Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 143 of 214
Found at i:43041338 original size:231 final size:229
Alignment explanation
Indices: 43040304--43041362 Score: 1081
Period size: 221 Copynumber: 4.6 Consensus size: 229
43040294 AAGCCTTTTA
* * *
43040304 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGT
1 ATTTATGTTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
* * **
43040369 AATTTCAATTTCTGTTGT-CAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
66 AATTTCAATTACTGTTTTGC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * ** * *
43040433 ACGCTGAGGTAATTTCAATTTTTGTTTTTC---AAAATCAACTCATATTGCTAGAGGTGAGTTGA
129 ACGCTGAGGTATTTTCAAATTCTGACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGA
* * * *
43040495 GCCTCAGGACACGCTGAGGTAATTTCAATTTCTG--
194 GCCTCAAGACACGTTGAGGTACTTTCAATTCCTGTT
***** * **
43040529 ---T-TGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTATGTTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
** * *
43040590 AATTTCAATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACAC
66 AATTTCAATTACTGTTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * *
43040654 GCTGAGTTAATTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
131 GCTGAGGTATTTTCAAATTCTGACTT-TCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAG
* * *
43040717 CCTCAAGACACATTGAGGTATTTTCAATTTCTGCTT
195 CCTCAAGACACGTTGAGGTACTTTCAATTCCTG-TT
* * * * *
43040753 -TTCAAG------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTATGTTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
* *
43040811 ATTTTCAATTCCTGTTCAATTTATGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 AATTTCAATTACTG-----TTT-TG-----CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* ** * * * *
43040875 CCTCAAGACACATTGAGGTATTTTCAATTTCTGATTTTCAAGAAAATCAACTCATATTGCGAGAG
120 CCTCAGGACACGCTGAGGTATTTTCAAATTCTGACTTTCAAAAAAATCAACTCATATTGCGAAAG
*
43040940 GTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCTGTT
185 GTGAGTTGAGCCTCAAGACACGTTGAGGTACTTTCAATTCCTGTT
*
43040985 CAATTTATGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 --ATTTATGTTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * * *
43041050 GTAATTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGG
64 GTAATTTCAATTACTG-TTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
43041115 CACGCCGAGGTATTTTCAAATTCT-ACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG
128 CACGCTGAGGTATTTTCAAATTCTGACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTG
** * *
43041179 AGCCT-TGGCTCACGTGTTGA-GTCACTTTCAATTTCTGTT
193 AGCCTCAAG-ACAC--GTTGAGGT-ACTTTCAATTCCTGTT
* * *
43041218 -TTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 ATTTATG--T-TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * * *
43041282 GGTATTTTCAATTACTG-TTTGGAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGA
63 GGTAATTTCAATTACTGTTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
43041346 CATGCTGAGGTATTTTC
128 CACGCTGAGGTATTTTC
43041363 CGATTCTATT
Statistics
Matches: 716, Mismatches: 77, Indels: 76
0.82 0.09 0.09
Matches are distributed among these distances:
217 2 0.00
218 2 0.00
219 61 0.09
221 187 0.26
222 2 0.00
226 3 0.00
227 2 0.00
230 7 0.01
231 102 0.14
232 124 0.17
233 152 0.21
234 2 0.00
235 4 0.01
236 1 0.00
237 3 0.00
241 62 0.09
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (229 bp):
ATTTATGTTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTCAATTACTGTTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAAATTCTGACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
CTCAAGACACGTTGAGGTACTTTCAATTCCTGTT
Found at i:43043219 original size:18 final size:18
Alignment explanation
Indices: 43043196--43043233 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43043186 CCGGATTCCC
*
43043196 CTCTCTTCTCTCTCCCTT
1 CTCTCTTCCCTCTCCCTT
*
43043214 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
43043232 CT
1 CT
43043234 TTTTTTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:43043231 original size:11 final size:12
Alignment explanation
Indices: 43043200--43043232 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
43043190 ATTCCCCTCT
43043200 CTTCTCTC-TCC
1 CTTCTCTCTTCC
43043211 CTTCTCTCTTCC
1 CTTCTCTCTTCC
43043223 C-TCTCTCTTC
1 CTTCTCTCTTC
43043233 TTTTTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:43043716 original size:3 final size:3
Alignment explanation
Indices: 43043693--43043762 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
43043683 AATATCCTTG
* * **
43043693 TTA TT- TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
43043739 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
43043763 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:43043759 original size:23 final size:22
Alignment explanation
Indices: 43043705--43043765 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
43043695 ATTTTATATT
*
43043705 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
43043726 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
*
43043748 ATATATTTTTATTATGTA
1 AT-TATTATTATTATGTA
43043766 CGTGTATAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:43043772 original size:23 final size:23
Alignment explanation
Indices: 43043728--43043773 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43043718 GTATTACCAT
*
43043728 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
43043751 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
43043774 GCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:43055427 original size:18 final size:19
Alignment explanation
Indices: 43055404--43055480 Score: 69
Period size: 18 Copynumber: 4.3 Consensus size: 19
43055394 ACATATATGT
43055404 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
43055422 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
43055441 ATAAT-ATAGT---AATAA
1 ATAATAATAGTGAAAATAA
* *
43055456 AT-ATAATAGTAAAAAAAA
1 ATAATAATAGTGAAAATAA
43055474 GATAATA
1 -ATAATA
43055481 CTATATGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
14 2 0.04
15 12 0.24
18 24 0.48
19 9 0.18
20 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:43055628 original size:26 final size:26
Alignment explanation
Indices: 43055568--43055632 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
43055558 TACGAAGAAG
*
43055568 TATATATAATATAATAATAATATTAA
1 TATAAATAATATAATAATAATATTAA
*
43055594 AATACAATAAT-TAA-AAGTAATATTATA
1 TATA-AATAATATAATAA-TAATATTA-A
43055621 TATAAAT-ATATA
1 TATAAATAATATA
43055633 CAATATTCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 9 0.28
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
TATAAATAATATAATAATAATATTAA
Found at i:43056192 original size:20 final size:19
Alignment explanation
Indices: 43056169--43056214 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
43056159 GGGAGGAGGA
*
43056169 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
43056189 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
43056208 GGGAGAG
1 GGGAGAG
43056215 CTCCGGCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:43056473 original size:69 final size:69
Alignment explanation
Indices: 43056362--43056510 Score: 280
Period size: 69 Copynumber: 2.2 Consensus size: 69
43056352 AAGTAAAAAA
43056362 TTTGGATTTTTGCGCATAAAATCGAAAAGAAACAGAACGGAAAAAATCAATAATCACCTCAGTTT
1 TTTGGATTTTTGCGCATAAAATCGAAAAGAAACAGAACGGAAAAAATCAATAATCACCTCAGTTT
43056427 TAAC
66 TAAC
*
43056431 TTTGGATTTTTGCGCGTAAAATCGAAAAGAAACAGAACGGAAAAAATCAATAATCACCTCAGTTT
1 TTTGGATTTTTGCGCATAAAATCGAAAAGAAACAGAACGGAAAAAATCAATAATCACCTCAGTTT
43056496 TAAC
66 TAAC
*
43056500 TTTCGATTTTT
1 TTTGGATTTTT
43056511 AGCACATCGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
69 78 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (69 bp):
TTTGGATTTTTGCGCATAAAATCGAAAAGAAACAGAACGGAAAAAATCAATAATCACCTCAGTTT
TAAC
Found at i:43056870 original size:22 final size:22
Alignment explanation
Indices: 43056813--43056870 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
43056803 TACGAGGACT
* *
43056813 GTGGAGGTATGGGACTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
43056835 GTGGGGGTATGGGGCTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
43056857 GTGGGGGTATGGGG
1 GTGGGGGTATGGGG
43056871 TTGCTTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.03, G:0.55, T:0.29
Consensus pattern (22 bp):
GTGGGGGTATGGGGCTGTTGTA
Found at i:43065834 original size:24 final size:24
Alignment explanation
Indices: 43065807--43065854 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
43065797 ATTTTCGATG
*
43065807 AAAATACATA-AGATTTTATAAAAA
1 AAAATACATACA-AATTTATAAAAA
*
43065831 AAAATAGATACAAATTTATAAAAA
1 AAAATACATACAAATTTATAAAAA
43065855 TATTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAATACATACAAATTTATAAAAA
Found at i:43066531 original size:16 final size:16
Alignment explanation
Indices: 43066506--43066547 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
43066496 TATATAATAT
*
43066506 AATAAT-AAACTAATG
1 AATAATAAAACAAATG
*
43066521 TATAATAAAACAAATG
1 AATAATAAAACAAATG
43066537 AATAAGTAAAA
1 AATAA-TAAAA
43066548 GAAAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (16 bp):
AATAATAAAACAAATG
Found at i:43066583 original size:11 final size:10
Alignment explanation
Indices: 43066545--43066596 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
43066535 TGAATAAGTA
*
43066545 AAAGAAAAAG
1 AAAGAAACAG
*
43066555 AAAGAAACAA
1 AAAGAAACAG
43066565 AAACGAAACAG
1 AAA-GAAACAG
*
43066576 AAAGGAA-AG
1 AAAGAAACAG
43066585 AAAGAAA-AG
1 AAAGAAACAG
43066594 AAA
1 AAA
43066597 AAGGGAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 13 0.36
10 14 0.39
11 9 0.25
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAGAAACAG
Found at i:43066588 original size:9 final size:9
Alignment explanation
Indices: 43066545--43066616 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
43066535 TGAATAAGTA
43066545 AAAGAAAAAG
1 AAAG-AAAAG
*
43066555 AAAGAAACAA
1 AAAGAAA-AG
43066565 AAACGAAACAG
1 AAA-GAAA-AG
*
43066576 AAAGGAAAG
1 AAAGAAAAG
43066585 AAAGAAAAG
1 AAAGAAAAG
**
43066594 AAA-AAGGG
1 AAAGAAAAG
43066602 AAAGAAAAG
1 AAAGAAAAG
43066611 -AAGAAA
1 AAAGAAA
43066617 GAATGAGACG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 12 0.24
9 19 0.37
10 11 0.22
11 9 0.18
ACGTcount: A:0.74, C:0.04, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:43066606 original size:17 final size:18
Alignment explanation
Indices: 43066584--43066617 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
43066574 AGAAAGGAAA
43066584 GAAAGAAAAGAA-AAAGG
1 GAAAGAAAAGAAGAAAGG
43066601 GAAAGAAAAGAAGAAAG
1 GAAAGAAAAGAAGAAAG
43066618 AATGAGACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAGAAGAAAGG
Found at i:43066608 original size:30 final size:31
Alignment explanation
Indices: 43066551--43066619 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
43066541 AGTAAAAGAA
*
43066551 AAAGAAAG-AAACAAAAACGAAACAGAAAGG
1 AAAGAAAGAAAACAAAAACGAAACAGAAAAG
* * *
43066581 AAAGAAAGAAAAGAAAAAGGGAA-AGAAAAG
1 AAAGAAAGAAAACAAAAACGAAACAGAAAAG
43066611 -AAGAAAGAA
1 AAAGAAAGAA
43066620 TGAGACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.26
30 14 0.41
31 11 0.32
ACGTcount: A:0.72, C:0.04, G:0.23, T:0.00
Consensus pattern (31 bp):
AAAGAAAGAAAACAAAAACGAAACAGAAAAG
Found at i:43069421 original size:29 final size:29
Alignment explanation
Indices: 43069384--43069478 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 29
43069374 CAAATTCCGT
43069384 TATATATATACATACATACATTTTTATAA
1 TATATATATACATACATACATTTTTATAA
43069413 TATATATATACACGTACAT--ATTTTTATAA
1 TATATATATACA--TACATACATTTTTATAA
* * *
43069442 TTTATTTATATATATACATAC--TTATAT-A
1 --TATATATATACATACATACATTTTTATAA
43069470 TATATATAT
1 TATATATAT
43069479 TTATATTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
26 8 0.14
28 1 0.02
29 32 0.57
31 15 0.27
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.48
Consensus pattern (29 bp):
TATATATATACATACATACATTTTTATAA
Found at i:43069455 original size:2 final size:2
Alignment explanation
Indices: 43069448--43069529 Score: 71
Period size: 2 Copynumber: 42.0 Consensus size: 2
43069438 ATAATTTATT
* * *
43069448 TA TA TA TA TA CA TA CT- TA TA TA TA TA TA TA TT TA TA T- TT TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
43069489 TA -A TT TA TA TA CA TA TC TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43069530 CATTTTTTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
1 3 0.05
2 59 0.94
3 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43069599 original size:16 final size:16
Alignment explanation
Indices: 43069578--43069610 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43069568 ATATATATTT
*
43069578 TTTTATATTTTTTATA
1 TTTTATAATTTTTATA
43069594 TTTTATAATTTTTATA
1 TTTTATAATTTTTATA
43069610 T
1 T
43069611 ACATATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATAATTTTTATA
Found at i:43069776 original size:14 final size:15
Alignment explanation
Indices: 43069757--43069788 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
43069747 TATGTTATTG
43069757 ATTTATCTT-TTTTT
1 ATTTATCTTATTTTT
43069771 ATTTATCTTATTTTT
1 ATTTATCTTATTTTT
43069786 ATT
1 ATT
43069789 GTTGTTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTATCTTATTTTT
Found at i:43072890 original size:46 final size:46
Alignment explanation
Indices: 43072823--43073128 Score: 351
Period size: 46 Copynumber: 6.6 Consensus size: 46
43072813 TTTGAGTACT
* *
43072823 TCTGATCAAGTGACAAAGTGATAGGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
43072869 TCTGATCAAGAGACAAAGTGATAAGTGATAGTTTCGGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
43072915 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
43072967 TCTGATCAAGAGACAAAGTGATAAGTGATAGTTTCGGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
43073013 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
43073065 TCTGATCAAGAGACAAAGTG---A-T-A-AG--T-GGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
43073102 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
43073129 GCTACACTTA
Statistics
Matches: 227, Mismatches: 16, Indels: 38
0.81 0.06 0.14
Matches are distributed among these distances:
37 29 0.13
38 1 0.00
40 3 0.01
41 2 0.01
42 1 0.00
43 1 0.00
46 105 0.46
52 85 0.37
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (46 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:43072986 original size:98 final size:98
Alignment explanation
Indices: 43072829--43073091 Score: 472
Period size: 98 Copynumber: 2.7 Consensus size: 98
43072819 TACTTCTGAT
*
43072829 CAAGTGACAAAGTGATAGGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
43072894 TGATAGTTTCGGCTACACTTATCTGATCAAGTGA
65 TGATAGTTTCGGCTACACTTATCTGATCAAGTGA
* *
43072928 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
43072993 GATAGTTTCGGCTACACTTATCTGATCAAGTGA
66 GATAGTTTCGGCTACACTTATCTGATCAAGTGA
**
43073026 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
43073091 G
66 G
43073092 GCTACACTTA
Statistics
Matches: 157, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 151 0.96
99 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (98 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
GATAGTTTCGGCTACACTTATCTGATCAAGTGA
Found at i:43073099 original size:37 final size:37
Alignment explanation
Indices: 43073055--43073160 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
43073045 GATAGCTTTA
43073055 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
43073092 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
43073129 GCTACACTTATCTGATC-AGGGAC-AAGTGATAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAA
43073161 ATGATCATAC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 9 0.14
36 4 0.06
37 53 0.80
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:43081910 original size:40 final size:38
Alignment explanation
Indices: 43081847--43081959 Score: 129
Period size: 38 Copynumber: 2.9 Consensus size: 38
43081837 TGACCAAGGA
* * **
43081847 GAAAACTCGCAAAGGGCATTTTGAGTGCTAAAAAAAAGGT
1 GAAAACCCGTAAAGGGCGCTTTGAGT-CTAAAAAAAA-GT
* * *
43081887 GAAAACTCGTAAATGGTGCTTTGAGTCCT-AAAAAAAGT
1 GAAAACCCGTAAAGGGCGCTTTGAGT-CTAAAAAAAAGT
43081925 GAAAACCCGTAAAGGGCGCTTTGAGTCTAAAAAAA
1 GAAAACCCGTAAAGGGCGCTTTGAGTCTAAAAAAA
43081960 TAAAAAAATG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
37 2 0.03
38 31 0.49
39 7 0.11
40 23 0.37
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (38 bp):
GAAAACCCGTAAAGGGCGCTTTGAGTCTAAAAAAAAGT
Found at i:43081929 original size:38 final size:38
Alignment explanation
Indices: 43081842--43081959 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 38
43081832 AAAGATGACC
* * * **
43081842 AAGGAGAAAACTCGCAAAGGGCATTTTGAGTGCTAAAAAA
1 AAGGTGAAAACCCGTAAAGGGCGCTTTGAGT-CT-AAAAA
* * *
43081882 AAGGTGAAAACTCGTAAATGGTGCTTTGAGTCCTAAAAA
1 AAGGTGAAAACCCGTAAAGGGCGCTTTGAGT-CTAAAAA
43081921 AA-GTGAAAACCCGTAAAGGGCGCTTTGAGTCTAAAAA
1 AAGGTGAAAACCCGTAAAGGGCGCTTTGAGTCTAAAAA
43081958 AA
1 AA
43081960 TAAAAAAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 9 0.13
38 25 0.37
39 7 0.10
40 27 0.40
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (38 bp):
AAGGTGAAAACCCGTAAAGGGCGCTTTGAGTCTAAAAA
Found at i:43082970 original size:24 final size:24
Alignment explanation
Indices: 43082932--43082990 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
43082922 ATGTCCCAAA
* *
43082932 ATTACAAGCGGATTGAACCTTGAAG
1 ATTAC-AGTGGATTGAACCCTGAAG
43082957 ATTACAGTGGATTGAACCCTGAAG
1 ATTACAGTGGATTGAACCCTGAAG
43082981 ATTACAGTGG
1 ATTACAGTGG
43082991 GGGCAATCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCCTGAAG
Found at i:43083367 original size:88 final size:88
Alignment explanation
Indices: 43083269--43083552 Score: 433
Period size: 88 Copynumber: 3.2 Consensus size: 88
43083259 AGATTTAAGC
* * * ** *
43083269 CACCAACCTTATCTCCTTGAGCAGTAAAGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCTTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
* *
43083334 CTGGCAGTGAAGTAGATCGAAAG
66 CTAGCAGTGAAGTAGATCAAAAG
43083357 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
* *
43083422 CTTGCAGTGAAGTAGATCTAAAG
66 CTAGCAGTGAAGTAGATCAAAAG
* * *
43083445 CACAAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
*
43083510 CTAGCAGTGAAGTAGATCAAAAA
66 CTAGCAGTGAAGTAGATCAAAAG
*
43083533 CACCAGTCTTATCTCCCTGA
1 CACCAGCCTTATCTCCCTGA
43083553 AGTTGCAGTG
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 180 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (88 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
CTAGCAGTGAAGTAGATCAAAAG
Found at i:43083385 original size:43 final size:43
Alignment explanation
Indices: 43083337--43083479 Score: 110
Period size: 43 Copynumber: 3.3 Consensus size: 43
43083327 TCTTGTACTG
*
43083337 GCAGTGAAGTAGATCGAAAGCACCAGCCTTATCTCCCTGAGCA
1 GCAGTGAAGTAGATCGAAAGCACAAGCCTTATCTCCCTGAGCA
* * * *** * * * *
43083380 GCAGTGGAGTAGGTTGAAGAG-TGTAGATCTTGTCTTCCTGTA-CTT
1 GCAGTGAAGTAGATCGAA-AGCACAAG-CCTTATCTCCCTG-AGC-A
*
43083425 GCAGTGAAGTAGATCTAAAGCACAAGCCTTATCTCCCTGAGCA
1 GCAGTGAAGTAGATCGAAAGCACAAGCCTTATCTCCCTGAGCA
* *
43083468 ACAGTGGAGTAG
1 GCAGTGAAGTAG
43083480 GTTGAAGATT
Statistics
Matches: 71, Mismatches: 23, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
43 28 0.39
44 26 0.37
45 17 0.24
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (43 bp):
GCAGTGAAGTAGATCGAAAGCACAAGCCTTATCTCCCTGAGCA
Found at i:43083587 original size:43 final size:44
Alignment explanation
Indices: 43083539--43083656 Score: 168
Period size: 43 Copynumber: 2.7 Consensus size: 44
43083529 AAAACACCAG
43083539 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCAACAAA
* * **
43083582 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCAACAAA
*
43083626 TCCTATCTCCCT-AGAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGA
43083657 TTAAAACGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 37 0.54
44 31 0.46
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCAACAAA
Found at i:43083652 original size:176 final size:175
Alignment explanation
Indices: 43083297--43083613 Score: 429
Period size: 176 Copynumber: 1.8 Consensus size: 175
43083287 GAGCAGTAAA
* * * *
43083297 GGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCTTGTACTGGCAGTGAAGTAGATCGAAAGCACCA
1 GGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCAAAAACACCA
* ** ** * * * *
43083362 GCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTACTTGC
66 GCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGAG-ACAAATCTTATCTCCCTGAACTTGC
*
43083427 AGTGAAGTAGATCTAAAGCACAAGCCTTATCTCCCTGAGCAACAGT
130 AGTGAAGCAGATCTAAAGCACAAGCCTTATCTCCCTGAGCAACAGT
*
43083473 GGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCAAAAACACCA
1 GGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCAAAAACACCA
* ** *
43083538 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-ACAAATCTTATCTCCCTGAAGTTGC
66 GCCTTATCTCCCTG-AGCAGCAGTGGAGCAGACTGAAGAGACAAATCTTATCTCCCTGAACTTGC
*
43083602 AGTGGAGCAGAT
130 AGTGAAGCAGAT
43083614 TGAAGCTATT
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
175 28 0.23
176 73 0.61
177 19 0.16
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (175 bp):
GGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTACTAGCAGTGAAGTAGATCAAAAACACCA
GCCTTATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGAGACAAATCTTATCTCCCTGAACTTGCA
GTGAAGCAGATCTAAAGCACAAGCCTTATCTCCCTGAGCAACAGT
Found at i:43083672 original size:44 final size:42
Alignment explanation
Indices: 43083542--43083672 Score: 149
Period size: 44 Copynumber: 3.0 Consensus size: 42
43083532 ACACCAGTCT
* *
43083542 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAACA-AATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACATAATCC
* *
43083585 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-A-TAATCC
43083629 TATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAACGATGAATCC
1 TATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAAC-AT-AATCC
43083673 CATACCTCTG
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 30 0.39
44 41 0.54
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACATAATCC
Found at i:43083688 original size:44 final size:44
Alignment explanation
Indices: 43083543--43083688 Score: 140
Period size: 44 Copynumber: 3.3 Consensus size: 44
43083533 CACCAGTCTT
* **
43083543 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAC-A--AATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACGATGAATCCC
* * * * *
43083586 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATGAATCCC
43083630 ATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAACGATGAATCCC
1 ATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAACGATGAATCCC
*
43083674 ATAC-CTCTGAAGTTG
1 AT-CTCCCTGAAGTTG
43083689 TAGTAGGTCG
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 28 0.32
44 52 0.60
45 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATGAATCCC
Found at i:43085230 original size:11 final size:13
Alignment explanation
Indices: 43085216--43085247 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
43085206 ATTTCACAAA
43085216 AAAATTTCG-T-G
1 AAAATTTCGCTCG
43085227 AAAATTTCGCTCG
1 AAAATTTCGCTCG
43085240 AAAATTTC
1 AAAATTTC
43085248 AATGTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (13 bp):
AAAATTTCGCTCG
Found at i:43086511 original size:51 final size:51
Alignment explanation
Indices: 43086450--43086787 Score: 326
Period size: 51 Copynumber: 6.7 Consensus size: 51
43086440 TATCGATGAA
* * *
43086450 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
** * * * * * * * * *
43086501 CATATATGTAGTACTAAGTGAAGGCTGCAATGTGTACTGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * *
43086552 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * * *
43086603 CACATATGTAGTACTAAGTGAAGGTTACTATGTGTACCGA-AAA-GCTTTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGT
* ** *
43086654 CACGTGTGTAGTACTATGTGAAAGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
** *
43086704 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
*
43086754 CACGTGTGTAGTACTATGTAAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
43086788 TATCGAATGA
Statistics
Matches: 231, Mismatches: 50, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
49 1 0.00
50 89 0.39
51 140 0.61
52 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
Found at i:43086626 original size:102 final size:101
Alignment explanation
Indices: 43086450--43086793 Score: 440
Period size: 102 Copynumber: 3.4 Consensus size: 101
43086440 TATCGATGAA
* *
43086450 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCATATATGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATATGTAGTAC
* * *
43086515 TAAGTGAAGGCTGCAATGTGTACTGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
*
43086552 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATATGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATATGTAGTAC
* *
43086617 TAAGTGAAGGTTACTATGTGTACCGAAAAGCTTTAGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * *** * * *
43086654 CACGTGTGTAGTACTATGTGAAAGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATATGTAGTAC
* * * * *
43086718 TATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* *
43086754 CACGTGTGTAGTACTATGTAAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
43086794 ATGATAAAAG
Statistics
Matches: 213, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
100 38 0.18
101 44 0.21
102 130 0.61
103 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATATGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:43088887 original size:29 final size:25
Alignment explanation
Indices: 43088844--43088931 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 25
43088834 AAATTTCGTT
43088844 ATATATATACATACATACATTTTTATA
1 ATATATATACATACATAC--TTTTATA
43088871 ATATATATACACGTACATACTTTTATA
1 ATATATATACA--TACATACTTTTATA
* * * *
43088898 ATTTATTTATATATATACATTCTTAT-
1 ATATATATACATACATAC-TT-TTATA
43088924 ATATATAT
1 ATATATAT
43088932 TTGTTATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 6 0.12
26 8 0.16
27 30 0.59
29 7 0.14
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (25 bp):
ATATATATACATACATACTTTTATA
Found at i:43088981 original size:22 final size:21
Alignment explanation
Indices: 43088921--43088991 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
43088911 TATACATTCT
* * *
43088921 TATATATATATTTGTTATATTT
1 TATATATTTATTT-TCATATTA
* *
43088943 TATA-ATTTATATACATATCTA
1 TATATATTTATTTTCATAT-TA
*
43088964 TATATATTTATTTTCATAAATA
1 TATATATTTATTTTCAT-ATTA
43088986 TATATA
1 TATATA
43088992 CAGACTTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 4 0.11
21 11 0.29
22 22 0.58
23 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (21 bp):
TATATATTTATTTTCATATTA
Found at i:43089002 original size:36 final size:34
Alignment explanation
Indices: 43088938--43089008 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 34
43088928 ATATTTGTTA
* *
43088938 TATTTTATAATTTATATACATATCTATATATATT
1 TATTTTATAATATATATACAGATCTATATATATT
43088972 TATTTTCATAAATATATATACAGA-CTTATATATATT
1 TATTTT-AT-AATATATATACAGATC-TATATATATT
43089008 T
1 T
43089009 TTTATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 6 0.19
35 3 0.09
36 23 0.72
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.52
Consensus pattern (34 bp):
TATTTTATAATATATATACAGATCTATATATATT
Found at i:43089042 original size:10 final size:10
Alignment explanation
Indices: 43089027--43089062 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
43089017 TTATAATTTT
43089027 TATATACATA
1 TATATACATA
43089037 TATATACATA
1 TATATACATA
43089047 TATATACATA
1 TATATACATA
*
43089057 CATATA
1 TATATA
43089063 TATCTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (10 bp):
TATATACATA
Found at i:43089057 original size:14 final size:14
Alignment explanation
Indices: 43089034--43089065 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
43089024 TTTTATATAC
*
43089034 ATATATATACATAT
1 ATATACATACATAT
43089048 ATATACATACATAT
1 ATATACATACATAT
43089062 ATAT
1 ATAT
43089066 CTTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATACATACATAT
Found at i:43089062 original size:75 final size:76
Alignment explanation
Indices: 43088906--43089065 Score: 209
Period size: 75 Copynumber: 2.1 Consensus size: 76
43088896 TAATTTATTT
** *
43088906 ATATATATACATTCTTATATATATATTTGTTATATTTTATAATTTATATACATATCTATATATAT
1 ATATATATACAGACTTATATATATATTTGTTATATTTTATAATTTATATACATA-CTATATACAT
* * *
43088971 TTATTTTCATAA
65 ATATATACATAA
43088983 ATATATATACAGACTTATATATAT-TTT-TTATATTTTATAATTTTTATATACATA-TATATACA
1 ATATATATACAGACTTATATATATATTTGTTATATTTTATAA--TTTATATACATACTATATACA
*
43089045 TATATATACATAC
64 TATATATACATAA
43089058 ATATATAT
1 ATATATAT
43089066 CTTTTTATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
75 37 0.50
76 3 0.04
77 34 0.46
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (76 bp):
ATATATATACAGACTTATATATATATTTGTTATATTTTATAATTTATATACATACTATATACATA
TATATACATAA
Found at i:43089064 original size:77 final size:77
Alignment explanation
Indices: 43088905--43089065 Score: 204
Period size: 77 Copynumber: 2.1 Consensus size: 77
43088895 ATAATTTATT
** *
43088905 TATATATATACATTCTTATATATATATTTGTTATATTTTATAATTTATATACATATCTATATATA
1 TATATATATACAGACTTATATATATATTTGTTATATTTTATAATTTATATACATA-CTATATACA
* * *
43088970 TTTATTTTCATAA
65 TATATATACATAA
43088983 -ATATATATACAGACTTATATATAT-TTT-TTATATTTTATAATTTTTATATACATA-TATATAC
1 TATATATATACAGACTTATATATATATTTGTTATATTTTATAA--TTTATATACATACTATATAC
43089044 ATATATATACATACA
64 ATATATATACATA-A
43089059 TATATAT
1 TATATAT
43089066 CTTTTTATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
75 29 0.40
76 4 0.05
77 40 0.55
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (77 bp):
TATATATATACAGACTTATATATATATTTGTTATATTTTATAATTTATATACATACTATATACAT
ATATATACATAA
Found at i:43091097 original size:21 final size:21
Alignment explanation
Indices: 43091071--43091114 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
43091061 CGAGCTTTTG
43091071 TTTAACTCAT-ATGAGTTTCCA
1 TTTAAC-CATAATGAGTTTCCA
* *
43091092 TTTAACCCTAATGGGTTTCCA
1 TTTAACCATAATGAGTTTCCA
43091113 TT
1 TT
43091115 CAGCTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (21 bp):
TTTAACCATAATGAGTTTCCA
Found at i:43091152 original size:42 final size:42
Alignment explanation
Indices: 43091092--43091172 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
43091082 TGAGTTTCCA
* *
43091092 TTTAACCCTAATGGGTTTCCATTCAGCTCTTTTGAGCTTTTG
1 TTTAACCCTAATGAGTTTCCATTCAGCTCTTATGAGCTTTTG
*
43091134 TTTAACCCTTATGAGTTTCCATTCAGCTCTTATGAGCTT
1 TTTAACCCTAATGAGTTTCCATTCAGCTCTTATGAGCTT
43091173 CCGTTCAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (42 bp):
TTTAACCCTAATGAGTTTCCATTCAGCTCTTATGAGCTTTTG
Found at i:43091165 original size:21 final size:21
Alignment explanation
Indices: 43091080--43091186 Score: 72
Period size: 21 Copynumber: 5.1 Consensus size: 21
43091070 GTTTAACTCA
*
43091080 TATGAGTTTCCATTTAACCCT
1 TATGAGTTTCCATTCAACCCT
* * * *
43091101 AATGGGTTTCCATTCAGCTCT
1 TATGAGTTTCCATTCAACCCT
* ** *
43091122 TTTGAGCTTT-TGTTTAACCCT
1 TATGAG-TTTCCATTCAACCCT
* *
43091143 TATGAGTTTCCATTCAGCTCT
1 TATGAGTTTCCATTCAACCCT
* * *
43091164 TATGAGCTTCCGTTCAACACT
1 TATGAGTTTCCATTCAACCCT
43091185 TA
1 TA
43091187 CGGGTTTCTG
Statistics
Matches: 61, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
20 3 0.05
21 55 0.90
22 3 0.05
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (21 bp):
TATGAGTTTCCATTCAACCCT
Found at i:43091194 original size:42 final size:42
Alignment explanation
Indices: 43091104--43091194 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
43091094 TAACCCTAAT
* ** * * *
43091104 GGGTTTCCATTCAGCTCTTTTGAGCTTTTGTTTAACCCTTAT
1 GGGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
*
43091146 GAGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
1 GGGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
43091188 GGGTTTC
1 GGGTTTC
43091195 TGTTTAGCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (42 bp):
GGGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
Found at i:43096063 original size:24 final size:26
Alignment explanation
Indices: 43096036--43096085 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43096026 AAATGTATGT
43096036 ACATAACAT-ATATG-AAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
* *
43096060 ACATGATATAATATGTAAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
43096086 TATAGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (26 bp):
ACATAACATAATATGTAAAAATATAA
Found at i:43096463 original size:28 final size:28
Alignment explanation
Indices: 43096432--43096488 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
43096422 TACAAAAAAA
*
43096432 AATAAAGTAATTAAAA-ATCATACTATAT
1 AATAAAGTAA-TAAAAGATAATACTATAT
*
43096460 AATAAAGTAATAAAAGATAATACTGTAT
1 AATAAAGTAATAAAAGATAATACTATAT
43096488 A
1 A
43096489 TACATGTACG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (28 bp):
AATAAAGTAATAAAAGATAATACTATAT
Found at i:43097223 original size:17 final size:18
Alignment explanation
Indices: 43097200--43097246 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
43097190 AAGGTAAAAA
43097200 ATTTATTTTTTTTATTTT
1 ATTTATTTTTTTTATTTT
* *
43097218 -TTTATTTCTATTATTTT
1 ATTTATTTTTTTTATTTT
43097235 ATTATATTTTTT
1 ATT-TATTTTTT
43097247 GATATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 15 0.65
18 2 0.09
19 6 0.26
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTATTTTTTTTATTTT
Found at i:43098612 original size:74 final size:74
Alignment explanation
Indices: 43098447--43098703 Score: 342
Period size: 74 Copynumber: 3.5 Consensus size: 74
43098437 CATGTGAATC
** *
43098447 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCA
43098511 ACGTGTCTT
66 ACGTGTCTT
43098520 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCT-
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGAAAAGCAGAAATTGAAAATACCTC
*
43098584 AATGTGTCTT
65 AACGTGTCTT
* * * *
43098594 GAGGCTCAACTCACCTCTCACAATATGAATTGATTTTTTTGACAA-CAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAGAAATTGAAAATACCTC
* *
43098658 AGCGTGTCCT
65 AACGTGTCTT
* * *
43098668 GAGGCTCAACTC-CTTTCTTGCAATATGAGCTGATTT
1 GAGGCTCAACTCAC-CTCTCGCAATATGAGTTGATTT
43098704 GGAAAAGTAG
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
73 52 0.32
74 81 0.50
75 30 0.18
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCA
ACGTGTCTT
Found at i:43099038 original size:84 final size:86
Alignment explanation
Indices: 43098915--43099077 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 86
43098905 AACATCTATT
* * *
43098915 GAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATT-GATTTTGAAA
1 GAAAATACCTCAGCG-ATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGGATTTTGAAA
43098979 ACA-TAAATTGAAAACAGAAATG
65 ACAGT-AATTGAAAACAGAAATG
* * * * * *
43099001 GAAAATACCTCAGC-ATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGGTTTTTGCAAA
1 GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGGATTTTGAAAA
43099065 CAGTAATTGAAAA
66 CAGTAATTGAAAA
43099078 TACCTCAGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
84 32 0.48
85 20 0.30
86 14 0.21
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (86 bp):
GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGGATTTTGAAAA
CAGTAATTGAAAACAGAAATG
Found at i:43099120 original size:71 final size:72
Alignment explanation
Indices: 43098990--43099506 Score: 480
Period size: 71 Copynumber: 6.9 Consensus size: 72
43098980 CATAAATTGA
* * * *
43098990 AAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGG
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
43099055 TTTTTGC
66 TTTTTGC
* * *
43099062 AAACAGTAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
43099126 -TTTAGAAAAC
66 TTTTTG----C
* * * * *
43099136 AGAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCC-AAGGCTCAACTCACCTTTCGCAATA
1 ----AAACAGAAATTGAAAAT-ACCTC-A-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
43099199 TGAGTTGATTTTTG-
58 TGAGTTGATTTTTGC
*
43099213 AAAGTAG-AATTGAAAATA-CTC-GCGTG-CC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
43099273 ATTTTTGAAAAAC
65 ATTTTTG-----C
* * *
43099286 AGAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 ----A---AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
43099351 GAGTTGATTTTCTTGA
59 GAGTTGA-TTT-TTGC
** *
43099367 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
43099432 ATTTTGGA
65 ATTTTTGC
* *
43099440 AAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
43099504 TTT
66 TTT
43099507 GAAAAACAAA
Statistics
Matches: 377, Mismatches: 32, Indels: 73
0.78 0.07 0.15
Matches are distributed among these distances:
67 39 0.10
69 4 0.01
70 4 0.01
71 89 0.24
72 31 0.08
73 18 0.05
74 8 0.02
75 60 0.16
77 2 0.01
78 18 0.05
79 4 0.01
80 17 0.05
81 33 0.09
82 10 0.03
83 1 0.00
84 33 0.09
85 3 0.01
86 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (72 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGC
Found at i:43099387 original size:75 final size:72
Alignment explanation
Indices: 43099300--43099506 Score: 326
Period size: 75 Copynumber: 2.8 Consensus size: 72
43099290 ATTGAACAGG
*
43099300 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TG
43099365 GAAAAGCAGA
65 GAAAA-CA-A
*
43099375 AATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGG
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGG
43099439 AAAACAA
66 AAAACAA
* * * *
43099446 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
43099507 GAAAAACAAA
Statistics
Matches: 124, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.44
72 4 0.03
73 6 0.05
74 3 0.02
75 57 0.46
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (72 bp):
AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGG
AAAACAA
Found at i:43099617 original size:120 final size:122
Alignment explanation
Indices: 43099401--43099625 Score: 314
Period size: 120 Copynumber: 1.9 Consensus size: 122
43099391 ATGTGTCTTG
* * * *
43099401 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAACAAAATTGAAATTACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTT-GAAAACAAAACTGAAAATACCTCAGCGT
*
43099466 GTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTGAAAAACAAAAATTAAA
65 GCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTGAAAAACAAAAATTAAA
* *
43099524 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACT-AAAATACCTCGGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGAAAACA-AAACTGAAAATACCTCAGCGT
* *
43099586 GCCCCT-AGGCTCAACTCACTTCTCGCAATATGAGTTGATT
65 G-CCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
43099626 AAAAATACCT
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
120 52 0.57
121 7 0.08
122 5 0.05
123 27 0.30
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGAAAACAAAACTGAAAATACCTCAGCGTG
CCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTGAAAAACAAAAATTAAA
Found at i:43111845 original size:24 final size:26
Alignment explanation
Indices: 43111818--43111867 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43111808 AAATGTATGT
43111818 ACATAACAT-ATATG-AAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
* *
43111842 ACATGATATAATATGTAAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
43111868 TATAGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (26 bp):
ACATAACATAATATGTAAAAATATAA
Found at i:43112239 original size:28 final size:28
Alignment explanation
Indices: 43112207--43112263 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
43112197 AATACAAAAA
*
43112207 AATAAAGTAATTAAAA-ATCATACTATAT
1 AATAAAGTAA-TAAAAGATAATACTATAT
*
43112235 AATAAAGTAATAAAAGATAATACTGTAT
1 AATAAAGTAATAAAAGATAATACTATAT
43112263 A
1 A
43112264 TACATGTACG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (28 bp):
AATAAAGTAATAAAAGATAATACTATAT
Found at i:43113023 original size:11 final size:12
Alignment explanation
Indices: 43112975--43113026 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
43112965 GTAAAAAATT
43112975 TATTTTTT-TT-
1 TATTTTTTATTA
*
43112985 TATTTTTTATTTC
1 TATTTTTTA-TTA
43112998 TATTATTTTATTA
1 TATT-TTTTATTA
43113011 TATTTTTTATATA
1 TATTTTTTAT-TA
43113024 TAT
1 TAT
43113027 ATGTGTATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 8 0.22
12 8 0.22
13 15 0.42
14 5 0.14
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTTTTATTA
Found at i:43117239 original size:16 final size:16
Alignment explanation
Indices: 43117214--43117255 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
43117204 TATATAATAT
*
43117214 AATAAT-AAACTAATG
1 AATAATAAAACAAATG
*
43117229 TATAATAAAACAAATG
1 AATAATAAAACAAATG
43117245 AATAAGTAAAA
1 AATAA-TAAAA
43117256 GAAAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (16 bp):
AATAATAAAACAAATG
Found at i:43119582 original size:15 final size:15
Alignment explanation
Indices: 43119557--43119594 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
43119547 GGATTTTTAA
*
43119557 AATATATATTATTTAT
1 AATAAATATTATTT-T
43119573 AA-AAATATTATTTT
1 AATAAATATTATTTT
43119587 AATAAATA
1 AATAAATA
43119595 AATTCATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 15 0.75
16 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATATTATTTT
Found at i:43119591 original size:17 final size:19
Alignment explanation
Indices: 43119555--43119592 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
43119545 GTGGATTTTT
*
43119555 AAAATATATATTATTTATA
1 AAAATATATATTATTAATA
43119574 AAAATAT-TATT-TTAATA
1 AAAATATATATTATTAATA
43119591 AA
1 AA
43119593 TAAATTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATATATTATTAATA
Found at i:43120007 original size:34 final size:35
Alignment explanation
Indices: 43119963--43120029 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43119953 CAGTAAAATA
*
43119963 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
43119997 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
43120030 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:43122687 original size:19 final size:20
Alignment explanation
Indices: 43122660--43122700 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43122650 ATCATTTCTA
43122660 TTTATG-AAAAAACCTTAGTT
1 TTTATGAAAAAAACCTTA-TT
43122680 TTTA-GAAAAAAACCTTATT
1 TTTATGAAAAAAACCTTATT
43122699 TT
1 TT
43122701 GTGGAGTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTATGAAAAAAACCTTATT
Found at i:43140332 original size:71 final size:69
Alignment explanation
Indices: 43140134--43140328 Score: 229
Period size: 70 Copynumber: 2.9 Consensus size: 69
43140124 GCTTTCCAAG
* * * * *
43140134 AAAATCAACTCATATTGCGACAGATGAGTTGAGCCGCAAGACACGTTGAGGTATTTTAA--TTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTAATTTTTT
43140197 TTTT
66 TTTT
* * *
43140201 AAAATCAACTCATA-TGCGAGAAGTGAGTTGAGCCTCGGGGCACG-CGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTT-AATTTTT
43140264 GTGTTTT
65 -T-TTTT
** *
43140271 AATTTCAACTCATATTGCGAGAGGTGAG-TGAGCCTCAGGGCAGGTTGAGGTATTTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTAA
43140329 ATTTCTGTCG
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
65 10 0.09
66 25 0.23
67 14 0.13
68 3 0.03
69 1 0.01
70 32 0.30
71 22 0.21
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTAATTTTTT
TTTT
Found at i:43140814 original size:75 final size:74
Alignment explanation
Indices: 43140617--43140831 Score: 263
Period size: 73 Copynumber: 2.9 Consensus size: 74
43140607 TAATTTTGGT
* * *
43140617 TTTTCAAAATCAACTCATATCGCTAGAGGTGAGTTGAGCCTCGGGGCAC-TCGCTGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT-GCTGAGGTATTTT
*** *
43140681 CAATTTTGTG
65 CAAAAATCTG
** *
43140691 TTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTC
43140755 AAAAATCTG
66 AAAAATCTG
* ** * *
43140764 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGTTCACATGCTGAGATATTTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
43140829 CAA
65 CAA
43140832 TTTTTTTGTT
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
73 61 0.51
74 5 0.04
75 54 0.45
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (74 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTC
AAAAATCTG
Found at i:43141602 original size:22 final size:22
Alignment explanation
Indices: 43141576--43141633 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
43141566 CATGAAGCAA
*
43141576 CCCCATACCCCCACTGCAACAG
1 CCCCATACCCCCACTACAACAG
43141598 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
43141620 TCCCATACCTCCAC
1 CCCCATACCCCCAC
43141634 AGTCCTCGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.28, C:0.55, G:0.05, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:43142951 original size:15 final size:17
Alignment explanation
Indices: 43142931--43142971 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
43142921 TTTACTATTA
43142931 TATTTATTATT-A-TAT
1 TATTTATTATTCACTAT
43142946 TATTTATT-TTCACTAT
1 TATTTATTATTCACTAT
43142962 TA-TTATTATT
1 TATTTATTATT
43142972 TTCATCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 14 0.61
16 7 0.30
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTATTATTCACTAT
Found at i:43142972 original size:18 final size:18
Alignment explanation
Indices: 43142943--43142985 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
43142933 TTTATTATTA
43142943 TATTATTTATTTTCA-CTAT
1 TATTA-TTATTTTCATC-AT
43142962 TATTATTATTTTCATCAT
1 TATTATTATTTTCATCAT
43142980 TATTAT
1 TATTAT
43142986 ACATATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTATTATTTTCATCAT
Found at i:43144461 original size:22 final size:23
Alignment explanation
Indices: 43144435--43144477 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
43144425 ACTTGAATTT
43144435 TTAAA-TCCGAAAAACAAAAGAA
1 TTAAATTCCGAAAAACAAAAGAA
* *
43144457 TTAAATTCCTAAAAATAAAAG
1 TTAAATTCCGAAAAACAAAAG
43144478 TAGAGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (23 bp):
TTAAATTCCGAAAAACAAAAGAA
Found at i:43144719 original size:22 final size:21
Alignment explanation
Indices: 43144688--43144729 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43144678 ATTTGAACAT
*
43144688 ACTTAAAATTTATTTTTATTTA
1 ACTTAAAA-TTAATTTTATTTA
*
43144710 ACTTATAATTAATTTTATTT
1 ACTTAAAATTAATTTTATTT
43144730 TTTTAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
ACTTAAAATTAATTTTATTTA
Found at i:43144759 original size:28 final size:30
Alignment explanation
Indices: 43144721--43144776 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
43144711 CTTATAATTA
*
43144721 ATTTTATTTTTTTAAATA-CGAAAATAAAT
1 ATTTTATTTTTTAAAATAGCGAAAATAAAT
*
43144750 ATTTTA-TTTTTAAAATAGTGAAAATAA
1 ATTTTATTTTTTAAAATAGCGAAAATAA
43144777 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (30 bp):
ATTTTATTTTTTAAAATAGCGAAAATAAAT
Found at i:43147985 original size:32 final size:31
Alignment explanation
Indices: 43147941--43148058 Score: 112
Period size: 32 Copynumber: 3.7 Consensus size: 31
43147931 TCAAATAACT
43147941 AAGTAC-TAATTTGGACCAAAAAACTAAGTTC
1 AAGTACTTAA-TTGGACCAAAAAACTAAGTTC
* * * * *
43147972 AAGCACTAAATTTGAACCAAGAAACCAAGTTC
1 AAGTACTTAA-TTGGACCAAAAAACTAAGTTC
* * * *
43148004 AAGTACTTAATTAGACCAAGAAAGTCGAGTTC
1 AAGTACTTAATTGGACCAAAAAACT-AAGTTC
*
43148036 AAGTACTTAATTGGACCCAAAAA
1 AAGTACTTAATTGGACCAAAAAA
43148059 TAAAAAAATC
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
31 16 0.23
32 54 0.77
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (31 bp):
AAGTACTTAATTGGACCAAAAAACTAAGTTC
Found at i:43152884 original size:22 final size:21
Alignment explanation
Indices: 43152865--43152914 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
43152855 GTACTCTTCC
*
43152865 TATA-TTTGAAATTTAGTCTT
1 TATACTTTAAAATTTAGTCTT
43152885 TATACTTTTAAAATTTAGTCTT
1 TATAC-TTTAAAATTTAGTCTT
*
43152907 TACACTTT
1 TATACTTT
43152915 TCAAATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 3 0.12
22 19 0.73
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (21 bp):
TATACTTTAAAATTTAGTCTT
Found at i:43152915 original size:22 final size:22
Alignment explanation
Indices: 43152873--43152922 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
43152863 CCTATATTTG
*
43152873 AAATTTAGTCTTTATACTTTTA
1 AAATTTAGTCTTTACACTTTTA
*
43152895 AAATTTAGTCTTTACACTTTTC
1 AAATTTAGTCTTTACACTTTTA
43152917 AAATTT
1 AAATTT
43152923 CAAATTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (22 bp):
AAATTTAGTCTTTACACTTTTA
Found at i:43163505 original size:33 final size:32
Alignment explanation
Indices: 43163433--43163508 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
43163423 ATGTTTAAAT
* * *
43163433 GTAAGACCATAGCTAGGCTATGGCATTTTAAT
1 GTAAGACCATAACTAGGCTATGGCATTTGAAC
* * *
43163465 GAAAAGACCATAACTGGGTTATGGCACTTTGAAC
1 G-TAAGACCATAACTAGGCTATGGCA-TTTGAAC
43163499 GTAAGACCAT
1 GTAAGACCAT
43163509 GGTTGGACCA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 28 0.80
34 6 0.17
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (32 bp):
GTAAGACCATAACTAGGCTATGGCATTTGAAC
Found at i:43164768 original size:388 final size:391
Alignment explanation
Indices: 43164018--43164797 Score: 1334
Period size: 388 Copynumber: 2.0 Consensus size: 391
43164008 GGGTTGGTTT
*
43164018 GGCAATGAAATAGTTTGAATTGTGGTTGTCAATCTTAAATGTTTGCATGTATGTAATTAGTAGTA
1 GGCAATGAAATAGTTTGAATTGTGGTTGTCAAACTTAAATGTTTGCATGTATGTAATTAGTAGTA
43164083 GAATTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAATACTTGTGATGT
66 GAATTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAATACTTGTGATGT
*
43164148 TATGTCATGTTGAGAACATGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATTGGTGTATGT
131 TATGTCATGTTGAGAACACGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATT-GTGTATGT
43164213 GAATGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGGCTTTAAAATGACATATTTTCG
195 GAATGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGGCTTTAAAATGACATATTTTCG
* * * *
43164278 TCTACATAAGCAAAACCACAGGCGTGTGTCTCAGCCATGTGTGACACACGGCCTGACACATGGGC
260 TCCACACAAGCAAAACCACAGGCGTGTGTCTCAGCCATGTGTAACACACGGCCTAACACATGGGC
* * * *
43164343 GTGTGGTATGGCCGTGTGTTCCCTGCATCTTAAAATTTCAAATAGAATGCCAAGGTTTTTTACAC
325 GTGTGATATGACCGTGTGTCCCCTGCACCTTAAAATTTCAAATAGAATGCCAAGGTTTTTTACAC
43164408 AC
390 AC
* *
43164410 GGCAATGAAATAGTTTGAATTGTGGTTGTGAAACTTAAATGTTTGTATGTATGTAATTAGTAGTA
1 GGCAATGAAATAGTTTGAATTGTGGTTGTCAAACTTAAATGTTTGCATGTATGTAATTAGTAGTA
*
43164475 GAATTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAATATTTGTGATGT
66 GAATTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAATACTTGTGATGT
*
43164540 TATGTCATGTTGAGAACACGTTTTAGCTT-TATTGATTGCTTGGTTGGGATATA-T-TGTATGTG
131 TATGTCATGTTGAGAACACGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATTGTGTATGTG
*
43164602 AATGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGGCTTTAAAATGACTTATTTTCGT
196 AATGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGGCTTTAAAATGACATATTTTCGT
* * **
43164667 CCACACAAGCAGAGA-CACAGGCGTGTGTCTCAGCCATGTGTAATACACGGCCTAACGTATGGGC
261 CCACACAAGCA-AAACCACAGGCGTGTGTCTCAGCCATGTGTAACACACGGCCTAACACATGGGC
*
43164731 GTGTGATCTGACCGTGTGTCCCCTGCACCTTAAAATTTCAAATAGAATGCCAAGGTTTTTTACAC
325 GTGTGATATGACCGTGTGTCCCCTGCACCTTAAAATTTCAAATAGAATGCCAAGGTTTTTTACAC
43164796 AC
390 AC
43164798 AGCCTAGCAC
Statistics
Matches: 367, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
388 187 0.51
389 2 0.01
390 1 0.00
391 23 0.06
392 154 0.42
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (391 bp):
GGCAATGAAATAGTTTGAATTGTGGTTGTCAAACTTAAATGTTTGCATGTATGTAATTAGTAGTA
GAATTTGATAAATCAATGAAATGAGTTAAATAGGTAAGTATAAGTAATTGAAATACTTGTGATGT
TATGTCATGTTGAGAACACGTTTTAGCTTGTATCGATTGCTTGGTTGGGATATATTGTGTATGTG
AATGTTGAGTGCAGATTAATGTCAAAATGGGTGAGAAAAGTGGCTTTAAAATGACATATTTTCGT
CCACACAAGCAAAACCACAGGCGTGTGTCTCAGCCATGTGTAACACACGGCCTAACACATGGGCG
TGTGATATGACCGTGTGTCCCCTGCACCTTAAAATTTCAAATAGAATGCCAAGGTTTTTTACACA
C
Found at i:43168764 original size:21 final size:21
Alignment explanation
Indices: 43168738--43168788 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
43168728 GGAGCACAAA
43168738 GATGTATTGTGATTTGAAACG
1 GATGTATTGTGATTTGAAACG
43168759 GATGTATTGTGATTTGAAACG
1 GATGTATTGTGATTTGAAACG
43168780 GATGTATTG
1 GATGTATTG
43168789 GTGGCCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.39
Consensus pattern (21 bp):
GATGTATTGTGATTTGAAACG
Found at i:43179287 original size:43 final size:43
Alignment explanation
Indices: 43179240--43179412 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
43179230 GGCCTTGCAT
* * * *
43179240 GTAATCAAATAACGATGCCATTATCCCAGACAGGGTCTTATAC
1 GTAATTAAATAACGATGCCAATGTCCCAGACAGGGTCTTACAC
* * * *
43179283 GTAATTAAATAACAATGCCACTGTCCTAGATAGGGTCTTACAC
1 GTAATTAAATAACGATGCCAATGTCCCAGACAGGGTCTTACAC
* **
43179326 GTAATTATAT-ACGATGCCAATGTCCCAGACTTGGTCTTACAC
1 GTAATTAAATAACGATGCCAATGTCCCAGACAGGGTCTTACAC
* *
43179368 GTAAATCTCAAAT--CAATGCCAACGTCCCAGAC-GTGGTCTTACAC
1 GT-AAT-T-AAATAACGATGCCAATGTCCCAGACAG-GGTCTTACAC
43179412 G
1 G
43179413 AAATCACATT
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.26
43 48 0.44
44 29 0.27
45 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
GTAATTAAATAACGATGCCAATGTCCCAGACAGGGTCTTACAC
Found at i:43183312 original size:13 final size:13
Alignment explanation
Indices: 43183294--43183319 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43183284 ATTTTATTCG
43183294 AAAACCATTTGTT
1 AAAACCATTTGTT
43183307 AAAACCATTTGTT
1 AAAACCATTTGTT
43183320 TGCATAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:43192543 original size:42 final size:43
Alignment explanation
Indices: 43192445--43192617 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
43192435 AGCTCGTACA
* * * *
43192445 ATGCCAATGTCCCAGAC-GTGGCCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATATCG
* * *
43192488 ATGCCACTATCCCAGACAGGGTCTTATACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATATCG
* * *
43192530 ATGCCAATGTCCCAGAGATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCAT-ATATCG
* * * *
43192574 ATGCCAACGTCCCAGGC-GTGGTCTTACACGAGATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATATCG
43192617 A
1 A
43192618 ATCCTTTGTC
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 28 0.27
43 48 0.46
44 28 0.27
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATATCG
Found at i:43192586 original size:44 final size:44
Alignment explanation
Indices: 43192445--43192603 Score: 118
Period size: 44 Copynumber: 3.7 Consensus size: 44
43192435 AGCTCGTACA
* * * *
43192445 ATGCCAATGTCCCAGACG-TGGCCTTACATGT-AATC-AAATATCG
1 ATGCCAACGTCCCAGA-GATGGTCTTACACGTAAATCTCAA-ATCG
* * * * *
43192488 ATGCC-ACTATCCCAGACAGGGTCTTATACG-AAA--TCATATACG
1 ATGCCAAC-GTCCCAGAGATGGTCTTACACGTAAATCTCAAAT-CG
*
43192530 ATGCCAATGTCCCAGAGATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGAGATGGTCTTACACGTAAATCTCAAATCG
*
43192574 ATGCCAACGTCCCAG-GCGTGGTCTTACACG
1 ATGCCAACGTCCCAGAG-ATGGTCTTACACG
43192604 AGATCACATA
Statistics
Matches: 89, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 27 0.30
44 28 0.31
45 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGAGATGGTCTTACACGTAAATCTCAAATCG
Found at i:43192598 original size:86 final size:85
Alignment explanation
Indices: 43192445--43192609 Score: 194
Period size: 86 Copynumber: 1.9 Consensus size: 85
43192435 AGCTCGTACA
*
43192445 ATGCCAATGTCCCAGACGTGGCCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAATGTCCCAGACGTGGCCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
*
43192510 CTTATACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * * *
43192530 ATGCCAATGTCCCAGA-GATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGGC-
1 ATGCCAATGTCCCAGACG-TGGCCTTACACGT-AATC-AAATATCGATGCC-ACTATCCCAGACA
*
43192591 GTGGTCTTACACGAGATCA
62 G-GGTCTTACACGAAATCA
43192610 CATATCGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
84 1 0.01
85 28 0.41
86 35 0.51
87 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACGTGGCCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAATCATATACG
Found at i:43193085 original size:72 final size:72
Alignment explanation
Indices: 43192971--43193122 Score: 216
Period size: 72 Copynumber: 2.1 Consensus size: 72
43192961 ATTTTCCAGG
* * *
43192971 AAGCGCCTC-AAAAACCTAAGCCCAACGATGCCATTTTTTGAGCTTTCAGAGATTTAGCGGCATT
1 AAGCGCCGCAAAAAAACTAAGCCCAACGATGCCATTTTCTGAGCTTTCAGAGATTTAGCGGCATT
*
43193035 TTTTAGA
66 TTTAAGA
* * * * *
43193042 AAGTGCCGCAAAAAAACTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTT
1 AAGCGCCGCAAAAAAACTAAGCCCAACGATGCCATTTTCTGAGCTTTCAGAGATTTAGCGGCATT
43193107 TTTAAGA
66 TTTAAGA
43193114 AAGCGCCGC
1 AAGCGCCGC
43193123 TAATGCTCAG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
71 7 0.10
72 63 0.90
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (72 bp):
AAGCGCCGCAAAAAAACTAAGCCCAACGATGCCATTTTCTGAGCTTTCAGAGATTTAGCGGCATT
TTTAAGA
Found at i:43193268 original size:74 final size:73
Alignment explanation
Indices: 43193136--43193454 Score: 433
Period size: 73 Copynumber: 4.4 Consensus size: 73
43193126 TGCTCAGGGC
* ** * * * *
43193136 TTTAGCGGCGTTATTGAAAAAGCACCGCAAAAAAACCTAAGCTCAACAACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
43193201 TTTGGGGA
66 TTCGGGGA
* * *
43193209 TTTAGCGGCGTTTTTTGGGAAAGTGCCGCAAAGAAACCTAAGCCCAACGATGCCGTTTTCTGAGC
1 TTTAGCGGCG-TTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
43193274 TTTCGGGGA
65 TTTCGGGGA
* ** * * *
43193283 TTTAACGATGTTTTTGGGAAAGCGTCGCAAAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
43193348 TTCGGGGA
66 TTCGGGGA
*
43193356 TTTTA-CGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
1 -TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
*
43193420 TTTTGGGGA
65 TTTCGGGGA
*
43193429 TTTAGCGGCGTTTTTAGGAAAGCGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCC
43193455 ACTAATGCTC
Statistics
Matches: 216, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
72 4 0.02
73 149 0.69
74 63 0.29
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGA
Found at i:43193483 original size:261 final size:261
Alignment explanation
Indices: 43193206--43193829 Score: 889
Period size: 261 Copynumber: 2.4 Consensus size: 261
43193196 GAGCTTTTGG
* *
43193206 GGATTTAGCGGCGTTTTTTGGGAAAGTGCCGCAAAGAAACCTAAGCCCAACGATGCCGTTTTCTG
1 GGATTTAGCGGCG-TTTTTGGGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
* * *
43193271 AGCTTTCGGGGATTTAACGATG-TTTTTGGGAAAGCGTCGCAAAAA-AGCCTAAGCCCAACGACG
65 AGCTTTTGGGGATTTAACGACGTTTTTTGGGAAAGCGCCGCAAAAACA-CCTAAGCCCAACGACG
* * *
43193334 CCGTTTTCTGATCTTTCGGGGATTTTA-CGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGC
129 CCGTTTTCTGAGCTTTCGGGGA-TTTAGCGACATTTTTAGGAAAGCGCCGCAAAAAAACCTAAGC
*
43193398 CCAACGACGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGC
193 CCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGC
*
43193463 TCAG
258 TCAA
* * * * * *
43193467 GGCTTTAGCAGCGTTTTTGAGAAAGCT-CCGTAAAAAAACCTAAGCTCAACGACACCGTTTTCTG
1 GGATTTAGCGGCGTTTTTGGGAAAG-TGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
* * * * *
43193531 AGCTTTTGGGGATTTAGCGGCGTTTTTTGGGAAAGTGCCGCAAAAACACCTAAGCCCAATGATGC
65 AGCTTTTGGGGATTTAACGACGTTTTTTGGGAAAGCGCCGCAAAAACACCTAAGCCCAACGACGC
* *
43193596 CGTTTTCTGAGCTTTCGGGGATTTAGCGACATTTTTAGGAAAGCGTCGCAAAAAAGCCTAAGCCC
130 CGTTTTCTGAGCTTTCGGGGATTTAGCGACATTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCC
* * **
43193661 AACGACGCCGTTTTCTGATCTTTCGGGGATTTAGTGGCGTTTTTAGGAAAGCGCTGCTAATGCTC
195 AACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGCTC
43193726 AA
260 AA
*
43193728 GGATTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
1 GGATTTAGCGGCGTTTTTGGGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
* * * *
43193793 GCTTTTGGGGATTTAGCGGC-ATTTTTAGGAAAGCGCC
66 GCTTTTGGGGATTTAACGACGTTTTTTGGGAAAGCGCC
43193830 ACTAATGCTC
Statistics
Matches: 321, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
260 79 0.25
261 241 0.75
262 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (261 bp):
GGATTTAGCGGCGTTTTTGGGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
GCTTTTGGGGATTTAACGACGTTTTTTGGGAAAGCGCCGCAAAAACACCTAAGCCCAACGACGCC
GTTTTCTGAGCTTTCGGGGATTTAGCGACATTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCA
ACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGCTCA
A
Found at i:43193667 original size:334 final size:333
Alignment explanation
Indices: 43192980--43193714 Score: 1172
Period size: 334 Copynumber: 2.2 Consensus size: 333
43192970 GAAGCGCCTC
* * * * * * *
43192980 AAAAA-CCTAAGCCCAACGATGCCATTTTTTGAGCTTTCAGAGATTTAGCGGCATTTTTTA-GAA
1 AAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCTTTCGGGGATTTAGCGGC-GTTTTTAGGAA
* *
43193043 AGTGCCGCAAAAAAACTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTT
65 AGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTT
* *
43193108 TTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTATTGAAAAAGCACCGCAAAAAAACC
130 TTAAGAAAGCGCCACTAATGCTCAGGGCTTTAGCAGCGTTATTGAAAAAGCACCGCAAAAAAACC
*
43193173 TAAGCTCAACAACGCCATTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTTGGGAAAGTGCCGC
195 TAAGCTCAACAACACCATTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTTGGGAAAGTGCCGC
** *
43193238 AAAGAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGATTTAACGATGTTTTTGGGAA
260 AAAGAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGATTTAACGACATTTTTAGGAA
43193303 AGCGTCGCA
325 AGCGTCGCA
43193312 AAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCTTTCGGGGATTTTA-CGGCGTTTTTAGGAA
1 AAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCTTTCGGGGA-TTTAGCGGCGTTTTTAGGAA
*
43193376 AGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTT
65 AGCGCCGCAAAAAAA-CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTT
* * * * *
43193441 TTTAGGAAAGCGCCACTAATGCTCAGGGCTTTAGCAGCGTTTTTGAGAAAGCTCCGTAAAAAAAC
129 TTTAAGAAAGCGCCACTAATGCTCAGGGCTTTAGCAGCGTTATTGAAAAAGCACCGCAAAAAAAC
* *
43193506 CTAAGCTCAACGACACCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTTGGGAAAGTGCCG
194 CTAAGCTCAACAACACCATTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTTGGGAAAGTGCCG
* *
43193571 CAAA-AACACCTAAGCCCAATGATGCCGTTTTCTGAGCTTTCGGGGATTTAGCGACATTTTTAGG
259 CAAAGAA-ACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGATTTAACGACATTTTTAGG
43193635 AAAGCGTCGCA
323 AAAGCGTCGCA
*
43193646 AAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCTTTCGGGGATTTAGTGGCGTTTTTAGGAAA
1 AAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCTTTCGGGGATTTAGCGGCGTTTTTAGGAAA
43193711 GCGC
66 GCGC
43193715 TGCTAATGCT
Statistics
Matches: 371, Mismatches: 26, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
332 11 0.03
333 59 0.16
334 301 0.81
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (333 bp):
AAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCTTTCGGGGATTTAGCGGCGTTTTTAGGAAA
GCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTT
TAAGAAAGCGCCACTAATGCTCAGGGCTTTAGCAGCGTTATTGAAAAAGCACCGCAAAAAAACCT
AAGCTCAACAACACCATTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTTGGGAAAGTGCCGCA
AAGAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGATTTAACGACATTTTTAGGAAA
GCGTCGCA
Found at i:43193673 original size:73 final size:72
Alignment explanation
Indices: 43193499--43193714 Score: 288
Period size: 73 Copynumber: 3.0 Consensus size: 72
43193489 AAGCTCCGTA
* * * * *
43193499 AAAAAACCTAAGCTCAACGACACCGTTTTCTGAGCTTTTGGGGATTTAGCGGCGTTTTTTGGGAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC-ATTTTTAGGAA
*
43193564 AGTGCCGC
65 AGCGCCGC
* * *
43193572 AAAAACACCTAAGCCCAATGATGCCGTTTTCTGAGCTTTCGGGGATTTAGCGACATTTTTAGGAA
1 AAAAA-ACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAGGAA
*
43193637 AGCGTCGC
65 AGCGCCGC
* * *
43193645 AAAAAAGCCTAAGCCCAACGACGCCGTTTTCTGATCTTTCGGGGATTTAGTGGCGTTTTTAGGAA
1 AAAAAA-CCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAGGAA
43193710 AGCGC
65 AGCGC
43193715 TGCTAATGCT
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
72 1 0.01
73 81 0.65
74 42 0.34
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (72 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAGGAAA
GCGCCGC
Found at i:43193932 original size:114 final size:114
Alignment explanation
Indices: 43193614--43193937 Score: 490
Period size: 114 Copynumber: 2.8 Consensus size: 114
43193604 GAGCTTTCGG
* * * *
43193614 GGATTTAGCGACATTTTT-AGGAAAGCGTCGCAAAAAAGCCTAAGCCCAACGACGCCGTTTTCTG
1 GGATTTAGCGGCGTTTTTGA-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
* * **
43193678 ATCTTTCGGGGATTTAGTGGCGTTTTTAGGAAAGCGCTGCTAATGCTCAA
65 AGCTTTTGGGGATTTAGTGGCGTTTTTAGGAAAGCGCCACTAATGCTCAA
*
43193728 GGATTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
1 GGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
* * *
43193793 GCTTTTGGGGATTTAGCGGCATTTTTAGGAAAGCGCCACTAATGCTCAG
66 GCTTTTGGGGATTTAGTGGCGTTTTTAGGAAAGCGCCACTAATGCTCAA
*
43193842 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
1 GGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
*
43193907 GCTTTTGGGGATATT-GTGGCGTTTTTGGGAA
66 GCTTTTGGGGAT-TTAGTGGCGTTTTTAGGAA
43193938 TGTGCTGCAA
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
114 189 0.99
115 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (114 bp):
GGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
GCTTTTGGGGATTTAGTGGCGTTTTTAGGAAAGCGCCACTAATGCTCAA
Found at i:43193975 original size:73 final size:74
Alignment explanation
Indices: 43193851--43194019 Score: 243
Period size: 73 Copynumber: 2.3 Consensus size: 74
43193841 GGGCTTTAGC
43193851 GGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTT-GG
1 GGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGG
43193915 GGATATTGT
66 GGATATTGT
* * * * *
43193924 GGCGTTTTTGGGAATGTGCTGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTTCGG
1 GGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGG
*
43193989 GGAT-TTAGC
66 GGATATT-GT
* *
43193998 GGTGTTTTTAAGAAAGCGCCGC
1 GGCGTTTTTGAGAAAGCGCCGC
43194020 TAATGCTGGG
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
73 59 0.72
74 23 0.28
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (74 bp):
GGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGG
GGATATTGT
Found at i:43194066 original size:113 final size:113
Alignment explanation
Indices: 43193927--43194137 Score: 318
Period size: 113 Copynumber: 1.9 Consensus size: 113
43193917 ATATTGTGGC
* * * * * *
43193927 GTTTTTGGGAATGTGCTGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTTCGGGGA
1 GTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-TTTCAGAGA
*
43193992 TTTAGC-G-GTGTTTTTAAGAAAGCGCCGCTAATGCTGGGGTTTAGCAGT
65 TTTAGCAGCAT-TTTTTAAGAAAGCGCCGCTAATGCTGGGGTTTAGCAGT
43194040 GTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGAGAT
1 GTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGAGAT
*
43194105 TTAGCAGCATTTTTTAATAAAGCGCCGCTAATG
66 TTAGCAGCATTTTTTAAGAAAGCGCCGCTAATG
43194138 GTTAGGGATT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
112 13 0.15
113 74 0.84
114 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (113 bp):
GTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGAGAT
TTAGCAGCATTTTTTAAGAAAGCGCCGCTAATGCTGGGGTTTAGCAGT
Found at i:43194391 original size:22 final size:21
Alignment explanation
Indices: 43194366--43194413 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
43194356 GTGTTACCAT
*
43194366 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
43194388 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
43194409 TTTAA
1 TTTAA
43194414 AGGCTGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:43194469 original size:15 final size:15
Alignment explanation
Indices: 43194371--43194498 Score: 63
Period size: 15 Copynumber: 8.9 Consensus size: 15
43194361 ACCATTTTAA
* *
43194371 GGTTTATGGATTATG
1 GGTTTAGGGTTTATG
*
43194386 GGTTTAGGGGTTAT-
1 GGTTTAGGGTTTATG
* **
43194400 GGTTTATGGTTTAAA
1 GGTTTAGGGTTTATG
* * *
43194415 GG-CTGGGGTTTA-A
1 GGTTTAGGGTTTATG
*
43194428 GGTTTAAAGG-TTATG
1 GGTTT-AGGGTTTATG
* * *
43194443 TGTTAAGAGTTTATG
1 GGTTTAGGGTTTATG
43194458 GGTTTAGGGTTT-TAG
1 GGTTTAGGGTTTAT-G
*
43194473 GGTTTA-AGTTTAT-
1 GGTTTAGGGTTTATG
43194486 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
43194499 GATTAACTAG
Statistics
Matches: 84, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
13 9 0.11
14 34 0.40
15 41 0.49
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (15 bp):
GGTTTAGGGTTTATG
Found at i:43194499 original size:7 final size:7
Alignment explanation
Indices: 43194451--43194499 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
43194441 TGTGTTAAGA
43194451 GTTTATGG
1 GTTTA-GG
43194459 GTTTAGG
1 GTTTAGG
43194466 GTTTTAGG
1 G-TTTAGG
*
43194474 GTTTA-A
1 GTTTAGG
*
43194480 GTTTATG
1 GTTTAGG
43194487 GTTTAGG
1 GTTTAGG
43194494 GTTTAG
1 GTTTAG
43194500 ATTAACTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 5 0.14
7 19 0.53
8 12 0.33
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (7 bp):
GTTTAGG
Found at i:43194778 original size:21 final size:21
Alignment explanation
Indices: 43194764--43194874 Score: 93
Period size: 21 Copynumber: 5.3 Consensus size: 21
43194754 TAGGGATTAT
* * *
43194764 GGTTTAAGGGTTAGGATTTAA
1 GGTTTAAGGGTTAGAAGTTAG
* *
43194785 GATTTAGGGGTTAGAAGTTAG
1 GGTTTAAGGGTTAGAAGTTAG
43194806 GGTTTAAGGGTTAAGAA-TTAG
1 GGTTTAAGGGTT-AGAAGTTAG
* *
43194827 GGATTTAAGGGTTAGGATTTAG
1 GG-TTTAAGGGTTAGAAGTTAG
* *
43194849 GGATTCAAGGG-TCG-AGTTAG
1 GG-TTTAAGGGTTAGAAGTTAG
43194869 GGTTTA
1 GGTTTA
43194875 GATTAACTAG
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.04
20 7 0.09
21 37 0.49
22 28 0.37
ACGTcount: A:0.28, C:0.02, G:0.36, T:0.34
Consensus pattern (21 bp):
GGTTTAAGGGTTAGAAGTTAG
Found at i:43194783 original size:14 final size:16
Alignment explanation
Indices: 43194746--43194785 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
43194736 AATAATTATA
43194746 TATGGATTT-AGGGAT
1 TATGGATTTAAGGGAT
43194761 TATGG-TTTAAGGG-T
1 TATGGATTTAAGGGAT
43194775 TA-GGATTTAAG
1 TATGGATTTAAG
43194786 ATTTAGGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 12 0.52
15 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.40
Consensus pattern (16 bp):
TATGGATTTAAGGGAT
Found at i:43194848 original size:22 final size:22
Alignment explanation
Indices: 43194766--43194860 Score: 113
Period size: 21 Copynumber: 4.4 Consensus size: 22
43194756 GGGATTATGG
*
43194766 TTTAAGGGTTAGGATTTA-AGA
1 TTTAAGGGTTAGGATTTAGGGA
* * *
43194787 TTTAGGGGTTAGAAGTTAGGG-
1 TTTAAGGGTTAGGATTTAGGGA
* *
43194808 TTTAAGGGTTAAGAATTAGGGA
1 TTTAAGGGTTAGGATTTAGGGA
43194830 TTTAAGGGTTAGGATTTAGGGA
1 TTTAAGGGTTAGGATTTAGGGA
*
43194852 TTCAAGGGT
1 TTTAAGGGT
43194861 CGAGTTAGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 32 0.52
22 29 0.48
ACGTcount: A:0.29, C:0.01, G:0.35, T:0.35
Consensus pattern (22 bp):
TTTAAGGGTTAGGATTTAGGGA
Found at i:43194924 original size:28 final size:27
Alignment explanation
Indices: 43194871--43194925 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
43194861 CGAGTTAGGG
* * *
43194871 TTTAGATTAACTAGTTTTTTTTTAATT
1 TTTAGATTAAATAGTTTTTATATAATT
*
43194898 TTTATATTAAATATGTTTTTATATAATT
1 TTTAGATTAAATA-GTTTTTATATAATT
43194926 ATAAAAGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTAGATTAAATAGTTTTTATATAATT
Found at i:43196149 original size:12 final size:12
Alignment explanation
Indices: 43196132--43196159 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43196122 GAGGTTTTCT
43196132 TTTGTTTATTTA
1 TTTGTTTATTTA
43196144 TTTGTTTATTTA
1 TTTGTTTATTTA
43196156 TTTG
1 TTTG
43196160 AGTTTTCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (12 bp):
TTTGTTTATTTA
Found at i:43198816 original size:43 final size:41
Alignment explanation
Indices: 43198768--43198903 Score: 157
Period size: 43 Copynumber: 3.2 Consensus size: 41
43198758 TTTTTATGAC
* *
43198768 CTTTAGTGGCGCTTTTATCAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTTTAT--AAAGCGCCGCTAAAGATCATGTT
* *
43198811 CTTTAGCGGCGCTTGTGAGTAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTT-TTA-TAAAGCGCCGCTAAAGATCATGTT
*
43198854 CTTTAGCGGCG-TTTGTGGGTAAAGCGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTT-T--ATAAAGCGCCGCTAAAGATCATGTT
43198897 CTTTAGC
1 CTTTAGC
43198904 AGTGTTTTGT
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 75 0.93
44 2 0.02
45 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTTATAAAGCGCCGCTAAAGATCATGTT
Found at i:43212495 original size:26 final size:26
Alignment explanation
Indices: 43212466--43212555 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
43212456 TATAACATTT
43212466 TAATTTAATTTATTCACATTATATAA
1 TAATTTAATTTATTCACATTATATAA
43212492 TAA-TTAATTTAATT-ACCA-TAT-TATA
1 TAATTTAATTT-ATTCA-CATTATATA-A
** * * *
43212517 TACCTCACTATTAATCACATTATATAA
1 TAATTTAAT-TTATTCACATTATATAA
43212544 TAATTTAATTTA
1 TAATTTAATTTA
43212556 AATTGATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
24 2 0.04
25 14 0.29
26 18 0.38
27 12 0.25
28 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (26 bp):
TAATTTAATTTATTCACATTATATAA
Found at i:43212556 original size:26 final size:26
Alignment explanation
Indices: 43212466--43212556 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 26
43212456 TATAACATTT
*
43212466 TAATTTAATTTATTCACATTATATAA
1 TAATTTAATTTAATCACATTATATAA
*
43212492 TAA-TTAATTTAATTACCA-TAT-TATA
1 TAATTTAATTTAATCA-CATTATATA-A
** * *
43212517 TACCTCACTATTAATCACATTATATAA
1 TAATTTAAT-TTAATCACATTATATAA
43212544 TAATTTAATTTAA
1 TAATTTAATTTAA
43212557 ATTGATTTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
24 2 0.04
25 16 0.33
26 14 0.29
27 15 0.31
28 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (26 bp):
TAATTTAATTTAATCACATTATATAA
Found at i:43212719 original size:11 final size:11
Alignment explanation
Indices: 43212703--43212738 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
43212693 ACACATATTG
43212703 TATCATATATA
1 TATCATATATA
43212714 TATCATATATA
1 TATCATATATA
43212725 TCAT-ATATATA
1 T-ATCATATATA
43212736 TAT
1 TAT
43212739 AATAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (11 bp):
TATCATATATA
Found at i:43212723 original size:9 final size:9
Alignment explanation
Indices: 43212709--43212739 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
43212699 ATTGTATCAT
43212709 ATATATATC
1 ATATATATC
43212718 ATATATATC
1 ATATATATC
43212727 ATATATAT-
1 ATATATATC
43212735 ATATA
1 ATATA
43212740 ATAAAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATATATC
Found at i:43222876 original size:27 final size:26
Alignment explanation
Indices: 43222846--43222896 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
43222836 ATGAAATTCT
*
43222846 TACAAA-CAACATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
43222873 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
43222897 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:43223189 original size:23 final size:23
Alignment explanation
Indices: 43223145--43223189 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
43223135 ATAATAAGTT
**
43223145 TAAAAATAATATTAAGCCAATAA
1 TAAAAATAATATTAAAACAATAA
* *
43223168 TAAAAATAATGTTAAAATAATA
1 TAAAAATAATATTAAAACAATA
43223190 TATGAACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAATAATATTAAAACAATAA
Found at i:43227525 original size:24 final size:25
Alignment explanation
Indices: 43227497--43227547 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
43227487 TTTATATATA
*
43227497 TTAAATTAG-TTTTATGATTTTATT
1 TTAAATTAGATTTTAAGATTTTATT
*
43227521 TTAAATTAGATTTTAAGATTTTTTT
1 TTAAATTAGATTTTAAGATTTTATT
43227546 TT
1 TT
43227548 TCTTTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (25 bp):
TTAAATTAGATTTTAAGATTTTATT
Found at i:43227918 original size:70 final size:71
Alignment explanation
Indices: 43227828--43227959 Score: 203
Period size: 70 Copynumber: 1.9 Consensus size: 71
43227818 GTTTAACTCG
* *
43227828 AAAAGACAAAACTACTTCGTTTTAATAAATGTTTA-TTTTTTAAAAAGTTAAAAGTCAAAACAAT
1 AAAAGACAAAACTACGTCGTTTTAATAAATGTTTACTTTTTTAAAAAGTTAAAAGACAAAACAAT
43227892 TAAGTT
66 TAAGTT
* * **
43227898 AAAAGACAAAATTACGTCGTTTTGATAAATGTTTACTTTTTTTTAAAGTTAAAAGACAAAAC
1 AAAAGACAAAACTACGTCGTTTTAATAAATGTTTACTTTTTTAAAAAGTTAAAAGACAAAAC
43227960 TACGTCGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
70 32 0.58
71 23 0.42
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (71 bp):
AAAAGACAAAACTACGTCGTTTTAATAAATGTTTACTTTTTTAAAAAGTTAAAAGACAAAACAAT
TAAGTT
Found at i:43234263 original size:14 final size:14
Alignment explanation
Indices: 43234244--43234273 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43234234 TAATGTCTTC
43234244 TTCTACTAAAATGA
1 TTCTACTAAAATGA
43234258 TTCTACTAAAATGA
1 TTCTACTAAAATGA
43234272 TT
1 TT
43234274 GGTGTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (14 bp):
TTCTACTAAAATGA
Found at i:43235161 original size:16 final size:16
Alignment explanation
Indices: 43235140--43235191 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
43235130 TTTGGTTCGC
*
43235140 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
43235156 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43235172 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43235188 TGTA
1 TGTA
43235192 ATAGCAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:43235528 original size:157 final size:157
Alignment explanation
Indices: 43235321--43235630 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
43235311 CCCTTAGCAT
*
43235321 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
43235386 TAATGAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
43235451 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
43235478 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
43235543 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
43235608 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
43235631 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:43238957 original size:12 final size:12
Alignment explanation
Indices: 43238940--43238964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43238930 ACCAATACAT
43238940 CAAACCAAACGA
1 CAAACCAAACGA
43238952 CAAACCAAACGA
1 CAAACCAAACGA
43238964 C
1 C
43238965 GTGTTAGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.36, G:0.08, T:0.00
Consensus pattern (12 bp):
CAAACCAAACGA
Found at i:43251564 original size:21 final size:20
Alignment explanation
Indices: 43251534--43251572 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
43251524 ACGCCTACAA
43251534 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
43251554 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
43251573 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:43257445 original size:24 final size:24
Alignment explanation
Indices: 43257413--43257486 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
43257403 CTCTCTGCTA
43257413 AAGTGCTCTTTAGAGCTTCCCGTT
1 AAGTGCTCTTTAGAGCTTCCCGTT
** * *
43257437 AAGTGCTCTTCGGAGCTACCCGAT
1 AAGTGCTCTTTAGAGCTTCCCGTT
* *
43257461 ATAG-ACTCTTTGTGAGCTTCCCGTT
1 A-AGTGCTCTTT-AGAGCTTCCCGTT
43257486 A
1 A
43257487 TTAAGCCCGG
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 26 0.67
25 13 0.33
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
AAGTGCTCTTTAGAGCTTCCCGTT
Found at i:43260252 original size:3 final size:3
Alignment explanation
Indices: 43260244--43260277 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
43260234 ATCTGTTTTC
43260244 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
43260278 TGTCAAGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43263477 original size:16 final size:18
Alignment explanation
Indices: 43263440--43263478 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
43263430 AGCTAAATTA
43263440 TCAAGCTTCAACTTGAGC
1 TCAAGCTTCAACTTGAGC
*
43263458 TCAAGCTT-AA-TTGAGT
1 TCAAGCTTCAACTTGAGC
43263474 TCAAG
1 TCAAG
43263479 TTTGAGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (18 bp):
TCAAGCTTCAACTTGAGC
Found at i:43265422 original size:143 final size:143
Alignment explanation
Indices: 43265146--43265433 Score: 332
Period size: 143 Copynumber: 2.0 Consensus size: 143
43265136 CTGCATACAA
* ** *
43265146 TATGAATAAATTAATTGGTTTCAATACAAAATATATTAGAAATTTATAAAAATCCTGAGTTTGTC
1 TATGAATAAATTAATTGGTTCCAATACAAAATATATTAGAAAAGTATAAAAATCCTGAATTTGTC
* * * ***
43265211 AAATTCATAAATACTTTTAAGAATTTCAAATTCAGCCCTAAACAAGGATTCAAAAAATCCATGGA
66 AAATTCATAAATACTTTTAAGAATTTCAAATTCAGCACTAAACAAGCATTCAAAAAACCCACAAA
*
43265276 TTTAAGAAATAAT
131 TTTAACAAATAAT
* * * **
43265289 TATGAATAAATTAGTTAGGTTCCAATATAAAATGTATTCTAAAAGTATAAAAATCCTGAATTTGT
1 TATGAATAAATTAATT-GGTTCCAATACAAAATATATTAGAAAAGTATAAAAATCCTGAATTTGT
* * *
43265354 CAAGTTCATAAA-AGC-TTTAATAATTTCAAATTCA-CTACTAAACAAGCATAT-AACAAACCCA
65 CAAATTCATAAATA-CTTTTAAGAATTTCAAATTCAGC-ACTAAACAAGCAT-TCAAAAAACCCA
*
43265415 CAAATTTAACATATAAT
127 CAAATTTAACAAATAAT
43265432 TA
1 TA
43265434 AAAAAGTAAC
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
142 1 0.01
143 67 0.55
144 53 0.44
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (143 bp):
TATGAATAAATTAATTGGTTCCAATACAAAATATATTAGAAAAGTATAAAAATCCTGAATTTGTC
AAATTCATAAATACTTTTAAGAATTTCAAATTCAGCACTAAACAAGCATTCAAAAAACCCACAAA
TTTAACAAATAAT
Found at i:43267758 original size:23 final size:24
Alignment explanation
Indices: 43267717--43267767 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
43267707 TGTATTTGTT
* * *
43267717 TTTAAATCTAGCATTA-TTTAATA
1 TTTAAATCTAACATCATTTTAAAA
*
43267740 TTTAAATTTAACATCATTTTAAAA
1 TTTAAATCTAACATCATTTTAAAA
43267764 TTTA
1 TTTA
43267768 TCATTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTAAATCTAACATCATTTTAAAA
Found at i:43276714 original size:17 final size:16
Alignment explanation
Indices: 43276668--43276736 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
43276658 TTTGGTTCGC
*
43276668 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
* *
43276684 CGTATTGAATTAGAGG
1 TGTATTGGATTAGAGG
43276700 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
43276717 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43276733 TGTA
1 TGTA
43276737 ATAGCTAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
16 32 0.68
17 15 0.32
ACGTcount: A:0.28, C:0.01, G:0.35, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:43276801 original size:44 final size:45
Alignment explanation
Indices: 43276717--43276807 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
43276707 GGATTAGAGG
* * *
43276717 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
43276762 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
43276806 TG
1 TG
43276808 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:43276993 original size:18 final size:17
Alignment explanation
Indices: 43276972--43277006 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43276962 TTATTATTAA
*
43276972 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43276990 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43277007 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.