12901597 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
12901547 AACTGTTCAA
12901557 TTGGTCTA-GTATCGATACT
1 TTGGTCTATGTATCGATACT
*
12901576 TTGGTCTATTTTATCGATACT
1 TTGGTCTA-TGTATCGATACT
12901597 T
1 T
12901598 ATATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (20 bp):
TTGGTCTATGTATCGATACT
Found at i:12902721 original size:13 final size:13
Alignment explanation
Indices: 12902703--12902727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12902693 TCTACTATTT
12902703 ATGCTAGCCAAAA
1 ATGCTAGCCAAAA
12902716 ATGCTAGCCAAA
1 ATGCTAGCCAAA
12902728 TCTTCCACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (13 bp):
ATGCTAGCCAAAA
Found at i:12905657 original size:112 final size:112
Alignment explanation
Indices: 12905504--12905780 Score: 335
Period size: 112 Copynumber: 2.5 Consensus size: 112
12905494 AAATCTCAAG
* * *
12905504 ACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGATTATGATAAA-ATGCCG
1 ACCAAAATGCATCGTTTT-GTCTTGATGTATATTAGAATTAGTGGCGCTTATGA-AAACATGCCG
* *
12905568 CTGAAGCAAGTATTAGCGGCGCATTATCG-AAAGCGCCGCAA-AAATCTTA
64 CTAAAGCAAGTATTAGCCGCGC-TTAT-GAAAAGCGCCGCAAGAAATCTTA
* * * *
12905617 ACGAAAATGCATCGTTTTGTCTTGCTGTATATTAGAATTAGTGGCGCTTACGAAAACCTGCCGCT
1 ACCAAAATGCATCGTTTTGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAACATGCCGCT
* * *
12905682 AAAGCAAGTATTAGCCGCGCTTATGAAAAGCGCCGTAAGATATGTTA
66 AAAGCAAGTATTAGCCGCGCTTATGAAAAGCGCCGCAAGAAATCTTA
** * * * *
12905729 ACCAAAATGCAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATG
1 ACCAAAATGCATCGTTTTGTCTTGATGTATATTAGAATTAGTGGCGCTTATG
12905781 GGAAAACGCC
Statistics
Matches: 140, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
110 1 0.01
111 18 0.13
112 105 0.75
113 16 0.11
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (112 bp):
ACCAAAATGCATCGTTTTGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAACATGCCGCT
AAAGCAAGTATTAGCCGCGCTTATGAAAAGCGCCGCAAGAAATCTTA
Found at i:12905935 original size:190 final size:186
Alignment explanation
Indices: 12905579--12905965 Score: 447
Period size: 190 Copynumber: 2.1 Consensus size: 186
12905569 TGAAGCAAGT
* * * * * * * *
12905579 ATTAGCGGCGCATTAT-CGAAAGCGCCGCAAAAATCTTAACGAAAATGCATCGTTTTGTCTTGCT
1 ATTAGTGGCGC-TTATGGGAAAACGCCGCAAAAATCCTAACCAAAACGCACCGTTTTGTCTTGAT
* *
12905643 GTATATTAGAATTAGTGGCGCTTACGAAAACCTGCCGCTAAAGCAAGTATTAGCCGCGCTTATGA
65 GTATATTACAATTAATGGCGCTTACGAAAACCTGCCGCTAAAGCAAGTATTAGCCGCGCTTATGA
* * * * *
12905708 AAAGCGCCGTAAGATATGTTAACCAAAATGCAGAGTTTGGTCTAGAGGTATATTAGA
130 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTAGAGGTATACTAGA
* *
12905765 ATTTGTGGCGCTTATGGGAAAACGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTGA
1 ATTAGTGGCGCTTATGGGAAAACGCCGCAAAA-ATCCTAACCAAAACGCACCGTTTT-GTCTTGA
* * * * * *
12905830 TGTATGTTACAGTTAATGGCGCTTACGGGAAAA-C-GCCGCTAAATCATATTATTAGCGGCGTTT
64 TGTATATTACAATTAATGGCGCTTAC--GAAAACCTGCCGCTAAAGCA-AGTATTAGCCGCG-CT
* * * *
12905893 TGTGAGAAGCGCCGCAAAATATCTTAACCAAAACGTAGAGTTTGGTCTTGAGGTATACTAGA
125 TATGAAAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTAGAGGTATACTAGA
12905955 ATTAGTGGCGC
1 ATTAGTGGCGC
12905966 AAAGGGAACA
Statistics
Matches: 166, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
185 4 0.02
186 23 0.14
187 19 0.11
188 39 0.23
189 12 0.07
190 69 0.42
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (186 bp):
ATTAGTGGCGCTTATGGGAAAACGCCGCAAAAATCCTAACCAAAACGCACCGTTTTGTCTTGATG
TATATTACAATTAATGGCGCTTACGAAAACCTGCCGCTAAAGCAAGTATTAGCCGCGCTTATGAA
AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTAGAGGTATACTAGA
Found at i:12906006 original size:115 final size:114
Alignment explanation
Indices: 12905787--12906399 Score: 578
Period size: 115 Copynumber: 5.4 Consensus size: 114
12905777 TATGGGAAAA
* * ** * ** * * *
12905787 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTGATGTATGTTACAGTTAATGGCGC
1 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
* * * * *
12905852 TTACGGGAAAACGCCGCTAAATCATATTATTAGCGGCG-TTTTGTGAGAAG
65 -AACGGGAACACGCCGCTAAAGCATACTATTAGCGGCGCGTTTGTGAGAAG
*
12905902 CGCCGCAAAATATCTTAACCAAAACGTAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA
* *
12905967 AAGGGAACACGCCG-TCAAGGCATACTATTAGCGGCGCGTTTG-GAGAAG
66 ACGGGAACACGCCGCT-AAAGCATACTATTAGCGGCGCGTTTGTGAGAAG
* * * * * * * *
12906015 CGCCGCAAAATTTCTTAACCAAAACGTAGCGTTTTTGTCTTTATGTATACTATAATTAGTGGCGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
* * * * * * ** *
12906080 ATACTGGAAAATGCCGCTAAATCATAGTATTAGTGGCGC-TTTGCAAAAAG
65 A-ACGGGAACACGCCGCTAAAGCATACTATTAGCGGCGCGTTTGTGAGAAG
* * *
12906130 CGCCGCAAAATATGC-TCACCAAAACGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGTGGCGC
1 CGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
* * * *
12906194 TTATGGGAACATGCCGCTAAAGCATACTATTAGCGGCGCGCTT-TGAGAAG
65 -AACGGGAACACGCCGCTAAAGCATACTATTAGCGGCGCGTTTGTGAGAAG
* * * *
12906244 CGCCGCAAAATATATTAACCAAAATGCAGCA-TTTAAGTCTTGATGTATACTAGAATTAGTGGCG
1 CGCCGCAAAATATCTTAACCAAAACGCAG-AGTTT-GGTCTTGAGGTATACTAGAATTAGTGGCG
* * * *
12906308 TCCACGAGAA-ATCGCCGCTAAAGCATAGTATTAGCGGCGC-TTTTTGAGAAG
64 -CAACGGGAACA-CGCCGCTAAAGCATACTATTAGCGGCGCGTTTGTGAGAAG
* **
12906359 TGCCGCAAAATATCTTAACCAAAGTGCAGAGTTTTGGTCTT
1 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTT
12906400 AACCATGCAT
Statistics
Matches: 407, Mismatches: 74, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
112 1 0.00
113 64 0.16
114 157 0.39
115 179 0.44
116 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA
ACGGGAACACGCCGCTAAAGCATACTATTAGCGGCGCGTTTGTGAGAAG
Found at i:12906185 original size:228 final size:227
Alignment explanation
Indices: 12905787--12906399 Score: 741
Period size: 228 Copynumber: 2.7 Consensus size: 227
12905777 TATGGGAAAA
* * * * ** * *
12905787 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTGATGTATGTTACAGTTAATGGCGC
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTAGTCTTGATGTATACTACAATTAGTGGCG-
* * *
12905852 TTACGGGAAAACGCCGCTAAATCATATTATTAGCGGCGTTTTGTGAGAAGCGCCGCAAAATATCT
65 TTAC-GGAAAATGCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCT
*
12905917 TAACCAAAACGTAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGGGAACACGCCG
129 TAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGGGAACACGCCG
*
12905981 -TCAAGGCATACTATTAGCGGCGCG-TTTGGAGAAG
194 CT-AAAGCATACTATTAGCGGCGCGCTTT-GAGAAG
* * * * *
12906015 CGCCGCAAAATTTCTTAACCAAAACGTAGCGTTTTTGTCTTTATGTATACTATAATTAGTGGCGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTAGTCTTGATGTATACTACAATTAGTGGCGT
* ** *
12906080 ATACTGGAAAATGCCGCTAAATCATAGTATTAGTGGCGCTTTGCAAAAAGCGCCGCAAAATATGC
66 -TAC-GGAAAATGCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATAT-C
* * * * * *
12906145 -TCACCAAAACGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGTGGCGCTTATGGGAACATGCC
128 TTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGGGAACACGCC
12906209 GCTAAAGCATACTATTAGCGGCGCGCTTTGAGAAG
193 GCTAAAGCATACTATTAGCGGCGCGCTTTGAGAAG
* * * * *
12906244 CGCCGCAAAATATATTAACCAAAATGCAGCATTTAAGTCTTGATGTATACTAGAATTAGTGGCGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTAGTCTTGATGTATACTACAATTAGTGGCGT
* * * *
12906309 CCAC-GAGAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGTGCCGCAAAATATC
66 -TACGGA-AAAT-GCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATC
**
12906373 TTAACCAAAGTGCAGAGTTTTGGTCTT
128 TTAACCAAAACGCAGAG-TTTGGTCTT
12906400 AACCATGCAT
Statistics
Matches: 327, Mismatches: 49, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
227 3 0.01
228 156 0.48
229 155 0.47
230 13 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (227 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTAGTCTTGATGTATACTACAATTAGTGGCGT
TACGGAAAATGCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTTA
ACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGGGAACACGCCGCT
AAAGCATACTATTAGCGGCGCGCTTTGAGAAG
Found at i:12906305 original size:229 final size:227
Alignment explanation
Indices: 12905857--12906399 Score: 707
Period size: 229 Copynumber: 2.4 Consensus size: 227
12905847 GGCGCTTACG
* * *
12905857 GGAAAACGCCGCTAAATCATATTATTAGCGGCGTTTTGTGAGAAGCGCCGCAAAATATCTTAACC
1 GGAAAATGCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTTAACC
* *
12905922 AAAACGTAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGTCAAGG
66 AAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGTCAAAG
* * * * **
12905987 CATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATTTCTTAACCAAAACGTAGCGTTTTTG
131 CATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATATATTAACCAAAACGCAGCATTTAAG
* * *
12906052 TCTTTATGTATACTATAATTAGTGGCGTATAC
196 TCTTGATGTATACTAGAATTAGTGGCGTACAC
* ** * *
12906084 TGGAAAATGCCGCTAAATCATAGTATTAGTGGCGCTTTGCAAAAAGCGCCGCAAAATATGC-TCA
1 -GGAAAATGCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATAT-CTTAA
* * * * *
12906148 CCAAAACGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGTGGCGCTTATGGGAACATGCCG-CT
64 CCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGGGAACACGCCGTC-
*
12906212 AAAGCATACTATTAGCGGCGCGCTTT-GAGAAGCGCCGCAAAATATATTAACCAAAATGCAGCAT
127 AAAGCATACTATTAGCGGCGCG-TTTGGAGAAGCGCCGCAAAATATATTAACCAAAACGCAGCAT
*
12906276 TTAAGTCTTGATGTATACTAGAATTAGTGGCGTCCAC
191 TTAAGTCTTGATGTATACTAGAATTAGTGGCGTACAC
* * *
12906313 -GAGAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGTGCCGCAAAATATCTTAA
1 GGA-AAAT-GCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTTAA
**
12906377 CCAAAGTGCAGAGTTTTGGTCTT
64 CCAAAACGCAGAG-TTTGGTCTT
12906400 AACCATGCAT
Statistics
Matches: 271, Mismatches: 36, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
227 2 0.01
228 102 0.38
229 155 0.57
230 12 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (227 bp):
GGAAAATGCCGCTAAATCATAGTATTAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTTAACC
AAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGTCAAAG
CATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATATATTAACCAAAACGCAGCATTTAAG
TCTTGATGTATACTAGAATTAGTGGCGTACAC
Found at i:12906670 original size:7 final size:7
Alignment explanation
Indices: 12906660--12906744 Score: 64
Period size: 7 Copynumber: 12.0 Consensus size: 7
12906650 AGAGTTTTAA
12906660 GTTTAGG
1 GTTTAGG
*
12906667 GTTTATG
1 GTTTAGG
* *
12906674 ATGTA-G
1 GTTTAGG
*
12906680 GTTTTGG
1 GTTTAGG
*
12906687 TGTTTTGG
1 -GTTTAGG
12906695 GTTTAGG
1 GTTTAGG
12906702 GTTTAGG
1 GTTTAGG
12906709 AGTTTAGG
1 -GTTTAGG
*
12906717 GTTTAAG
1 GTTTAGG
* *
12906724 ATTTGGG
1 GTTTAGG
*
12906731 GTTTGGG
1 GTTTAGG
12906738 GTTTAGG
1 GTTTAGG
12906745 CCACTTTAGT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
6 3 0.05
7 45 0.73
8 14 0.23
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:12907806 original size:15 final size:16
Alignment explanation
Indices: 12907776--12907810 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12907766 ATTTATCAAT
*
12907776 TTTAATATTGATAGTA
1 TTTAATATTGAGAGTA
12907792 TTTAA-ATTGAGAGTA
1 TTTAATATTGAGAGTA
12907807 TTTA
1 TTTA
12907811 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTAATATTGAGAGTA
Found at i:12909701 original size:30 final size:30
Alignment explanation
Indices: 12909666--12909722 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
12909656 TATTGTTTTA
* * *
12909666 TTTTCTATATAACTTTTCTGAATTTATAAG
1 TTTTCTAAATAAATTTTCTAAATTTATAAG
12909696 TTTTCTAAATAAATTTTCTAAATTTAT
1 TTTTCTAAATAAATTTTCTAAATTTAT
12909723 TGGTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTTCTAAATAAATTTTCTAAATTTATAAG
Found at i:12909751 original size:15 final size:16
Alignment explanation
Indices: 12909714--12909753 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
12909704 ATAAATTTTC
*
12909714 TAAATTTATTGGTATA
1 TAAATTTATTAGTATA
*
12909730 AAAATTTATTAGTAT-
1 TAAATTTATTAGTATA
12909745 TAAATTTAT
1 TAAATTTAT
12909754 AAGTTTTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAATTTATTAGTATA
Found at i:12909756 original size:61 final size:62
Alignment explanation
Indices: 12909686--12909829 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 62
12909676 AACTTTTCTG
* * * *
12909686 AATTTATAAGTTTTCTAAATAAA-TTTTCTAAATTTATTGGT-ATAAAAATTTATTAGTATTA
1 AATTTATAAGTTTTCTAAATAAAGTGTTCTAAATTTATTAGTAAT-AAAATTTATAAGTATCA
* *
12909747 AATTTATAAGTTTTCTAAA-AAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTATCA
1 AATTTATAAGTTTTCTAAATAAAGTGTTCTAAATTTATTAGTAATAAAATTTATAAGTATCA
* * *
12909808 ATTTTAAAAGTTTTATAAATAA
1 AATTTATAAGTTTTCTAAATAA
12909830 TTATATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
60 3 0.04
61 64 0.90
62 4 0.06
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (62 bp):
AATTTATAAGTTTTCTAAATAAAGTGTTCTAAATTTATTAGTAATAAAATTTATAAGTATCA
Found at i:12909765 original size:17 final size:17
Alignment explanation
Indices: 12909673--12909765 Score: 56
Period size: 17 Copynumber: 5.9 Consensus size: 17
12909663 TTATTTTCTA
* *
12909673 TATAACTTTTCTGAATT
1 TATAAGTTTTCTAAATT
12909690 TATAAGTTTTCTAAA--
1 TATAAGTTTTCTAAATT
12909705 TA-AA-TTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * * **
12909720 TAT-TGGTATAAAAATT
1 TATAAGTTTTCTAAATT
* *
12909736 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
12909751 TATAAGTTTTCTAAA
1 TATAAGTTTTCTAAA
12909766 AAAGTGTTCT
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
13 9 0.16
14 2 0.03
15 14 0.24
16 15 0.26
17 18 0.31
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.49
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:12910002 original size:8 final size:7
Alignment explanation
Indices: 12909989--12910034 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
12909979 TAACTTATAT
12909989 ATAATAAC
1 ATAAT-AC
12909997 ATAATA-
1 ATAATAC
*
12910003 A-ATTAC
1 ATAATAC
12910009 ATAATAC
1 ATAATAC
12910016 ATAATAAC
1 ATAAT-AC
12910024 ATAATAC
1 ATAATAC
12910031 ATAA
1 ATAA
12910035 CTTATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:12910027 original size:15 final size:15
Alignment explanation
Indices: 12909989--12910034 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
12909979 TAACTTATAT
12909989 ATAATAACATAAT--
1 ATAATAACATAATAC
*
12910002 A-AATTACATAATAC
1 ATAATAACATAATAC
12910016 ATAATAACATAATAC
1 ATAATAACATAATAC
12910031 ATAA
1 ATAA
12910035 CTTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:12910046 original size:27 final size:26
Alignment explanation
Indices: 12909977--12910143 Score: 111
Period size: 27 Copynumber: 6.7 Consensus size: 26
12909967 TAATAACTTC
12909977 CATAACTTATATATAATAACATAATA
1 CATAACTTATATATAATAACATAATA
* * * *
12910003 AATTACATAATACATAATAACATAATA
1 CATAAC-TTATATATAATAACATAATA
* *
12910030 CATAACTTAT-T-TTATAATC-T--TG
1 CATAACTTATATATAATAA-CATAATA
* *
12910052 CATAACTTA-C-ATAATAAC-T--TC
1 CATAACTTATATATAATAACATAATA
12910073 CATAACTTATATATAATAACATAATA
1 CATAACTTATATATAATAACATAATA
* * * * *
12910099 AATTACATAATACATAATAACTTAATA
1 CATAAC-TTATATATAATAACATAATA
12910126 CATAACTTATATTATAAT
1 CATAACTTATA-TATAAT
12910144 CTTGCATAAC
Statistics
Matches: 107, Mismatches: 23, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
21 12 0.11
22 15 0.14
23 8 0.07
24 7 0.07
25 1 0.01
26 16 0.15
27 48 0.45
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.37
Consensus pattern (26 bp):
CATAACTTATATATAATAACATAATA
Found at i:12910055 original size:22 final size:21
Alignment explanation
Indices: 12910030--12910085 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
12910020 TAACATAATA
* * *
12910030 CATAACTTATTTTATAATCTTG
1 CATAACTTATATAATAA-CTTC
*
12910052 CATAACTTACATAATAACTTC
1 CATAACTTATATAATAACTTC
12910073 CATAACTTATATA
1 CATAACTTATATA
12910086 TAATAACATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (21 bp):
CATAACTTATATAATAACTTC
Found at i:12910062 original size:96 final size:96
Alignment explanation
Indices: 12909910--12910157 Score: 426
Period size: 96 Copynumber: 2.6 Consensus size: 96
12909900 AATCATTTGC
* ** * *
12909910 TTACTTAATACATAATAACATAATACATAA-TTGGTATATAAGCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATTTTATAATCTTGCATAACTTACATAATAAC
12909974 TTCCATAACTTATATATAATAACATAATAAA
66 TTCCATAACTTATATATAATAACATAATAAA
12910005 TTACATAATACATAATAACATAATACATAACTTATTTTATAATCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATTTTATAATCTTGCATAACTTACATAATAAC
12910070 TTCCATAACTTATATATAATAACATAATAAA
66 TTCCATAACTTATATATAATAACATAATAAA
* *
12910101 TTACATAATACATAATAACTTAATACATAACTTATATTATAATCTTGCATAACTTAC
1 TTACATAATACATAATAACATAATACATAACTTATTTTATAATCTTGCATAACTTAC
12910158 CTAGTTTACA
Statistics
Matches: 145, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
95 29 0.20
96 116 0.80
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (96 bp):
TTACATAATACATAATAACATAATACATAACTTATTTTATAATCTTGCATAACTTACATAATAAC
TTCCATAACTTATATATAATAACATAATAAA
Found at i:12910127 original size:22 final size:23
Alignment explanation
Indices: 12910059--12910130 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 23
12910049 TTGCATAACT
* *
12910059 TACATAATAACTTCCATAACTT-A
1 TACATAATAACAT-AATAACTTAA
* *
12910082 TATATAATAACATAATAA---AT
1 TACATAATAACATAATAACTTAA
12910102 TACATAAT-ACATAATAACTTAA
1 TACATAATAACATAATAACTTAA
12910124 TACATAA
1 TACATAA
12910131 CTTATATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 9 0.23
20 7 0.18
22 12 0.31
23 11 0.28
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (23 bp):
TACATAATAACATAATAACTTAA
Found at i:12910191 original size:9 final size:9
Alignment explanation
Indices: 12910177--12910454 Score: 62
Period size: 9 Copynumber: 32.1 Consensus size: 9
12910167 ATAACTCGTT
12910177 ACTTACATA
1 ACTTACATA
12910186 ACTTACATA
1 ACTTACATA
**
12910195 AAATAC--A
1 ACTTACATA
12910202 ACTTACATA
1 ACTTACATA
*
12910211 TCTTACATA
1 ACTTACATA
*
12910220 A--TACACA
1 ACTTACATA
12910227 ACTTACATA
1 ACTTACATA
12910236 A--TACA-A
1 ACTTACATA
*
12910242 CACTTACAGA
1 -ACTTACATA
* *
12910252 AATTAAATA
1 ACTTACATA
* *
12910261 AATTGCATA
1 ACTTACATA
*
12910270 A--AACATA
1 ACTTACATA
* *
12910277 GCCTACATA
1 ACTTACATA
*
12910286 ACTTATATA
1 ACTTACATA
*
12910295 ACTTTCATA
1 ACTTACATA
**
12910304 AAATAC--A
1 ACTTACATA
12910311 ACTTACATA
1 ACTTACATA
12910320 TTTGACTTA-A-A
1 ----ACTTACATA
12910331 ACTTACATA
1 ACTTACATA
*
12910340 A--TAAATA
1 ACTTACATA
*
12910347 ACTTAC-TT
1 ACTTACATA
12910355 ACATAATACA-A
1 AC-T--TACATA
*
12910366 CACTTACACA
1 -ACTTACATA
*
12910376 ACTTAAATA
1 ACTTACATA
*
12910385 ACTTGCATA
1 ACTTACATA
12910394 A--TACATA
1 ACTTACATA
* *
12910401 GCCTACATA
1 ACTTACATA
*
12910410 ACTTA-ATTTG
1 ACTTACA--TA
*
12910420 CCTTACATA
1 ACTTACATA
12910429 A--TACA-A
1 ACTTACATA
12910435 CACTTACATA
1 -ACTTACATA
12910445 ACTTACATA
1 ACTTACATA
12910454 A
1 A
12910455 ATTATTAATA
Statistics
Matches: 191, Mismatches: 43, Indels: 70
0.63 0.14 0.23
Matches are distributed among these distances:
6 2 0.01
7 46 0.24
8 5 0.03
9 116 0.61
10 8 0.04
11 6 0.03
12 3 0.02
13 5 0.03
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:12910205 original size:25 final size:25
Alignment explanation
Indices: 12910177--12910236 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
12910167 ATAACTCGTT
*
12910177 ACTTACATAACTTACATAAAATACA
1 ACTTACATAACTTACATAAAACACA
* *
12910202 ACTTACATATCTTACATAATACACA
1 ACTTACATAACTTACATAAAACACA
12910227 ACTTACATAA
1 ACTTACATAA
12910237 TACAACACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (25 bp):
ACTTACATAACTTACATAAAACACA
Found at i:12910224 original size:16 final size:16
Alignment explanation
Indices: 12910212--12910249 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
12910202 ACTTACATAT
12910212 CTTACATAATACACAA
1 CTTACATAATACACAA
12910228 CTTACATAATACA-ACA
1 CTTACATAATACACA-A
12910244 CTTACA
1 CTTACA
12910250 GAAATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
CTTACATAATACACAA
Found at i:12910635 original size:9 final size:9
Alignment explanation
Indices: 12910621--12910785 Score: 161
Period size: 9 Copynumber: 19.2 Consensus size: 9
12910611 AAGCCAAGAC
12910621 AACTTACAT
1 AACTTACAT
12910630 AACTTACAT
1 AACTTACAT
12910639 AACTTACAT
1 AACTTACAT
* *
12910648 AAATTAAAT
1 AACTTACAT
12910657 AACTTACAT
1 AACTTACAT
12910666 AACTTACAT
1 AACTTACAT
*
12910675 TA--TACAT
1 AACTTACAT
*
12910682 AACCTT-CTT
1 AA-CTTACAT
*
12910691 AACTTACTT
1 AACTTACAT
* *
12910700 TA--TACAC
1 AACTTACAT
12910707 AACTTACAT
1 AACTTACAT
12910716 AA--TACAT
1 AACTTACAT
*
12910723 TACTTACAT
1 AACTTACAT
12910732 AACTTACAT
1 AACTTACAT
*
12910741 TACTTACAGT
1 AACTTACA-T
12910751 -ACTTACAT
1 AACTTACAT
12910759 AA--TACAT
1 AACTTACAT
12910766 AACTTACAT
1 AACTTACAT
12910775 AACTTACAT
1 AACTTACAT
12910784 AA
1 AA
12910786 TACATAAAAG
Statistics
Matches: 129, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
7 23 0.18
8 4 0.03
9 100 0.78
10 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:12910735 original size:25 final size:26
Alignment explanation
Indices: 12910622--12910792 Score: 137
Period size: 25 Copynumber: 6.7 Consensus size: 26
12910612 AGCCAAGACA
*
12910622 ACTTACATAACTTACATAACTTACATA
1 ACTTACATAACTTACATAAC-TACATT
* *
12910649 AATTAAATAACTTACATAACTTACATT
1 ACTTACATAACTTACATAAC-TACATT
* *
12910676 A--TACATAACCTT-CTTAACTTACTTT
1 ACTTACATAA-CTTACATAAC-TACATT
*
12910701 A--TACACAACTTACATAA-TACATT
1 ACTTACATAACTTACATAACTACATT
* *
12910724 ACTTACATAACTTACATTACTTACAGT
1 ACTTACATAACTTACATAAC-TACATT
*
12910751 ACTTACATAA--TACATAACTTACATA
1 ACTTACATAACTTACATAAC-TACATT
12910776 ACTTACATAA--TACATAA
1 ACTTACATAACTTACATAA
12910793 AAGTATATCA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
23 6 0.05
24 3 0.02
25 71 0.58
26 3 0.02
27 40 0.33
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (26 bp):
ACTTACATAACTTACATAACTACATT
Found at i:12910764 original size:84 final size:85
Alignment explanation
Indices: 12910619--12910781 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 85
12910609 GCAAGCCAAG
*
12910619 ACAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATTATACATAA
1 ACAACTTACATAAC-TACATAACTTACATAAATTAAATAACTTACATAACTTACATAATACATAA
*
12910684 CCTT-CTTAACTTACTTTATAC
65 -CTTACATAACTTACTTTATAC
* * * *
12910705 ACAACTTACATAA-TACATTACTTACATAACTTACATTACTTACAGT-ACTTACATAATACATAA
1 ACAACTTACATAACTACATAACTTACATAAATTAAATAACTTACA-TAACTTACATAATACATAA
12910768 CTTACATAACTTAC
65 CTTACATAACTTAC
12910782 ATAATACATA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
83 3 0.04
84 52 0.75
85 1 0.01
86 13 0.19
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (85 bp):
ACAACTTACATAACTACATAACTTACATAAATTAAATAACTTACATAACTTACATAATACATAAC
TTACATAACTTACTTTATAC
Found at i:12915895 original size:21 final size:21
Alignment explanation
Indices: 12915866--12915916 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12915856 CTACAACTTA
*
12915866 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* * *
12915887 AAGCGGAGGCTGTAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
12915908 AAGCAGAGG
1 AAGCAGAGG
12915917 TTCAAAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.49, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:12916539 original size:42 final size:42
Alignment explanation
Indices: 12916471--12916696 Score: 281
Period size: 42 Copynumber: 5.3 Consensus size: 42
12916461 TCTTTAGTGG
* * * * *
12916471 TGTTCTTTAGCGGCTCTTAGAGAAAAATGCCGTTAAAGAACA
1 TGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
* * * *
12916513 TGATCTTTACCGGTGCTTAGGAAAAAACGCCGCTAAAGATCA
1 TGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
*
12916555 TGTTCTTTAGCGGTGCTTAGAAAAAAACGCCGCTAAAGATCA
1 TGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
* ** *
12916597 TGTTCTATAGTAGCGCTTAGAAAAAAATGCCGCTAAAGATCA
1 TGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
* *
12916639 TGTTCTTTAGCGGCGCTTAGAAAAAAAAACGCTGCTAAAGAACA
1 TGTTCTTTAGCGGCGCTTAG--AAAAAAACGCCGCTAAAGATCA
*
12916683 TGATCTTTAGCGGC
1 TGTTCTTTAGCGGC
12916697 ATTTTTGTTT
Statistics
Matches: 158, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 126 0.80
44 32 0.20
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (42 bp):
TGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
Found at i:12918357 original size:30 final size:30
Alignment explanation
Indices: 12918303--12918471 Score: 112
Period size: 30 Copynumber: 5.7 Consensus size: 30
12918293 CCATCGAACA
* *
12918303 ATGAAAAAGGATAGCTTCGATTATCGAATT
1 ATGAAAAGGGATAGCTTCGATTATCAAATT
12918333 ATGAAAAGGGATAGCTTC-AGTTATCAAATT
1 ATGAAAAGGGATAGCTTCGA-TTATCAAATT
* * ** *
12918363 ATGAAAAGGGAT-GGTGACGACCATC-AATA
1 ATGAAAAGGGATAGCT-TCGATTATCAAATT
* * ** *
12918392 ATGAAAAGGGAT-GGTGACGACCATCAAATA
1 ATGAAAAGGGATAGCT-TCGATTATCAAATT
* * ** **
12918422 ATGAAAAGGGATAGCTTCAACTATTGAGCT
1 ATGAAAAGGGATAGCTTCGATTATCAAATT
*
12918452 ATGCAAAGGGATAGCTTCGA
1 ATGAAAAGGGATAGCTTCGA
12918472 CTATTGAGCT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
29 31 0.27
30 82 0.71
31 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGATTATCAAATT
Found at i:12918404 original size:29 final size:30
Alignment explanation
Indices: 12918244--12918433 Score: 156
Period size: 30 Copynumber: 6.4 Consensus size: 30
12918234 GAATCGAATT
* *
12918244 ATGAAAAGGGATGGTGACGACCATC-TACA
1 ATGAAAAGGGATGGTGACGACCATCAAATA
* * * *
12918273 ATGCAAAGAGATGGTGACGACCATCGAACA
1 ATGAAAAGGGATGGTGACGACCATCAAATA
* * * ** * *
12918303 ATGAAAAAGGATAGCT-TCGATTATCGAATT
1 ATGAAAAGGGAT-GGTGACGACCATCAAATA
* * ** *
12918333 ATGAAAAGGGATAGCT-TC-AGTTATCAAATT
1 ATGAAAAGGGAT-GGTGACGA-CCATCAAATA
12918363 ATGAAAAGGGATGGTGACGACCATC-AATA
1 ATGAAAAGGGATGGTGACGACCATCAAATA
12918392 ATGAAAAGGGATGGTGACGACCATCAAATA
1 ATGAAAAGGGATGGTGACGACCATCAAATA
12918422 ATGAAAAGGGAT
1 ATGAAAAGGGAT
12918434 AGCTTCAACT
Statistics
Matches: 136, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
29 54 0.40
30 79 0.58
31 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCAAATA
Found at i:12918425 original size:119 final size:119
Alignment explanation
Indices: 12918214--12918469 Score: 352
Period size: 119 Copynumber: 2.2 Consensus size: 119
12918204 CCTCAAAATA
* * * *
12918214 ATGAAAAGGGATAGCCTCAAGAATCGAATTATGAAAAGGGATGGTGACGACCATCTACAATGCAA
1 ATGAAAAGGGATAGCTTCAAGAATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
* * * *
12918279 AGAGATGGTGACGACCATCGAACAATGAAAAAGGATAGCTTCGATTATCGAATT
66 AGAGATGGTGACGACCATCAAACAATGAAAAAGGATAGCTTCAACTATCGAACT
* *
12918333 ATGAAAAGGGATAGCTTC-AGTTATCAAATTATGAAAAGGGATGGTGACGACCATCAATAATGAA
1 ATGAAAAGGGATAGCTTCAAG-AATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAA
* * * * *
12918397 AAGGGATGGTGACGACCATCAAATAATGAAAAGGGATAGCTTCAACTATTGAGCT
65 AAGAGATGGTGACGACCATCAAACAATGAAAAAGGATAGCTTCAACTATCGAACT
*
12918452 ATGCAAAGGGATAGCTTC
1 ATGAAAAGGGATAGCTTC
12918470 GACTATTGAG
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
118 2 0.02
119 118 0.98
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (119 bp):
ATGAAAAGGGATAGCTTCAAGAATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
AGAGATGGTGACGACCATCAAACAATGAAAAAGGATAGCTTCAACTATCGAACT
Found at i:12918460 original size:89 final size:90
Alignment explanation
Indices: 12918273--12918463 Score: 215
Period size: 89 Copynumber: 2.1 Consensus size: 90
12918263 ACCATCTACA
* * ** * *
12918273 ATGCAAAGAGATGGTGACGACCATCGAACAATGAAAAAGGATAGCTTCGATTATCGAATTATGAA
1 ATGCAAAGGGATGGTGACGACCATCGAACAATGAAAAAGGATAGCTACGACCATCAAATAATGAA
** *
12918338 AAGGGATAGCTTCAGTTATCAAATT
66 AAGGGATAGCTTCAACTATCAAACT
* * * *
12918363 ATGAAAAGGGATGGTGACGACCATC-AATAATGAAAAGGGAT-GGTGACGACCATCAAATAATGA
1 ATGCAAAGGGATGGTGACGACCATCGAACAATGAAAAAGGATAGCT-ACGACCATCAAATAATGA
** *
12918426 AAAGGGATAGCTTCAACTATTGAGCT
65 AAAGGGATAGCTTCAACTATCAAACT
12918452 ATGCAAAGGGAT
1 ATGCAAAGGGAT
12918464 AGCTTCGACT
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
88 2 0.02
89 58 0.70
90 23 0.28
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (90 bp):
ATGCAAAGGGATGGTGACGACCATCGAACAATGAAAAAGGATAGCTACGACCATCAAATAATGAA
AAGGGATAGCTTCAACTATCAAACT
Found at i:12918475 original size:30 final size:30
Alignment explanation
Indices: 12918422--12918491 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
12918412 CCATCAAATA
12918422 ATGAAAAGGGATAGCTTCAACTATTGAGCT
1 ATGAAAAGGGATAGCTTCAACTATTGAGCT
* *
12918452 ATGCAAAGGGATAGCTTCGACTATTGAGCT
1 ATGAAAAGGGATAGCTTCAACTATTGAGCT
12918482 ATGAAAAGGG
1 ATGAAAAGGG
12918492 TTGGGACAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAACTATTGAGCT
Found at i:12918485 original size:119 final size:119
Alignment explanation
Indices: 12918214--12918505 Score: 329
Period size: 119 Copynumber: 2.5 Consensus size: 119
12918204 CCTCAAAATA
* * * * * *
12918214 ATGAAAAGGGATAGCCTCAAG-AATCGAATTATGAAAAGGGATGGTGACGACCATCTACAATGCA
1 ATGAAAAGGGATAGCTTC-AGCTATCAAACTATGAAAAGGGATGGTGACGACCATCAACAATGAA
* * * *
12918278 AAGAGATGGTGACGACCATCGAACAATGAAAAAGGATAGCTTCGATTATCGAATT
65 AAGAGATGGTGACGACCATCAAACAATGAAAAAGGATAGCTTCAACTATCGAACT
* * *
12918333 ATGAAAAGGGATAGCTTCAGTTATCAAATTATGAAAAGGGATGGTGACGACCATCAATAATGAAA
1 ATGAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
* * * * *
12918398 AGGGATGGTGACGACCATCAAATAATGAAAAGGGATAGCTTCAACTATTGAGCT
66 AGAGATGGTGACGACCATCAAACAATGAAAAAGGATAGCTTCAACTATCGAACT
* ** * * *
12918452 ATGCAAAGGGATAGCTTC-GACTATTGAGCTATGAAAAGGGTTGG-GACAACCATC
1 ATGAAAAGGGATAGCTTCAG-CTATCAAACTATGAAAAGGGATGGTGACGACCATC
12918506 GTGATTTTAC
Statistics
Matches: 148, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
118 12 0.08
119 136 0.92
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (119 bp):
ATGAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
AGAGATGGTGACGACCATCAAACAATGAAAAAGGATAGCTTCAACTATCGAACT
Found at i:12922694 original size:15 final size:18
Alignment explanation
Indices: 12922674--12922713 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 18
12922664 AAGAGGCGAA
12922674 AAAAAGAAA-TG-AAA-G
1 AAAAAGAAATTGAAAACG
12922689 AAAAAGAAATTGAAAACG
1 AAAAAGAAATTGAAAACG
12922707 AAAAAGA
1 AAAAAGA
12922714 GAGTGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 2 0.09
17 3 0.14
18 8 0.36
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAAGAAATTGAAAACG
Found at i:12925819 original size:2 final size:2
Alignment explanation
Indices: 12925812--12925907 Score: 142
Period size: 2 Copynumber: 48.5 Consensus size: 2
12925802 ATAATTACCT
12925812 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
** *
12925854 TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC AG T- TT TAC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T-C TC TC
12925895 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
12925908 ATTTGACCAT
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
1 2 0.02
2 84 0.97
3 1 0.01
ACGTcount: A:0.02, C:0.46, G:0.01, T:0.51
Consensus pattern (2 bp):
TC
Found at i:12926847 original size:25 final size:25
Alignment explanation
Indices: 12926819--12926874 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
12926809 AAGTATTATG
*
12926819 CAGAGAACATAAATATGCTAATAAT
1 CAGAGAACACAAATATGCTAATAAT
* ** *
12926844 CAGAGAGCACCGATGTGCTAATAAT
1 CAGAGAACACAAATATGCTAATAAT
12926869 CAGAGA
1 CAGAGA
12926875 GCACGCTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.20
Consensus pattern (25 bp):
CAGAGAACACAAATATGCTAATAAT
Found at i:12927910 original size:50 final size:50
Alignment explanation
Indices: 12927782--12928026 Score: 226
Period size: 50 Copynumber: 4.9 Consensus size: 50
12927772 AATAATAACA
* ** * * *
12927782 TGCCAAATCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * ** * *
12927831 TGCTAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCAG
1 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
12927881 TGCCCATTCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
12927931 TGACAACAT-CATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAA-TTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** *
12927981 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
12928027 ATTTCAATAA
Statistics
Matches: 157, Mismatches: 35, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 119 0.76
51 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:12928055 original size:56 final size:50
Alignment explanation
Indices: 12927781--12928114 Score: 217
Period size: 50 Copynumber: 6.6 Consensus size: 50
12927771 TAATAATAAC
** ** * * *
12927781 ATGCCAAATCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-A
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
* * * * * ** * *
12927830 CTGCTAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
* * ** ** *
12927880 GTGCCCATTCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
* * ** * *
12927930 GTGACAACATCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
* * *
12927980 GTGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---A
* * * *
12928036 ATGCTAATGCCATGTCCCAGACATGGTCTTACACT-GG--CTCACATATCA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCA
* * * *
12928084 ATGTCGATGCCTTGTCCCAGACATGGTCTTA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTA
12928115 TACGAGATCG
Statistics
Matches: 227, Mismatches: 50, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
48 28 0.12
49 36 0.16
50 119 0.52
51 4 0.02
53 4 0.02
54 4 0.02
56 31 0.14
57 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
Found at i:12930682 original size:23 final size:26
Alignment explanation
Indices: 12930653--12930703 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
12930643 AATCATTTAC
12930653 TAATAAAATAAT-ATTAAA-AAT-CT
1 TAATAAAATAATAATTAAATAATACT
*
12930676 TAATAAAATATTAATTAAATAATACT
1 TAATAAAATAATAATTAAATAATACT
12930702 TA
1 TA
12930704 TCTAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
24 6 0.25
25 3 0.12
26 4 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
TAATAAAATAATAATTAAATAATACT
Found at i:12932726 original size:26 final size:27
Alignment explanation
Indices: 12932687--12932741 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
12932677 AAGATTGTTA
* *
12932687 AAATTCTTCTAAAAGAAACTTAAA-AG
1 AAATTCTTCTAAAAAAAACTCAAAGAG
12932713 AAATTCTTGC-AAAAAAAACTCAAAGAG
1 AAATTCTT-CTAAAAAAAACTCAAAGAG
12932740 AA
1 AA
12932742 TTTATTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (27 bp):
AAATTCTTCTAAAAAAAACTCAAAGAG
Found at i:12939671 original size:33 final size:33
Alignment explanation
Indices: 12939634--12939696 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
12939624 AAAATTCTCT
*
12939634 TGTAGTTCCGTTCGAAACTTAGTCAAATTGGCC
1 TGTAGTTCCATTCGAAACTTAGTCAAATTGGCC
* *
12939667 TGTAGTTCCATTTGATACTTAGTCAAATTG
1 TGTAGTTCCATTCGAAACTTAGTCAAATTG
12939697 ACCTCAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (33 bp):
TGTAGTTCCATTCGAAACTTAGTCAAATTGGCC
Found at i:12940585 original size:25 final size:28
Alignment explanation
Indices: 12940543--12940597 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
12940533 AAGATTGTTA
*
12940543 AAATTCTTCTAAAAG-AAACTC-AAGAG
1 AAATTCTTCGAAAAGAAAACTCAAAGAG
12940569 AAATTCTT-GAAAAGAAAACTCAAAGAG
1 AAATTCTTCGAAAAGAAAACTCAAAGAG
12940596 AA
1 AA
12940598 TTTATTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 14 0.54
27 7 0.27
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.20
Consensus pattern (28 bp):
AAATTCTTCGAAAAGAAAACTCAAAGAG
Found at i:12943370 original size:13 final size:13
Alignment explanation
Indices: 12943352--12943402 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 13
12943342 GGGGACACAC
12943352 GGCCGTGTCACCT
1 GGCCGTGTCACCT
*
12943365 GGCCGTGTGGCACACAC
1 GGCCGTGT--CAC-C-T
12943382 GGCCGTGTCACCT
1 GGCCGTGTCACCT
12943395 GGCCGTGT
1 GGCCGTGT
12943403 GGCACACACG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 16 0.50
14 1 0.03
15 6 0.19
16 1 0.03
17 8 0.25
ACGTcount: A:0.10, C:0.35, G:0.35, T:0.20
Consensus pattern (13 bp):
GGCCGTGTCACCT
Found at i:12943381 original size:30 final size:30
Alignment explanation
Indices: 12943346--12943414 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
12943336 GATACAGGGG
12943346 ACACACGGCCGTGTCACCTGGCCGTGTGGC
1 ACACACGGCCGTGTCACCTGGCCGTGTGGC
12943376 ACACACGGCCGTGTCACCTGGCCGTGTGGC
1 ACACACGGCCGTGTCACCTGGCCGTGTGGC
12943406 ACACACGGC
1 ACACACGGC
12943415 TAAGACACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.16, C:0.38, G:0.32, T:0.14
Consensus pattern (30 bp):
ACACACGGCCGTGTCACCTGGCCGTGTGGC
Found at i:12943802 original size:24 final size:24
Alignment explanation
Indices: 12943774--12943822 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12943764 AAAATTTATT
12943774 TCACATACTAACATATTTAACTTA
1 TCACATACTAACATATTTAACTTA
12943798 TCACATACTAACATATTTAACTTA
1 TCACATACTAACATATTTAACTTA
12943822 T
1 T
12943823 ATACCTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (24 bp):
TCACATACTAACATATTTAACTTA
Found at i:12951541 original size:13 final size:13
Alignment explanation
Indices: 12951523--12951547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12951513 GTGCAGCTCA
12951523 TGTAGCTCGTCCG
1 TGTAGCTCGTCCG
12951536 TGTAGCTCGTCC
1 TGTAGCTCGTCC
12951548 TTGTGTCTCA
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:0.08, C:0.32, G:0.28, T:0.32
Consensus pattern (13 bp):
TGTAGCTCGTCCG
Found at i:12954000 original size:24 final size:24
Alignment explanation
Indices: 12953939--12954006 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
12953929 ATGCAAAGGA
12953939 GTTAGATGCTAAACCATTTTGTGG
1 GTTAGATGCTAAACCATTTTGTGG
* * * *
12953963 GATTTTGAAG--AAACGATTTTGTGT
1 G--TTAGATGCTAAACCATTTTGTGG
12953987 GTTAGATGCTAAACCATTTT
1 GTTAGATGCTAAACCATTTT
12954007 AGAATTTCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
22 5 0.15
24 23 0.70
26 5 0.15
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (24 bp):
GTTAGATGCTAAACCATTTTGTGG
Found at i:12955296 original size:56 final size:55
Alignment explanation
Indices: 12955177--12955323 Score: 149
Period size: 56 Copynumber: 2.6 Consensus size: 55
12955167 ATGTTTTAAT
* *
12955177 GTGGTGCAGTA-TTAATAATGCACTTGGGCAATATTATTATGTGAACTATCAATTA
1 GTGGTGTAGTACTCAATAA-GCACTTGGGCAATATTATTATGTGAACTATCAATTA
* *
12955232 TGTGGTGTAGTACT-ACATAAGCACTTGGGCAATATTATTATGTGGTGAGCTATTAATTA
1 -GTGGTGTAGTACTCA-ATAAGCACTTGGGCAATATTATTA--T-GTGAACTATCAATTA
* * *
12955291 -T-GTGTAGTACTCAATATGCACATGGACAATATT
1 GTGGTGTAGTACTCAATAAGCACTTGGGCAATATT
12955324 TTAGTCATCA
Statistics
Matches: 79, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
56 58 0.73
57 7 0.09
58 1 0.01
59 13 0.16
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (55 bp):
GTGGTGTAGTACTCAATAAGCACTTGGGCAATATTATTATGTGAACTATCAATTA
Found at i:12958597 original size:61 final size:59
Alignment explanation
Indices: 12958529--12958644 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 59
12958519 AGTGATTATC
* * *
12958529 TTAATATTAAATTTAATTTAATATTTATCTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATGTAATCTAATATTTATCT-T-GATAAATATTATATTAATTTAATAAGAT
*
12958590 TTAATATTAAATGTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATGTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
12958645 TTAAAGTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 28 0.55
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATGTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:12962539 original size:12 final size:12
Alignment explanation
Indices: 12962522--12962555 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
12962512 TTCGTCGTCA
12962522 TCATCATCACCG
1 TCATCATCACCG
*
12962534 TCATCATCATCG
1 TCATCATCACCG
12962546 TCATCATCAC
1 TCATCATCAC
12962556 TTTTTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.38, G:0.06, T:0.29
Consensus pattern (12 bp):
TCATCATCACCG
Found at i:12962552 original size:15 final size:15
Alignment explanation
Indices: 12962516--12962554 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
12962506 GTTTGATTCG
12962516 TCGTCATCATCATCA
1 TCGTCATCATCATCA
* *
12962531 CCGTCATCATCATCG
1 TCGTCATCATCATCA
*
12962546 TCATCATCA
1 TCGTCATCA
12962555 CTTTTTCCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.31
Consensus pattern (15 bp):
TCGTCATCATCATCA
Found at i:12971980 original size:74 final size:73
Alignment explanation
Indices: 12971859--12972079 Score: 318
Period size: 74 Copynumber: 3.0 Consensus size: 73
12971849 AAAGTTGAAG
* * *
12971859 AACCAGAGAAAATAAAAGAAGGGAAATTAGTACAAAAGTTTAGAACTAGAGAAAATGAAAGGAAA
1 AACCAGAGGAAATAAAAGAAGGGAAACTACTACAAAAGTTTAGAACTAGAGAAAATGAAAGG-AA
12971924 AGTAGGAAA
65 AGTAGGAAA
* *
12971933 AACCAGAGGAAATTAAAGAAGGGAAACTACTACAAAAGTTTAGAACTAGAGAGAATGAAAAGGAA
1 AACCAGAGGAAATAAAAGAAGGGAAACTACTACAAAAGTTTAGAACTAGAGAAAATG-AAAGGAA
*
12971998 AGTAGGAAG
65 AGTAGGAAA
* * *
12972007 AACCAGA-GAAGACAAAAGAAGGGAAACTGCTGCAAAAGTTTAGAACTAGAGAAAATGAAAGGGA
1 AACCAGAGGAA-ATAAAAGAAGGGAAACTACTACAAAAGTTTAGAACTAGAGAAAATGAAA-GGA
12972071 AAGTAGGAA
64 AAGTAGGAA
12972080 CTGCTGCAAT
Statistics
Matches: 133, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
73 6 0.05
74 122 0.92
75 5 0.04
ACGTcount: A:0.54, C:0.08, G:0.25, T:0.13
Consensus pattern (73 bp):
AACCAGAGGAAATAAAAGAAGGGAAACTACTACAAAAGTTTAGAACTAGAGAAAATGAAAGGAAA
GTAGGAAA
Found at i:12972828 original size:52 final size:51
Alignment explanation
Indices: 12972751--12972852 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 51
12972741 CTTCTCCTTA
* * * *
12972751 CTTATCTTACATCTCTTCTTTTGAAACACACAACATT-TTGCAAAGCTAAAGC
1 CTTATCCTACATCACTTCTTTTGAAACA-A-AAAATTGCTGCAAAGCTAAAGC
12972803 CTTATCCTACATCAC-TCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
1 CTTATCCTACATCACTTC-TTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
12972853 TATGCAATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
50 5 0.11
51 16 0.36
52 23 0.52
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (51 bp):
CTTATCCTACATCACTTCTTTTGAAACAAAAAATTGCTGCAAAGCTAAAGC
Found at i:12973532 original size:205 final size:203
Alignment explanation
Indices: 12973081--12973737 Score: 830
Period size: 205 Copynumber: 3.2 Consensus size: 203
12973071 TTTCGAGCAT
* *
12973081 GATGGAAACACTATATCATGCATCCATCTTAAGGCATTCAACTTGCATTTTATATGGTACAATTA
1 GATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACTTACA-TTTATATGGTACAATTA
* * * * * *
12973146 TCCAAAAGAAATCAAGGCAGAGCAGTGGAACAAT-AAAATTAGTAGTTCAATGATAGAAATATTA
65 TCCAAATGAAAACAAGGCAGAGCAGTAGAAC-ATGAAAATTAGCAATT-AATGACAGAAATATT-
* *
12973210 G-TAATTTTTGAAACACAAAACA-CAAATGCAATTATACTTTCATCCACTCTGGTTTATATACAG
127 GCTAA-TTTTG-TACACAAAACACCAGATGCAATTATACTTTCATCCACTCTGGTTTATAT--AG
12973273 TTTTCAAGCATTACAA
188 TTTTCAAGCATTACAA
* *
12973289 GATGGAAACACTATATCATGCATCCATATTATGGCATTCAACTTACAGCTTATATGGTACAATTA
1 GATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACTTACA-TTTATATGGTACAATTA
* *
12973354 TCCAAATCAAAACAAGGGAGAGCAGTAGAACATGAAAATTAGCAATTAATGACAGAAATATTGCT
65 TCCAAATGAAAACAAGGCAGAGCAGTAGAACATGAAAATTAGCAATTAATGACAGAAATATTGCT
* *
12973419 AATTTTGGTACACAAAACACCAGATGCAATAATAC-TTCAATTCACTCTGGTTTATATAGTTTTC
130 AATTTT-GTACACAAAACACCAGATGCAATTATACTTTC-ATCCACTCTGGTTTATATAGTTTTC
12973483 AAGCATTACAA
193 AAGCATTACAA
* *
12973494 GATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACTTACATTATATATGGTAAAATCA
1 GATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACTTACATT-TATATGGTACAATTA
* * * * *
12973559 TCCAAATGAAAACAAGGCAGAGCAGCAGAACATGCAAATCAGCAATTAATGACAAAAATATTCCT
65 TCCAAATGAAAACAAGGCAGAGCAGTAGAACATGAAAATTAGCAATTAATGACAGAAATATTGCT
* * * *
12973624 AA-TTT-T----AAAACACAAGATGCAATTATACTTTCATCCATTTTGGTTTATACACAGTTTTC
130 AATTTTGTACACAAAACACCAGATGCAATTATACTTTCATCCACTCTGGTTTAT--ATAGTTTTC
12973683 AAGCATTACAA
193 AAGCATTACAA
* * * * *
12973694 GATAGAAACACCATACCATACATCCTTATTAAGGCATTCAACTT
1 GATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACTT
12973738 TCTAATTTCT
Statistics
Matches: 401, Mismatches: 39, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
198 33 0.08
199 3 0.01
200 58 0.14
202 1 0.00
204 4 0.01
205 137 0.34
206 18 0.04
207 50 0.12
208 97 0.24
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (203 bp):
GATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACTTACATTTATATGGTACAATTAT
CCAAATGAAAACAAGGCAGAGCAGTAGAACATGAAAATTAGCAATTAATGACAGAAATATTGCTA
ATTTTGTACACAAAACACCAGATGCAATTATACTTTCATCCACTCTGGTTTATATAGTTTTCAAG
CATTACAA
Found at i:12981737 original size:120 final size:120
Alignment explanation
Indices: 12981589--12981912 Score: 603
Period size: 120 Copynumber: 2.7 Consensus size: 120
12981579 TAAATTTTTG
*
12981589 AATTCATAGAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATT
1 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATT
12981654 TAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
66 TAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
12981709 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATT
1 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATT
12981774 TAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
66 TAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
* *
12981829 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTGTTTATTTTTATTAAATTATATT
1 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATT
* *
12981894 TAATAATAGTTATGTTAAA
66 TAATAATAATTATTTTAAA
12981913 ATATGATTAA
Statistics
Matches: 199, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 199 1.00
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATT
TAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
Found at i:12982147 original size:16 final size:16
Alignment explanation
Indices: 12982128--12982174 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
12982118 TATTACGTCT
*
12982128 CTATTCCATTACATCC
1 CTATTCCATTACAGCC
*
12982144 CTATTCCATTACAGCT
1 CTATTCCATTACAGCC
*
12982160 TTATTCCATTACAGC
1 CTATTCCATTACAGC
12982175 GAACCAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.32, G:0.04, T:0.38
Consensus pattern (16 bp):
CTATTCCATTACAGCC
Found at i:12987852 original size:17 final size:17
Alignment explanation
Indices: 12987804--12987861 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
12987794 TTTTAATTTT
* *
12987804 TTTTATACTTTTTAGTAA
1 TTTTATAATTTTTAAT-A
*
12987822 TTTTAATGATTTTTAATA
1 TTTT-ATAATTTTTAATA
12987840 TTTTATAATTTTTAATA
1 TTTTATAATTTTTAATA
12987857 TTTTA
1 TTTTA
12987862 AAAAAGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 17 0.49
18 9 0.26
19 9 0.26
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTATAATTTTTAATA
Found at i:12991505 original size:52 final size:52
Alignment explanation
Indices: 12991441--12991545 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
12991431 TTACAAATGG
** * *
12991441 TAAGAAAATATTATTTAATTATTTAATTTTAATTTGTTAATTATTATGATGT
1 TAAGAAAATATTATCAAATTATTTAATTTTAAATAGTTAATTATTATGATGT
*
12991493 TAAGAAAATATTATCAAATTATTTAATTTTAAATAGTTAATTATTATGTTGT
1 TAAGAAAATATTATCAAATTATTTAATTTTAAATAGTTAATTATTATGATGT
12991545 T
1 T
12991546 TAGATTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (52 bp):
TAAGAAAATATTATCAAATTATTTAATTTTAAATAGTTAATTATTATGATGT
Found at i:12993209 original size:63 final size:63
Alignment explanation
Indices: 12993128--12993276 Score: 181
Period size: 63 Copynumber: 2.4 Consensus size: 63
12993118 ATCACAACAT
* * * * *
12993128 GTACCATAACACACGCAATCATTCTCTGCTCCAACAAAATCATCACTAGTTTATTTTACACAA
1 GTACCATAACACGCGCAATCATTCCCTGCACCAACAAAATCATCACCAATTTATTTTACACAA
* * * * * *
12993191 GTACCACAACACGTGCAATCATTCCCTGCACCAACACAGTTATCGCCAATTTATTTTACACAA
1 GTACCATAACACGCGCAATCATTCCCTGCACCAACAAAATCATCACCAATTTATTTTACACAA
* *
12993254 GCACCATAACACGCACAATCATT
1 GTACCATAACACGCGCAATCATT
12993277 TCTTAGACCG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.36, C:0.31, G:0.08, T:0.26
Consensus pattern (63 bp):
GTACCATAACACGCGCAATCATTCCCTGCACCAACAAAATCATCACCAATTTATTTTACACAA
Found at i:12997032 original size:14 final size:12
Alignment explanation
Indices: 12997002--12997031 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12996992 ATAACTTATT
12997002 TATATACATGCA
1 TATATACATGCA
*
12997014 TATATACATGCT
1 TATATACATGCA
12997026 TATATA
1 TATATA
12997032 TTTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (12 bp):
TATATACATGCA
Found at i:12997302 original size:26 final size:25
Alignment explanation
Indices: 12997273--12997326 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
12997263 TCCACATACG
*
12997273 TATATATACATATTTATATATCTTTT
1 TATATATACATATTTATAT-TCATTT
* * *
12997299 TATATTTTCATATTTTTATTCATTT
1 TATATATACATATTTATATTCATTT
12997324 TAT
1 TAT
12997327 TTATTCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATATACATATTTATATTCATTT
Found at i:12997320 original size:12 final size:12
Alignment explanation
Indices: 12997313--12997343 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
12997303 TTTTCATATT
12997313 TTTATTCATTTTA
1 TTTATTCA-TTTA
12997326 TTTATTCATTTA
1 TTTATTCATTTA
12997338 TTTATT
1 TTTATT
12997344 TACATTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATTCATTTA
Found at i:12997333 original size:25 final size:25
Alignment explanation
Indices: 12997281--12997343 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
12997271 CGTATATATA
* *
12997281 CATATTTATATATCTTTTTATATTTT
1 CATATTTTTAT-TCATTTTATATTTT
12997307 CATATTTTTATTCATTTTAT-TTATT
1 CATATTTTTATTCATTTTATATT-TT
12997332 CAT-TTATTTATT
1 CATATT-TTTATT
12997344 TACATTGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 4 0.12
25 19 0.58
26 10 0.30
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (25 bp):
CATATTTTTATTCATTTTATATTTT
Found at i:13002212 original size:16 final size:16
Alignment explanation
Indices: 13002191--13002226 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13002181 GTGGAGGTAA
13002191 AAAAACAAAAAAAAAC
1 AAAAACAAAAAAAAAC
* *
13002207 AAAAACATAAAAAAAT
1 AAAAACAAAAAAAAAC
13002223 AAAA
1 AAAA
13002227 CCCTCTACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACAAAAAAAAAC
Found at i:13004482 original size:131 final size:131
Alignment explanation
Indices: 13003508--13004443 Score: 1458
Period size: 131 Copynumber: 7.1 Consensus size: 131
13003498 GATCGGTGAA
* * *
13003508 ACCAGTCCTATCTCCCTGAGGAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGT
1 ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * * **
13003573 AGTAGTAGAGCAGATTGAATACGGTGAATCTTATCTTCTTGAGGTAGTAGGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
13003638 C
131 C
* *
13003639 ACCAGTCCTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGA
1 ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* *
13003704 AGTAATGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCGAGGTAGTAGGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
13003769 C
131 C
* *
13003770 ACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTGGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* *
13003835 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTGAGGTAGTAAGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
13003900 C
131 C
* *
13003901 ACCAGTCCTATCTCCTTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * * *
13003966 AGTAGCGGAACAGATCGAAGACGGCAAATCTTATTTTCCCGAGGTAGTAGGAAGCTGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
13004031 C
131 C
* * *
13004032 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAAC
1 ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * *
13004097 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATTTTCTCAAGGTAGTAGGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
13004162 C
131 C
*
13004163 ATCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * *
13004228 AGTAGTGGAACAGATCGAAGACGGCAAATCTTATCTTCCCGAGGTAGTAAGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
13004293 C
131 C
* * *
13004294 ACTAGTTCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * *** *
13004359 AGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGATAGTAGGAAGCAGACGAAAGA
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
*
13004424 A
131 C
*
13004425 ACCAATCCTATCTCCCTGA
1 ACCAGTCCTATCTCCCTGA
13004444 AGTTGCAGTG
Statistics
Matches: 735, Mismatches: 70, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 735 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (131 bp):
ACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGC
C
Found at i:13004496 original size:44 final size:42
Alignment explanation
Indices: 13004433--13004621 Score: 136
Period size: 44 Copynumber: 4.4 Consensus size: 42
13004423 AAACCAATCC
*
13004433 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACATATCT
1 TATCT-CCTGAAGTTGCAGTGGAGCGGA-TAAAACCACATATCT
* * * *** * *
13004477 TATCTCTCCGAAGTTGCAGTAGAGCAGATCGCATC-CA-GTCT
1 TATCTC-CTGAAGTTGCAGTGGAGCGGATAAAACCACATATCT
*
13004518 TATCTCCATGAAGTTGCAGTGGAGCAGACGAAAGAAACCA-AT-TC-
1 TATCTCC-TGAAGTTGCAGTGGAGC-G--GATA-AAACCACATATCT
* *
13004562 TATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCC-TGAAGTTGCAGTGGAGCGGA-TAAAACCACATATCT
13004606 TATCTCTCTGAAGTTG
1 TATCTC-CTGAAGTTG
13004622 TAGTAGAGTA
Statistics
Matches: 113, Mismatches: 19, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
40 1 0.01
41 32 0.28
42 4 0.04
43 8 0.07
44 62 0.55
45 6 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (42 bp):
TATCTCCTGAAGTTGCAGTGGAGCGGATAAAACCACATATCT
Found at i:13004531 original size:41 final size:40
Alignment explanation
Indices: 13004433--13004674 Score: 128
Period size: 44 Copynumber: 5.7 Consensus size: 40
13004423 AAACCAATCC
* * ** *
13004433 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACATATCT
1 TATCT-CCTGAAGTTGCAGTAGAGCAGA-TCGAATC-CA-GTCT
* *
13004477 TATCTCTCCGAAGTTGCAGTAGAGCAGATCGCATCCAGTCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATCGAATCCAGTCT
* * *
13004518 TATCTCCATGAAGTTGCAGTGGAGCAGA-CGAAAGAAACCAAT-T
1 TATCTCC-TGAAGTTGCAGTAGAGCAGATC----GAATCCAGTCT
* ** ** *
13004561 CTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 -TATCTCC-TGAAGTTGCAGTAGAGCAGA-TCGAATC-CAG-TCT
* * * *
13004606 TATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATTCAGTCT
1 TATCTC-CTGAAGTTGCAGTAGAGCAGATCGAATCCAGTCT
*
13004647 TATCTCCCTGAAGTTGCAGTTGAGCAGA
1 TATCT-CCTGAAGTTGCAGTAGAGCAGA
13004675 CAAAAGAAAC
Statistics
Matches: 154, Mismatches: 30, Indels: 31
0.72 0.14 0.14
Matches are distributed among these distances:
40 2 0.01
41 53 0.34
42 9 0.06
43 10 0.06
44 78 0.51
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (40 bp):
TATCTCCTGAAGTTGCAGTAGAGCAGATCGAATCCAGTCT
Found at i:13004689 original size:129 final size:129
Alignment explanation
Indices: 13004411--13004689 Score: 450
Period size: 129 Copynumber: 2.2 Consensus size: 129
13004401 GATAGTAGGA
* * *
13004411 AGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACATATC
1 AGCAGACGAAAGAAACCAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATC
13004476 TTATCTCTCCGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
66 TTATCTCTCCGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
* *
13004540 AGCAGACGAAAGAAACCAATTCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATC
1 AGCAGACGAAAGAAACCAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATC
* * * * * *
13004605 TTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTTG
66 TTATCTCTCCGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
*
13004669 AGCAGACAAAAGAAACCAATT
1 AGCAGACGAAAGAAACCAATT
13004690 TCGTCCCTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 138 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (129 bp):
AGCAGACGAAAGAAACCAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATC
TTATCTCTCCGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
Found at i:13004739 original size:129 final size:129
Alignment explanation
Indices: 13004411--13004752 Score: 386
Period size: 129 Copynumber: 2.7 Consensus size: 129
13004401 GATAGTAGGA
* * * ** * * * *
13004411 AGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACATATC
1 AGCAGACAAAAGAAACCAATTCTATCTCCTTGAAGTTGCAGCAGAGTGGATTAAAACCACAGACC
* *
13004476 TTATCTCTCCGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
66 GTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
* ** *
13004540 AGCAGACGAAAGAAACCAATTCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATC
1 AGCAGACAAAAGAAACCAATTCTATCTCCTTGAAGTTGCAGCAGAGTGGATTAAAACCACAGACC
* * * * * *
13004605 TTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTTG
66 GTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
* * * * * *
13004669 AGCAGACAAAAGAAACCAATT-TCGTC-CCTTTGAATTTGTAGCAGAGTGGATTGAAGCTACATG
1 AGCAGACAAAAGAAACCAATTCT-ATCTCC-TTGAAGTTGCAGCAGAGTGGATTAAAACCACA-G
13004732 -CCGTATCTCTCTGAAG-TGCAG
63 ACCGTATCTCTCTGAAGTTGCAG
13004753 CGGAGTGGAT
Statistics
Matches: 187, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
128 7 0.04
129 179 0.96
130 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (129 bp):
AGCAGACAAAAGAAACCAATTCTATCTCCTTGAAGTTGCAGCAGAGTGGATTAAAACCACAGACC
GTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCATGAAGTTGCAGTGG
Found at i:13006343 original size:16 final size:17
Alignment explanation
Indices: 13006318--13006350 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13006308 TTATACACAC
*
13006318 ATATTCTTATACTTTTT
1 ATATTCTTATAATTTTT
13006335 ATATT-TTATAATTTTT
1 ATATTCTTATAATTTTT
13006351 GTATACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTCTTATAATTTTT
Found at i:13006733 original size:26 final size:25
Alignment explanation
Indices: 13006704--13006757 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
13006694 TCCACATACA
*
13006704 TATATATACATATTTATATATCTTTT
1 TATATATACATATTTATAT-TCATTT
* * *
13006730 TATATTTTCATATTTTTATTCATTT
1 TATATATACATATTTATATTCATTT
13006755 TAT
1 TAT
13006758 TTATTCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATATACATATTTATATTCATTT
Found at i:13006751 original size:12 final size:12
Alignment explanation
Indices: 13006744--13006774 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
13006734 TTTTCATATT
13006744 TTTATTCATTTTA
1 TTTATTCA-TTTA
13006757 TTTATTCATTTA
1 TTTATTCATTTA
13006769 TTTATT
1 TTTATT
13006775 TACATTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATTCATTTA
Found at i:13006764 original size:25 final size:25
Alignment explanation
Indices: 13006712--13006774 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
13006702 CATATATATA
* *
13006712 CATATTTATATATCTTTTTATATTTT
1 CATATTTTTAT-TCATTTTATATTTT
13006738 CATATTTTTATTCATTTTAT-TTATT
1 CATATTTTTATTCATTTTATATT-TT
13006763 CAT-TTATTTATT
1 CATATT-TTTATT
13006775 TACATTGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 4 0.12
25 19 0.58
26 10 0.30
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (25 bp):
CATATTTTTATTCATTTTATATTTT
Found at i:13007889 original size:13 final size:13
Alignment explanation
Indices: 13007871--13007895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13007861 ACACACTTTT
13007871 AAATTTAATAAAA
1 AAATTTAATAAAA
13007884 AAATTTAATAAA
1 AAATTTAATAAA
13007896 TAATTAGACC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTTAATAAAA
Found at i:13009277 original size:24 final size:24
Alignment explanation
Indices: 13009245--13009291 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
13009235 AGCTATATTT
13009245 GCATTCCCATGCGCTCCACGTGTC
1 GCATTCCCATGCGCTCCACGTGTC
* *
13009269 GCATTCCCATGCTCTCCGCGTGT
1 GCATTCCCATGCGCTCCACGTGT
13009292 TTCTCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.11, C:0.40, G:0.21, T:0.28
Consensus pattern (24 bp):
GCATTCCCATGCGCTCCACGTGTC
Found at i:13010397 original size:115 final size:117
Alignment explanation
Indices: 13010263--13010497 Score: 429
Period size: 115 Copynumber: 2.0 Consensus size: 117
13010253 GAAGTAGCAA
13010263 TAGTTAAAATTAATAATCCTAATCCTATAACAATATTTTAATCAATTAGCTAACAAATGAGTTGT
1 TAGTTAAAATTAATAATCCTAATCCTATAACAATATTTTAATCAATTAGCTAACAAATGAGTTGT
13010328 GG-TTTCTTT-TTTTTTTTTTTGCATTAGAAGAGTGAAATAATCCTAACCAG
66 GGTTTTCTTTCTTTTTTTTTTTGCATTAGAAGAGTGAAATAATCCTAACCAG
13010378 TAGTTAAAATTAATAATCCTAATCCTATAACAATATTTTAATCAATTAGCTAACAAATGAGTTGT
1 TAGTTAAAATTAATAATCCTAATCCTATAACAATATTTTAATCAATTAGCTAACAAATGAGTTGT
13010443 GGTTTCTTTCTTTCTTTTTTTTTTTGCATTAGAAGAGTGAAATAATCCTAACCAG
66 GG--T-TTTCTTTCTTTTTTTTTTTGCATTAGAAGAGTGAAATAATCCTAACCAG
13010498 ACCTAAAAAT
Statistics
Matches: 115, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
115 67 0.58
119 7 0.06
120 41 0.36
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (117 bp):
TAGTTAAAATTAATAATCCTAATCCTATAACAATATTTTAATCAATTAGCTAACAAATGAGTTGT
GGTTTTCTTTCTTTTTTTTTTTGCATTAGAAGAGTGAAATAATCCTAACCAG
Found at i:13013038 original size:31 final size:31
Alignment explanation
Indices: 13013003--13013062 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
13012993 GTGTGCAATC
13013003 ATATACACAAATTTTAATTTT-ATACAATTAT
1 ATATACA-AAATTTTAATTTTGATACAATTAT
* *
13013034 ATATATAAAATTTTAATTTTGATTCAATT
1 ATATACAAAATTTTAATTTTGATACAATT
13013063 TTCCCGTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (31 bp):
ATATACAAAATTTTAATTTTGATACAATTAT
Found at i:13015994 original size:16 final size:16
Alignment explanation
Indices: 13015973--13016003 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13015963 GTTTCACTTT
*
13015973 GACTGCATGGCATTTA
1 GACTGCATGACATTTA
13015989 GACTGCATGACATTT
1 GACTGCATGACATTT
13016004 CATTATAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (16 bp):
GACTGCATGACATTTA
Found at i:13019329 original size:13 final size:13
Alignment explanation
Indices: 13019308--13019340 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
13019298 AAAAATGATG
13019308 AAATGAAAATGAA
1 AAATGAAAATGAA
*
13019321 AAGTGAAAATGAA
1 AAATGAAAATGAA
13019334 AAATGAA
1 AAATGAA
13019341 GAACGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:13020701 original size:44 final size:44
Alignment explanation
Indices: 13020646--13022337 Score: 1678
Period size: 44 Copynumber: 38.4 Consensus size: 44
13020636 GTTGAAAAGC
* * * * *
13020646 AGCAAATCTTGTCTTTATGTATTGACATGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * * *
13020690 AGCAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAAAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* * *
13020735 AGTAGATCTTGTCTTTATGTATTGGCATGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * *
13020779 AACAGATCTTGTCTTCATGTATTGGCATAAAGTAGATCG-AGTACA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-A-A
*** * * * *
13020824 A-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAACGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
*
13020868 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * *
13020912 AGCAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
13020956 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-A
* *** * * *
13021001 A-CAGATCTTGTTTTCCCATATTGGTGGCGAAATAGATCAGAA-AA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC-GAAGAA
* * * *
13021045 AGTAGATCATGTATTCATGTATTGACGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * *
13021089 AACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCCAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * *
13021133 AGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCCAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
*
13021177 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
13021221 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-A
* * * *
13021266 A-CAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
13021309 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * * *
13021353 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* *** * * *
13021396 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
*
13021441 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * * *
13021485 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* *** * * *
13021528 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
*
13021573 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * * *
13021617 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* *** * * *
13021660 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
*
13021705 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * * *
13021749 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* *** * * *
13021792 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
*
13021837 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * * *
13021881 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* *** * * *
13021924 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
*
13021969 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * * ** * *
13022013 AGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAAG-A
1 AGCAGATCTTGTCTTCATGTATTG-GCGTGAAGTAGATCGAAGAA
*** * * *
13022056 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAA-AA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC-GAAGAA
*
13022101 AACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
13022145 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG-AGTACA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-A-A
*** * * *
13022190 A-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
13022234 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * *
13022278 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGAG
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
13022322 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
13022338 CCATACTGGT
Statistics
Matches: 1369, Mismatches: 240, Indels: 78
0.81 0.14 0.05
Matches are distributed among these distances:
43 146 0.11
44 949 0.69
45 268 0.20
46 6 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
Found at i:13021228 original size:132 final size:134
Alignment explanation
Indices: 13020646--13022365 Score: 2028
Period size: 132 Copynumber: 13.0 Consensus size: 134
13020636 GTTGAAAAGC
* * * * * *
13020646 AGCAAATCTTGTCTTTATGTATTGACATGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* ** * * * ** ***
13020711 CTGGTGGCGAAGTAGATCGAAAAAAGTAGATCTTGTCTTTATGTATTGG-CATGAAGTAGATCG-
66 TTGGCAG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGC
13020774 AAGAA
130 AAGAA
* * * * * *
13020779 AACAGATCTTGTCTTCATGTATTGGCATAAAGTAGATCG-AGTACAACAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-ATAGCAGATCTTGTCTTCCTAT
* ** * ** * *
13020843 ACTGGTGGCGAAGTAGAACGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
65 ATTGGCAG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCG
*
13020907 -AAGAT
129 CAAGAA
* * * * * *
13020912 AGCAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * *
13020977 TTGGC-GTGAAGTAGATCAAAGATAA-CAGATCTTGTTTTCCCATATTGGTGGCGAAATAGATCA
66 TTGGCAG-GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATC-
13021040 G-AA-AA
128 GCAAGAA
* * * * * * * *
13021045 AGTAGATCATGTATTCATGTATTGACGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * ** ***
13021110 TTGGCATGAAGTAGATCCAAGAAAGTAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATC-CA
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13021173 AGAA
131 AGAA
* * * *
13021177 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGAAAGCAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* *
13021242 TTGGC-GTGAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATATATTGGT-GTGAAGTAGATC-
66 TTGGCAG-GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCG
* *
13021303 AAAGAT
129 CAAGAA
* * *
13021309 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * *
13021374 TTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC-
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13021437 AGAA
131 AGAA
* *
13021441 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * *
13021506 TTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC-
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13021569 AGAA
131 AGAA
* *
13021573 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * *
13021638 TTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC-
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13021701 AGAA
131 AGAA
* *
13021705 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * *
13021770 TTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC-
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13021833 AGAA
131 AGAA
* *
13021837 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * *
13021902 TTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC-
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13021965 AGAA
131 AGAA
* * *
13021969 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
** * * * * *
13022034 TTGATAGGAAGTGGATCCAAG-AAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGA
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13022098 A-AA
131 AGAA
* * * *
13022101 AACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* *
13022166 TTGGC-GTGAAGTAGATCG-AGTACAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
66 TTGGCAG-GAAGTAGATCGAAG-A-AAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATC
13022228 G-AAGAA
128 GCAAGAA
* * *
13022234 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
* * * * *
13022299 TTGGCATGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG-A
66 TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
13022363 AGA
131 AGA
13022366 TACAAGTCTT
Statistics
Matches: 1451, Mismatches: 111, Indels: 50
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.00
131 27 0.02
132 975 0.67
133 439 0.30
134 9 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (134 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA
TTGGCAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATATTGGTGGCGAAGTAGATCGCA
AGAA
Found at i:13032762 original size:14 final size:14
Alignment explanation
Indices: 13032730--13032773 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
13032720 ACAAATATTG
13032730 AAAAAAATAAGAAATT
1 AAAAAAATAA-AAA-T
13032746 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
*
13032760 AAAAAAATGAAAAT
1 AAAAAAATAAAAAT
13032774 GACTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 14 0.52
15 3 0.11
16 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:13033882 original size:31 final size:31
Alignment explanation
Indices: 13033844--13033907 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
13033834 GCTATTCAAA
13033844 CAATGCCTTAGGTCATCCCTAAGCATCCCAC
1 CAATGCCTTAGGTCATCCCTAAGCATCCCAC
13033875 CAATGCCTTAGGTCATCCCTAAGCATCCCAC
1 CAATGCCTTAGGTCATCCCTAAGCATCCCAC
13033906 CA
1 CA
13033908 CACAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.22
Consensus pattern (31 bp):
CAATGCCTTAGGTCATCCCTAAGCATCCCAC
Found at i:13036600 original size:50 final size:49
Alignment explanation
Indices: 13036546--13036668 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
13036536 GAGGGCCCCC
* * *
13036546 GTAAGACCCTGTTTGGGACATGGCATAGGC-ATCGATATGAGAAC-TCCCAT
1 GTAAGACCATGTTTGGGACATGGCATAGGCAAT--ACAGGA-AACATCCCAT
* * * * *
13036596 GTAAGACCATATCTGGGAAATAGCATTGGCAATACAGGAAACATCCCAT
1 GTAAGACCATGTTTGGGACATGGCATAGGCAATACAGGAAACATCCCAT
*
13036645 GTAAGGCCATGTTTGGGACATGGC
1 GTAAGACCATGTTTGGGACATGGC
13036669 TTTGGCATGT
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
48 3 0.05
49 29 0.50
50 24 0.41
51 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTTTGGGACATGGCATAGGCAATACAGGAAACATCCCAT
Found at i:13037490 original size:17 final size:19
Alignment explanation
Indices: 13037468--13037504 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13037458 AGGCAAAGGA
13037468 ATTTT-ATATTA-TGAGAT
1 ATTTTAATATTAGTGAGAT
*
13037485 ATTTTAATTTTAGTGAGAT
1 ATTTTAATATTAGTGAGAT
13037504 A
1 A
13037505 GGGTCAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (19 bp):
ATTTTAATATTAGTGAGAT
Found at i:13037965 original size:42 final size:42
Alignment explanation
Indices: 13037906--13037991 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
13037896 TCACTATGAG
13037906 TTTCTTGTGATGCCATTTGGTTTGACTAATGCTCCTGCCATA
1 TTTCTTGTGATGCCATTTGGTTTGACTAATGCTCCTGCCATA
*
13037948 TTTCTTGTGATTCCATTTGGTTTGACTAATGCTCCTGCCATA
1 TTTCTTGTGATGCCATTTGGTTTGACTAATGCTCCTGCCATA
13037990 TT
1 TT
13037992 CATGGATTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTCTTGTGATGCCATTTGGTTTGACTAATGCTCCTGCCATA
Found at i:13040665 original size:17 final size:19
Alignment explanation
Indices: 13040643--13040679 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13040633 AGACAAAGGA
13040643 ATTTT-ATATTA-TGAGAT
1 ATTTTAATATTAGTGAGAT
*
13040660 ATTTTAATTTTAGTGAGAT
1 ATTTTAATATTAGTGAGAT
13040679 A
1 A
13040680 GGGTCAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (19 bp):
ATTTTAATATTAGTGAGAT
Found at i:13042740 original size:15 final size:15
Alignment explanation
Indices: 13042720--13042751 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13042710 CATTTCACTA
*
13042720 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
13042735 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
13042750 TT
1 TT
13042752 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:13049140 original size:56 final size:56
Alignment explanation
Indices: 13049058--13049171 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
13049048 GTTATTAATC
13049058 TATAAAGTAATTTATTTCAATTCATTAGCCTCAATTTCATGTAATACTCAATTTAA
1 TATAAAGTAATTTATTTCAATTCATTAGCCTCAATTTCATGTAATACTCAATTTAA
* *
13049114 TATAAAGTAATTTATTTCAATTCATTAGCCTCAATTTTATGTAATATTCAATTTAA
1 TATAAAGTAATTTATTTCAATTCATTAGCCTCAATTTCATGTAATACTCAATTTAA
13049170 TA
1 TA
13049172 ACTATATCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (56 bp):
TATAAAGTAATTTATTTCAATTCATTAGCCTCAATTTCATGTAATACTCAATTTAA
Found at i:13053508 original size:39 final size:39
Alignment explanation
Indices: 13053454--13053532 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
13053444 CGCATACTCT
13053454 TCAATCACATCTATCTCCATCTCTTTTAGTACTTTTAGC
1 TCAATCACATCTATCTCCATCTCTTTTAGTACTTTTAGC
*
13053493 TCAATCACATCTATCTCTATCTCTTTTAGTACTTTTAGC
1 TCAATCACATCTATCTCCATCTCTTTTAGTACTTTTAGC
13053532 T
1 T
13053533 TAGTTCTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.05, T:0.46
Consensus pattern (39 bp):
TCAATCACATCTATCTCCATCTCTTTTAGTACTTTTAGC
Found at i:13056558 original size:15 final size:15
Alignment explanation
Indices: 13056538--13056566 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13056528 CTAACTTCTT
13056538 GCAATAGCAACATCA
1 GCAATAGCAACATCA
13056553 GCAATAGCAACATC
1 GCAATAGCAACATC
13056567 TCTTGTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.14
Consensus pattern (15 bp):
GCAATAGCAACATCA
Found at i:13063863 original size:41 final size:41
Alignment explanation
Indices: 13063708--13063851 Score: 225
Period size: 41 Copynumber: 3.5 Consensus size: 41
13063698 ATCGGCACTT
*
13063708 AGCCTGCTAGACATAAAGTCTGATATGTTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCTGGTATGTTTCACCGGCATCA
* * *
13063749 AGCCTGCTAGACGTAAAGTATGGTATGTTTCACCGGTATCA
1 AGCCTGCTAGACATAAAGTCTGGTATGTTTCACCGGCATCA
* *
13063790 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCTGGTATGTTTCACCGGCATCA
*
13063831 AGCCTGCTAGACATAATGTCT
1 AGCCTGCTAGACATAAAGTCT
13063852 AGATTACTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGGTATGTTTCACCGGCATCA
Found at i:13071671 original size:114 final size:114
Alignment explanation
Indices: 13071471--13071683 Score: 381
Period size: 114 Copynumber: 1.9 Consensus size: 114
13071461 AAAGTAGATG
* * *
13071471 AACCTTGTGTTTACAAATGTTTAGGGGATGAAAAGATGGTCTTTCTCGTTCTATATGTCGATGAC
1 AACCTTGTGTTTACAAATGCTTAGGGGATGAAAAGATGGTCTTTCTCATTCGATATGTCGATGAC
*
13071536 ATTCTACTAATTGGGAATGATGTAGGGACCTTTCGATTAATTTGTGGTT
66 ATTCTACTAATTGGAAATGATGTAGGGACCTTTCGATTAATTTGTGGTT
*
13071585 AACCTTGTGTTTACAAATGCTTAGGGGATGGAAAGATGGTCTTTCTCATTCGATATGTCGATGAC
1 AACCTTGTGTTTACAAATGCTTAGGGGATGAAAAGATGGTCTTTCTCATTCGATATGTCGATGAC
13071650 ATTCTACTAATTGGAAATGATGTAGGGACCTTTC
66 ATTCTACTAATTGGAAATGATGTAGGGACCTTTC
13071684 AACTACATTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (114 bp):
AACCTTGTGTTTACAAATGCTTAGGGGATGAAAAGATGGTCTTTCTCATTCGATATGTCGATGAC
ATTCTACTAATTGGAAATGATGTAGGGACCTTTCGATTAATTTGTGGTT
Found at i:13074489 original size:105 final size:98
Alignment explanation
Indices: 13074319--13074517 Score: 274
Period size: 105 Copynumber: 2.0 Consensus size: 98
13074309 TGCAGTAATT
* *
13074319 CTTTATAGAACAATCTAGGAATATAAAATGAGAATAAAAAGAAACTTTTTATGTGTTTTTGTAGT
1 CTTTATAGAACAATCTAGGAATATAAAATGAGAATAAAAAGAAACTTTTGATGTGTTTTTCTAGT
* *
13074384 GTGCCAGGCAAATGAAATTTGGCTCCTATAAAA
66 GTACCAAGCAAATGAAATTTGGCTCCTATAAAA
13074417 CTTTATAGAACAATCTAGGAATATAAAAGATTGTGCGAGAATAGAAAA-AAACTTTTGATGTGTT
1 CTTTATAGAACAATCTAGGAATAT-AAA-A---T--GAGAATA-AAAAGAAACTTTTGATGTGTT
*
13074481 TTTCTAGTGTATCAAGCAAATGAAATTTGGCTCCTAT
58 TTTCTAGTGTACCAAGCAAATGAAATTTGGCTCCTAT
13074518 TTATAAAAAT
Statistics
Matches: 88, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
98 24 0.27
99 3 0.03
100 1 0.01
103 1 0.01
105 55 0.62
106 4 0.05
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (98 bp):
CTTTATAGAACAATCTAGGAATATAAAATGAGAATAAAAAGAAACTTTTGATGTGTTTTTCTAGT
GTACCAAGCAAATGAAATTTGGCTCCTATAAAA
Found at i:13078001 original size:26 final size:26
Alignment explanation
Indices: 13077934--13078002 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
13077924 GAGCAATCGC
*
13077934 AAATAATTATAAAATAGAATTAAATTAAT
1 AAATAA-TA-AAAAT-GAATTAAATTAAA
* *
13077963 ATA-AATCACAAATGAATTAAATTAAA
1 AAATAAT-AAAAATGAATTAAATTAAA
13077989 AAATAATAAAAATG
1 AAATAATAAAAATG
13078003 TTAAGAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
26 20 0.61
27 8 0.24
28 3 0.09
29 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (26 bp):
AAATAATAAAAATGAATTAAATTAAA
Found at i:13078410 original size:35 final size:36
Alignment explanation
Indices: 13078342--13078417 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
13078332 TTTGAATTTA
* *
13078342 AATACTCTATGACCCAATATTTCAACATTTATTAAC
1 AATACTCTAAGACCCAATATTTCAACATATATTAAC
* * *
13078378 AATA-TCTAAGACCCAATATTTGAGCCTATATTAAC
1 AATACTCTAAGACCCAATATTTCAACATATATTAAC
*
13078413 CATAC
1 AATAC
13078418 CAAAGTTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.33
Consensus pattern (36 bp):
AATACTCTAAGACCCAATATTTCAACATATATTAAC
Found at i:13082236 original size:37 final size:40
Alignment explanation
Indices: 13082140--13082278 Score: 113
Period size: 40 Copynumber: 3.5 Consensus size: 40
13082130 AACACACCAG
* * **
13082140 TTTGGCACCCAGTGCCTAATCGGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCAGATAAACCGAAGTAATAA
* * *
13082180 TTTGACACCCAGTGTCTCATCAGTTAAACCGAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCAGATAAACCGAAGTAATAA
* * * *
13082218 -TTGGCACCCAGTGCCTCATCGGATTAATCTGAAGTAGTAA
1 TTTGGCACCCAGTGCCTCATCAGA-TAAACCGAAGTAATAA
* * * *
13082258 ATTGACACCAAGTGTCTCATC
1 TTTGGCACCCAGTGCCTCATC
13082279 GACTCAAAGT
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 19 0.24
38 11 0.14
39 1 0.01
40 30 0.38
41 17 0.22
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (40 bp):
TTTGGCACCCAGTGCCTCATCAGATAAACCGAAGTAATAA
Found at i:13082277 original size:41 final size:41
Alignment explanation
Indices: 13082145--13082279 Score: 129
Period size: 41 Copynumber: 3.4 Consensus size: 41
13082135 ACCAGTTTGG
* * * *
13082145 CACCCAGTGCCTAATCGGA-TAAT-TCGAAGTAATAATTTGA
1 CACCCAGTGTCTCATCGGATTAATCT-GAAGTAGTAAATTGA
* * * *
13082185 CACCCAGTGTCTCATCAG-TTAAACCG-A--AGTAAATTGG
1 CACCCAGTGTCTCATCGGATTAATCTGAAGTAGTAAATTGA
*
13082222 CACCCAGTGCCTCATCGGATTAATCTGAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGGATTAATCTGAAGTAGTAAATTGA
*
13082263 CACCAAGTGTCTCATCG
1 CACCCAGTGTCTCATCG
13082280 ACTCAAAGTC
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 23 0.31
38 6 0.08
39 2 0.03
40 19 0.26
41 24 0.32
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCCAGTGTCTCATCGGATTAATCTGAAGTAGTAAATTGA
Found at i:13082483 original size:24 final size:24
Alignment explanation
Indices: 13082438--13082484 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13082428 TATATATACC
13082438 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
13082462 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
13082485 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:13083179 original size:24 final size:23
Alignment explanation
Indices: 13083151--13083199 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13083141 TGTGGCTTTC
13083151 TTCTTCCTTTCCTTCCTTTCTCTT
1 TTCTTCCTTT-CTTCCTTTCTCTT
* * *
13083175 TTCTTTCTTTCTTTCTTTTTCTT
1 TTCTTCCTTTCTTCCTTTCTCTT
13083198 TT
1 TT
13083200 TGTTTCGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (23 bp):
TTCTTCCTTTCTTCCTTTCTCTT
Found at i:13083181 original size:4 final size:4
Alignment explanation
Indices: 13083146--13083225 Score: 58
Period size: 4 Copynumber: 20.0 Consensus size: 4
13083136 AAGGCTGTGG
* * *
13083146 CTTT C-TT CTTC CTTT CCTTC CTTT CTCT -TTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* * *
13083193 -TTCT TTTT GTTT CGTTT CTAT CTTT CTTT CTTT
1 CTT-T CTTT CTTT C-TTT CTTT CTTT CTTT CTTT
13083226 TTATTTATTC
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
3 7 0.12
4 44 0.73
5 9 0.15
ACGTcount: A:0.01, C:0.26, G:0.03, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:13092020 original size:21 final size:21
Alignment explanation
Indices: 13091981--13092021 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13091971 ATAAAATACA
**
13091981 AAAAAAGAACAAATTTTGTAC
1 AAAAAAGAACAAACATTGTAC
*
13092002 AAAAAAGAAGAAACATTGTA
1 AAAAAAGAACAAACATTGTA
13092022 ATCAATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.07, G:0.12, T:0.20
Consensus pattern (21 bp):
AAAAAAGAACAAACATTGTAC
Found at i:13094781 original size:22 final size:22
Alignment explanation
Indices: 13094756--13094797 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13094746 GTGTAGTAAG
*
13094756 ACTTTCTGCTTCTGCTTTGGTT
1 ACTTTCTACTTCTGCTTTGGTT
13094778 ACTTTCTACTTCTGCTTTGG
1 ACTTTCTACTTCTGCTTTGG
13094798 CTCCAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.24, G:0.17, T:0.52
Consensus pattern (22 bp):
ACTTTCTACTTCTGCTTTGGTT
Found at i:13102192 original size:16 final size:17
Alignment explanation
Indices: 13102153--13102198 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
13102143 CCAAATTTTA
*
13102153 AAATTC-CCAACTCGTC
1 AAATTCTCCAAATCGTC
*
13102169 AAATTCTCCAAATCGTG
1 AAATTCTCCAAATCGTC
13102186 AAA-TCTCCAAATC
1 AAATTCTCCAAATC
13102199 TATAACATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (17 bp):
AAATTCTCCAAATCGTC
Found at i:13103393 original size:16 final size:16
Alignment explanation
Indices: 13103356--13103386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13103346 ATATGATTAG
13103356 CCTATACACCATTCAC
1 CCTATACACCATTCAC
*
13103372 CCTATACATCATTCA
1 CCTATACACCATTCA
13103387 TGCTATATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (16 bp):
CCTATACACCATTCAC
Found at i:13106526 original size:33 final size:33
Alignment explanation
Indices: 13106415--13106557 Score: 110
Period size: 33 Copynumber: 4.3 Consensus size: 33
13106405 GTAGCAGACA
* * * * * *
13106415 CACCCTCCCTATCAGCTTGTACACCTCCTACAG
1 CACCCTCCCCATCAACTTCTACCCCTCCAACAT
* * * **
13106448 CACCTTCCCCAACAAATTCTACCATTTCCAA-AT
1 CACCCTCCCCATCAACTTCTACC-CCTCCAACAT
* * * *
13106481 TACCTTCACCATC-ACATTCTACCCCTCCATCAT
1 CACCCTCCCCATCAAC-TTCTACCCCTCCAACAT
*
13106514 CACCCTCCCCATCAACTTCTACCCCTTCAACAT
1 CACCCTCCCCATCAACTTCTACCCCTCCAACAT
13106547 CACCCTCCCCA
1 CACCCTCCCCA
13106558 CCAGTCTACA
Statistics
Matches: 83, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
32 5 0.06
33 72 0.87
34 6 0.07
ACGTcount: A:0.25, C:0.48, G:0.02, T:0.25
Consensus pattern (33 bp):
CACCCTCCCCATCAACTTCTACCCCTCCAACAT
Found at i:13107151 original size:7 final size:7
Alignment explanation
Indices: 13107139--13107171 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
13107129 CTGAAATTGC
13107139 AATAACA
1 AATAACA
13107146 AATAACA
1 AATAACA
13107153 AATAACA
1 AATAACA
*
13107160 AATAACC
1 AATAACA
13107167 AATAA
1 AATAA
13107172 ACCAAGCCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAACA
Found at i:13107401 original size:16 final size:16
Alignment explanation
Indices: 13107354--13107398 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
13107344 GAATGCTAAC
13107354 GATTTAAGGATTTCAA
1 GATTTAAGGATTTCAA
**
13107370 GATTTGGGGATTTCAA
1 GATTTAAGGATTTCAA
13107386 GATTTTAAGGATT
1 GA-TTTAAGGATT
13107399 CAACAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (16 bp):
GATTTAAGGATTTCAA
Done.