Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 43 of 190
Found at i:7333599 original size:23 final size:23
Alignment explanation
Indices: 7333504--7333613 Score: 80
Period size: 23 Copynumber: 4.7 Consensus size: 23
7333494 ATTTTTGTTG
*
7333504 AAAAGATAAAAAAATTATTTTTT
1 AAAATATAAAAAAATTATTTTTT
* * * *
7333527 ATAATTTAACAAAAATAACGTTTTT
1 AAAATATAA-AAAAATTA-TTTTTT
* *
7333552 AAAATA-AAAAAGTAA-TCTTTATT
1 AAAATATAAAAA--AATTATTTTTT
*
7333575 AAAATATAAAAATATTATTTTTT
1 AAAATATAAAAAAATTATTTTTT
*
7333598 AAAATTTAACAAAAAT
1 AAAATATAA-AAAAAT
7333614 GACGTTTTTA
Statistics
Matches: 64, Mismatches: 16, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.02
23 33 0.52
24 19 0.30
25 11 0.17
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (23 bp):
AAAATATAAAAAAATTATTTTTT
Found at i:7333805 original size:112 final size:110
Alignment explanation
Indices: 7333615--7333814 Score: 244
Period size: 112 Copynumber: 1.8 Consensus size: 110
7333605 AACAAAAATG
*
7333615 ACGTTTTTAAGATAAAAAAATATAGTCTTTGTTGAAAAGACAACATTTTTAAAATAAAAATACAA
1 ACGTTTCTAAGATAAAAAAATATAGTCTTTGTTGAAAAGACAACATTTTTAAAATAAAAATACAA
*
7333680 TCTTTGTTAAAAATATTAAAAAAAATTCAAAATTCAACAAAGACA
66 TCTTTGTTAAAAATATGAAAAAAAATTCAAAATTCAACAAAGACA
* ** * *
7333725 ACGTTTCTAAGATTAAAAAAA-ATGCAGTC-TTGATTGAAAATACAATGTTTTTAAGATAAAAGT
1 ACGTTTCTAAGA-TAAAAAAATAT--AGTCTTTG-TTGAAAAGACAACATTTTTAAAATAAAAAT
* * *
7333788 ATAGT-TTTAGTTGAAAATATGAAAAAA
62 ACAATCTTT-GTTAAAAATATGAAAAAA
7333815 TATTTTTGAG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
110 13 0.17
111 14 0.19
112 48 0.64
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.32
Consensus pattern (110 bp):
ACGTTTCTAAGATAAAAAAATATAGTCTTTGTTGAAAAGACAACATTTTTAAAATAAAAATACAA
TCTTTGTTAAAAATATGAAAAAAAATTCAAAATTCAACAAAGACA
Found at i:7335559 original size:159 final size:159
Alignment explanation
Indices: 7335306--7335625 Score: 405
Period size: 159 Copynumber: 2.0 Consensus size: 159
7335296 ATATTTATAA
* * * *
7335306 TTTTGTTGAGTCTAATCAAACCTACCGAGCTAAGCTTGAGCAGTTCATTAAATTAGATTCAAGTT
1 TTTTGTTGAGTCTAATCAAACCTACCAAGCTAAGCTCGAGCAGTTCATTAAATTAGATCCAAGCT
* * * * *
7335371 CGAACATGAAAAATAAAACTTAATCAAGCTTGAATCGTATTTCGAGCCTCAAGTTTTTTAATCGA
66 CGAACATGAAAAATAAAACTTAATCAAGCTCGAATCGTATTTCGAACCTCAAGCTTTTGAATCAA
* * *
7335436 GTCAAGTTTGAGTCTGGTAATATATTAAC
131 GTCAAGTTTGAGTCTAGCAATATATCAAC
*
7335465 TTTTGTTGAGTCTAATCAGACCTACCAAG-TCAAGCTCGAGC-GATTCATTAAATTAGATCCAAG
1 TTTTGTTGAGTCTAATCAAACCTACCAAGCT-AAGCTCGAGCAG-TTCATTAAATTAGATCCAAG
* ** * *
7335528 CTC-AAGCATGAAAAAT-GAGGTTCAATTAAGCTCGAATCGTATTTCGAACCTCAAGCTTTTGAG
64 CTCGAA-CATGAAAAATAAAACTT-AATCAAGCTCGAATCGTATTTCGAACCTCAAGCTTTTGAA
*
7335591 TCAAGTCAAGTTTGAGTTTAGCAATATATCAAC
127 TCAAGTCAAGTTTGAGTCTAGCAATATATCAAC
7335624 TT
1 TT
7335626 GATTTGATTC
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
158 7 0.05
159 131 0.95
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (159 bp):
TTTTGTTGAGTCTAATCAAACCTACCAAGCTAAGCTCGAGCAGTTCATTAAATTAGATCCAAGCT
CGAACATGAAAAATAAAACTTAATCAAGCTCGAATCGTATTTCGAACCTCAAGCTTTTGAATCAA
GTCAAGTTTGAGTCTAGCAATATATCAAC
Found at i:7338768 original size:26 final size:25
Alignment explanation
Indices: 7338723--7338783 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
7338713 ATAAGATAAG
*
7338723 ATAACATTATTTAATTTA-TTTATT
1 ATAATATTATTTAATTTATTTTATT
*
7338747 CATAATATTATTTTATCTTATTTTATT
1 -ATAATATTATTTAAT-TTATTTTATT
*
7338774 ATAATTTTAT
1 ATAATATTAT
7338784 ATATCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.42
26 12 0.39
27 6 0.19
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (25 bp):
ATAATATTATTTAATTTATTTTATT
Found at i:7345354 original size:160 final size:158
Alignment explanation
Indices: 7345070--7345539 Score: 505
Period size: 160 Copynumber: 2.9 Consensus size: 158
7345060 TCTTTATAAT
* * * * *
7345070 ATATTGTGATGAAATCACATTTGTGAAAGGT-AAAAACTATTATGTATTTTGCTTAGTGATTATG
1 ATATTGAGATG-AATCAC-TTTGTGAAAGGTGAAAAA-TATTGTGTATTTTGCTTTGTGATTCTA
* * * * * * * **
7345134 GTTATGTATTATGATTGTTAATAAAATAGATACTACAGCAATTGAAAGCTTAGTCATTGTAGGAA
63 GTTATGTATTGTGATTGTTGATGAAATAAAT-CTATAGTAATTGAAAGCCTAAACATTGTAGGAA
* *
7345199 ATTCAATATTGAACTAGATAGTGGT-TTGTGC
127 ATTCAATATTGAACTAGATAGTGATATTGTAC
* * *
7345230 ATATTGAGATGAGATCACTTTTGTGAAAAGTGAAATATATTGTGTATTGTGCTTTGTGATTCTAG
1 ATATTGAGATGA-ATCAC-TTTGTGAAAGGTGAAAAATATTGTGTATTTTGCTTTGTGATTCTAG
* * *
7345295 TTATGTATTGTGATTGTTGATGAAGTAAATGGTATAATAATTGAAAGCCTAAACATTGTAGGAAA
64 TTATGTATTGTGATTGTTGATGAAATAAAT-CTATAGTAATTGAAAGCCTAAACATTGTAGGAAA
*
7345360 TTCATTATTGAACTAGATAGT-ATATTGTAC
128 TTCAATATTGAACTAGATAGTGATATTGTAC
* * ** * *
7345390 GTATTGAGATGCAATGACTTTGTGAAAGGTGAAAGCTATTGTATATTTTGCTTTGTGATTCTAAT
1 ATATTGAGATG-AATCACTTTGTGAAAGGTGAAAAATATTGTGTATTTTGCTTTGTGATTCTAGT
* * * ** * * **
7345455 TGTATATTGTGATTGTTGATGAACTATCTTTATAGTAATTAAAAGCCTAAACATTGTAAAAAATT
65 TATGTATTGTGATTGTTGATGAAATAAATCTATAGTAATTGAAAGCCTAAACATTGTAGGAAATT
7345520 CAATATTGAACTAGATAGTG
130 CAATATTGAACTAGATAGTG
7345540 TTTTATGTGT
Statistics
Matches: 261, Mismatches: 44, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
158 49 0.19
159 67 0.26
160 140 0.54
161 5 0.02
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (158 bp):
ATATTGAGATGAATCACTTTGTGAAAGGTGAAAAATATTGTGTATTTTGCTTTGTGATTCTAGTT
ATGTATTGTGATTGTTGATGAAATAAATCTATAGTAATTGAAAGCCTAAACATTGTAGGAAATTC
AATATTGAACTAGATAGTGATATTGTAC
Found at i:7345474 original size:159 final size:159
Alignment explanation
Indices: 7345173--7345539 Score: 470
Period size: 159 Copynumber: 2.3 Consensus size: 159
7345163 ATACTACAGC
* ** * *
7345173 AATTGAAAGCTTAGTCATTGTAGGAAATTCAATATTGAACTAGATAGTGGTTTGTGCATATTGAG
1 AATTGAAAGCCTAAACATTGTAGGAAATTCAATATTGAACTAGATAGTGATTTGTACATATTGAG
* * * *
7345238 ATGAGATCACTTTTGTGAAAAGTGAAATATATTGTGTATTGTGCTTTGTGATTCTAGTTATGTAT
66 ATGAGATCACTTTTGTGAAAAGTGAAAGATATTGTATATTGTGCTTTGTGATTCTAATTATATAT
*
7345303 TGTGATTGTTGATGAAGTAAATGGTATAAT
131 TGTGATTGTTGATGAACTAAAT-GTATAAT
* *
7345333 AATTGAAAGCCTAAACATTGTAGGAAATTCATTATTGAACTAGATAGT-ATATTGTACGTATTGA
1 AATTGAAAGCCTAAACATTGTAGGAAATTCAATATTGAACTAGATAGTGAT-TTGTACATATTGA
* * * * *
7345397 GATGCA-ATGAC-TTTGTGAAAGGTGAAAGCTATTGTATATTTTGCTTTGTGATTCTAATTGTAT
65 GATG-AGATCACTTTTGTGAAAAGTGAAAGATATTGTATATTGTGCTTTGTGATTCTAATTATAT
** * *
7345460 ATTGTGATTGTTGATGAACTATCTTTATAGT
129 ATTGTGATTGTTGATGAACTAAATGTATAAT
* **
7345491 AATTAAAAGCCTAAACATTGTAAAAAATTCAATATTGAACTAGATAGTG
1 AATTGAAAGCCTAAACATTGTAGGAAATTCAATATTGAACTAGATAGTG
7345540 TTTTATGTGT
Statistics
Matches: 179, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
158 49 0.27
159 66 0.37
160 63 0.35
161 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (159 bp):
AATTGAAAGCCTAAACATTGTAGGAAATTCAATATTGAACTAGATAGTGATTTGTACATATTGAG
ATGAGATCACTTTTGTGAAAAGTGAAAGATATTGTATATTGTGCTTTGTGATTCTAATTATATAT
TGTGATTGTTGATGAACTAAATGTATAAT
Found at i:7346093 original size:20 final size:20
Alignment explanation
Indices: 7346038--7346085 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7346028 TTGTATGATG
* *
7346038 TATTTTATGAATATTATGGA
1 TATTTTATGAATGTTATGAA
*
7346058 TATTTTATGTATGTTATGAA
1 TATTTTATGAATGTTATGAA
7346078 TATTTTAT
1 TATTTTAT
7346086 AGATGTTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (20 bp):
TATTTTATGAATGTTATGAA
Found at i:7346297 original size:13 final size:14
Alignment explanation
Indices: 7346279--7346312 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
7346269 ATGAAATTAT
*
7346279 AATTTTACTGAT-A
1 AATTTTACCGATGA
7346292 AATTTTACCGATGA
1 AATTTTACCGATGA
7346306 AATTTTA
1 AATTTTA
7346313 GTATTATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (14 bp):
AATTTTACCGATGA
Found at i:7348364 original size:11 final size:13
Alignment explanation
Indices: 7348343--7348374 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7348333 AAGTATAAAC
7348343 ATAACAATTATA-
1 ATAACAATTATAT
7348355 ATAA-AATTATAT
1 ATAACAATTATAT
7348367 ATAACAAT
1 ATAACAAT
7348375 GGATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.39
12 8 0.44
13 3 0.17
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAACAATTATAT
Found at i:7348817 original size:19 final size:19
Alignment explanation
Indices: 7348793--7348833 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
7348783 GGTGGCTCAG
7348793 TCATGCATAGCTCATAGCT
1 TCATGCATAGCTCATAGCT
7348812 TCATGCATAGCTCATAGCT
1 TCATGCATAGCTCATAGCT
7348831 TCA
1 TCA
7348834 CTACCGCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (19 bp):
TCATGCATAGCTCATAGCT
Found at i:7349798 original size:18 final size:18
Alignment explanation
Indices: 7349759--7349809 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
7349749 TTATTTTTTA
7349759 ATATAAATATA-AAAT-T
1 ATATAAATATATAAATAT
*
7349775 AAATAAATATATAAATAT
1 ATATAAATATATAAATAT
* *
7349793 ATATAATTAAATAAATA
1 ATATAAATATATAAATA
7349810 ATTTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 10 0.34
17 4 0.14
18 15 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATAAATATATAAATAT
Found at i:7349810 original size:12 final size:13
Alignment explanation
Indices: 7349757--7349812 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 13
7349747 TATTATTTTT
7349757 TAATATAAATATAA
1 TAAT-TAAATATAA
7349771 -AATTAAATA-AA
1 TAATTAAATATAA
7349782 T-ATATAAATATATA
1 TAAT-TAAATATA-A
7349796 TAATTAAATA-AA
1 TAATTAAATATAA
7349808 TAATT
1 TAATT
7349813 TATATATATC
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
11 4 0.11
12 18 0.49
13 5 0.14
14 8 0.22
15 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATTAAATATAA
Found at i:7359427 original size:17 final size:18
Alignment explanation
Indices: 7359395--7359430 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7359385 ATTGAACTTG
*
7359395 AATTAAATTAAAATAGCA
1 AATTAAAGTAAAATAGCA
7359413 AATTAAAGT-AAATAGCA
1 AATTAAAGTAAAATAGCA
7359430 A
1 A
7359431 GAACAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (18 bp):
AATTAAAGTAAAATAGCA
Found at i:7362028 original size:10 final size:11
Alignment explanation
Indices: 7362003--7362028 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7361993 GCTAAAAGAC
7362003 AAAAATTTTGT
1 AAAAATTTTGT
7362014 AAAAATTTTGT
1 AAAAATTTTGT
7362025 AAAA
1 AAAA
7362029 CGTTTCTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAATTTTGT
Found at i:7363624 original size:14 final size:16
Alignment explanation
Indices: 7363598--7363629 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7363588 AAATAAATTT
7363598 AAATTGCAACTAA-CA
1 AAATTGCAACTAAGCA
7363613 AAATTG-AACTAAGCA
1 AAATTGCAACTAAGCA
7363628 AA
1 AA
7363630 TTAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.19
Consensus pattern (16 bp):
AAATTGCAACTAAGCA
Found at i:7365541 original size:16 final size:17
Alignment explanation
Indices: 7365522--7365555 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7365512 ATCCTAATTG
*
7365522 TTTATTTGGC-TAAACA
1 TTTATTTAGCTTAAACA
7365538 TTTATTTAGCTTAAACA
1 TTTATTTAGCTTAAACA
7365555 T
1 T
7365556 CTAGTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (17 bp):
TTTATTTAGCTTAAACA
Found at i:7367958 original size:356 final size:356
Alignment explanation
Indices: 7367256--7367971 Score: 1168
Period size: 356 Copynumber: 2.0 Consensus size: 356
7367246 GAAAAATTAT
* *
7367256 TTTGATAATCTCTTTAATGGTAACTTTAGGTATGATATAGGTGAGTTTAACATACCTTTAAAGGA
1 TTTGATAATCACTTTAATGGTAACTTTAAGTATGATATAGGTGAGTTTAACATACCTTTAAAGGA
7367321 TATAAATCGTGTGTTAAACGTAATACTAAAACATATGAGGTTAAAAAGGCTTTGAAAATGATGAA
66 TATAAATCGTGTGTTAAACGTAATACTAAAACATATGAGGTTAAAAAGGCTTTGAAAATGATGAA
* * *
7367386 AGTAAAGAAAGTTGTAGTCCTAAATGGATTCCCGATTGAGATTTGAAAATGTTTTGGTGAAATAA
131 AGTAAAGAAAGTTGCAGACCTAAATGGATTCCCGATTGAGATTTGAAAATGCTTTGGTGAAATAA
*
7367451 AAATAGGATAATTGATAGATCTTTTCAACAAAATTTGGCATACTTAAAAGATGCTAAAAGAATAA
196 AAATAGGATAATTGATAGATCTTTTCAACAAAATTTGACATACTTAAAAGATGCTAAAAGAATAA
* * *
7367516 AAGAAGAGTACTTTAGTGTTTTATACAAAAATAAATGTGATATATAAAATTATTCGAACTATTGA
261 AAGAAGAGTACTATAGTGTCTTATACAAAAATAAATGTGATATACAAAATTATTCGAACTATTGA
*
7367581 GGAATATAACTTATGAGTCATACTATAAAAC
326 GGAATACAACTTATGAGTCATACTATAAAAC
* * *
7367612 TTTGATAATCACTTTAATGGTAATTTTAAGTATGATATAGGTGAGTTTAACATACTTTTTAAGGA
1 TTTGATAATCACTTTAATGGTAACTTTAAGTATGATATAGGTGAGTTTAACATACCTTTAAAGGA
*
7367677 TATAAATCGTGTGTTTAAACGTAATATTAAAACATATGAGGTTAAAAAGGCTTT-AAGAATGATG
66 TATAAATCGTGTG-TTAAACGTAATACTAAAACATATGAGGTTAAAAAGGCTTTGAA-AATGATG
* *
7367741 AAAGTAAAGAAAGTTGCAGGACC-ATATGGATTCCCGATTGAGATTTGGAAATGCTTTGGTGAAA
129 AAAGTAAAGAAAGTTGCA-GACCTAAATGGATTCCCGATTGAGATTTGAAAATGCTTTGGTGAAA
** *
7367805 TAAAAATAGGATGGTTGATGGATCTTTTCAACAAAATTTGACATACTTAAAAGATGCTAAAAGAA
193 TAAAAATAGGATAATTGATAGATCTTTTCAACAAAATTTGACATACTTAAAAGATGCTAAAAGAA
* * * *
7367870 T-AAAGAATAGTACTATAGTGTCTTATACAAAAATAAATGTGATATACAAAATTGTTTGAATTAT
258 TAAAAGAAGAGTACTATAGTGTCTTATACAAAAATAAATGTGATATACAAAATTATTCGAACTAT
*
7367934 TGAGGAATACAACTTATGAGTCATACTATGAAAC
323 TGAGGAATACAACTTATGAGTCATACTATAAAAC
7367968 TTTG
1 TTTG
7367972 GGAGAAAGTA
Statistics
Matches: 333, Mismatches: 24, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
356 167 0.50
357 163 0.49
358 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (356 bp):
TTTGATAATCACTTTAATGGTAACTTTAAGTATGATATAGGTGAGTTTAACATACCTTTAAAGGA
TATAAATCGTGTGTTAAACGTAATACTAAAACATATGAGGTTAAAAAGGCTTTGAAAATGATGAA
AGTAAAGAAAGTTGCAGACCTAAATGGATTCCCGATTGAGATTTGAAAATGCTTTGGTGAAATAA
AAATAGGATAATTGATAGATCTTTTCAACAAAATTTGACATACTTAAAAGATGCTAAAAGAATAA
AAGAAGAGTACTATAGTGTCTTATACAAAAATAAATGTGATATACAAAATTATTCGAACTATTGA
GGAATACAACTTATGAGTCATACTATAAAAC
Found at i:7369084 original size:19 final size:19
Alignment explanation
Indices: 7369057--7369100 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7369047 AAAAATGTGG
* * *
7369057 ATATAAGTAATAAAAGATT
1 ATATGAGTAATAAAAAAGT
*
7369076 ATATGAGTATTAAAAAAGT
1 ATATGAGTAATAAAAAAGT
7369095 ATATGA
1 ATATGA
7369101 AAATTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.32
Consensus pattern (19 bp):
ATATGAGTAATAAAAAAGT
Found at i:7369671 original size:13 final size:14
Alignment explanation
Indices: 7369623--7369671 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
7369613 TAATTTGTAT
7369623 AATAAAA-ATTAAAA
1 AATAAAATATT-AAA
* *
7369637 AAAAAAATTTTAAA
1 AATAAAATATTAAA
7369651 AATAAAATATT-AA
1 AATAAAATATTAAA
7369664 AATAAAAT
1 AATAAAAT
7369672 TAACATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 10 0.33
14 18 0.60
15 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAAATATTAAA
Found at i:7370686 original size:24 final size:24
Alignment explanation
Indices: 7370659--7370704 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7370649 TTTTACGTAG
7370659 TTAATATTTA-TTACAAAAATTATT
1 TTAATATTTATTTA-AAAAATTATT
*
7370683 TTAATTTTTATTTAAAAAATTA
1 TTAATATTTATTTAAAAAATTA
7370705 AAATATGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAATATTTATTTAAAAAATTATT
Found at i:7378601 original size:23 final size:25
Alignment explanation
Indices: 7378570--7378621 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
7378560 AAATATTAAA
*
7378570 ATATTAAAATT-TATATAAT-ATTT
1 ATATAAAAATTATATATAATAATTT
*
7378593 ATATAAAAATTATATGTAATAATTT
1 ATATAAAAATTATATATAATAATTT
7378618 ATAT
1 ATAT
7378622 CAATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.40
24 7 0.28
25 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATAAAAATTATATATAATAATTT
Found at i:7378605 original size:22 final size:24
Alignment explanation
Indices: 7378574--7378621 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
7378564 ATTAAAATAT
*
7378574 TAAAATTTATA-TAAT-ATTTATA
1 TAAAAATTATAGTAATAATTTATA
7378596 TAAAAATTATATGTAATAATTTATA
1 TAAAAATTATA-GTAATAATTTATA
7378621 T
1 T
7378622 CAATATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
24 4 0.18
25 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TAAAAATTATAGTAATAATTTATA
Found at i:7378626 original size:13 final size:12
Alignment explanation
Indices: 7378577--7378626 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
7378567 AAAATATTAA
7378577 AATTTATATAAT
1 AATTTATATAAT
*
7378589 -ATTTATATAAA
1 AATTTATATAAT
*
7378600 AATTATATGTAAT
1 AATT-TATATAAT
7378613 AATTTATATCAAT
1 AATTTATAT-AAT
7378626 A
1 A
7378627 TAAAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 10 0.32
12 7 0.23
13 14 0.45
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (12 bp):
AATTTATATAAT
Found at i:7379055 original size:24 final size:23
Alignment explanation
Indices: 7379020--7379085 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
7379010 TAATATCTTA
*
7379020 TATTAAAGTAATAAATAATAATTT
1 TATTAAA-TAATAAATAATAATAT
* *
7379044 TATTAATATAATATATATTAATAT
1 TATTAA-ATAATAAATAATAATAT
* *
7379068 AATTAAAATAAAAAATAA
1 TATT-AAATAATAAATAA
7379086 AAAATATATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TATTAAATAATAAATAATAATAT
Found at i:7380396 original size:26 final size:27
Alignment explanation
Indices: 7380366--7380416 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
7380356 TGAAATAAAT
7380366 TAAATT-TAAAAATATAAAAA-TGTTGA
1 TAAATTCTAAAAAT-TAAAAACTGTTGA
7380392 TAAATTCTAAAAATTAAAAACTGTT
1 TAAATTCTAAAAATTAAAAACTGTT
7380417 TCTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (27 bp):
TAAATTCTAAAAATTAAAAACTGTTGA
Found at i:7380426 original size:21 final size:21
Alignment explanation
Indices: 7380396--7380441 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7380386 TGTTGATAAA
7380396 TTCTAAAAATTAAAAACTG-T
1 TTCTAAAAATTAAAAACTGAT
*
7380416 TTCTAAAAAATTTAAAACTGAT
1 TTCT-AAAAATTAAAAACTGAT
7380438 TTCT
1 TTCT
7380442 TAGAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (21 bp):
TTCTAAAAATTAAAAACTGAT
Found at i:7380699 original size:11 final size:11
Alignment explanation
Indices: 7380683--7380719 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
7380673 ATTTTTTAAC
7380683 TTTTTAAATTT
1 TTTTTAAATTT
*
7380694 TTTTTAAAATT
1 TTTTTAAATTT
7380705 TTTTTAAGATTT
1 TTTTTAA-ATTT
7380717 TTT
1 TTT
7380720 ATTTTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TTTTTAAATTT
Found at i:7381349 original size:2 final size:2
Alignment explanation
Indices: 7381342--7381381 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7381332 AATATGTATG
7381342 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7381382 ATTCTTCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7381928 original size:51 final size:51
Alignment explanation
Indices: 7381824--7381926 Score: 147
Period size: 50 Copynumber: 2.0 Consensus size: 51
7381814 CTTTTTATAA
*
7381824 TTAAATTCAAAAGTACTAAAAATGATTGAGTAAAATACATTTAATAAAATT
1 TTAAATTCAAAAATACTAAAAATGATTGAGTAAAATACATTTAATAAAATT
* * *
7381875 TTAATTTCAAAAATA-TTAAAATGATTGAGTAAAATACCA-TTAATAAATTT
1 TTAAATTCAAAAATACTAAAAATGATTGAGTAAAATA-CATTTAATAAAATT
7381925 TT
1 TT
7381927 TATAAGTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
50 32 0.68
51 15 0.32
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (51 bp):
TTAAATTCAAAAATACTAAAAATGATTGAGTAAAATACATTTAATAAAATT
Found at i:7385323 original size:22 final size:22
Alignment explanation
Indices: 7385298--7385475 Score: 99
Period size: 22 Copynumber: 7.9 Consensus size: 22
7385288 AGCAATCATC
*
7385298 GATAACTTAATAGTTAATCAGT
1 GATAACTTAATAGTAAATCAGT
7385320 GATAACTTAATAGTAAATCA-T
1 GATAACTTAATAGTAAATCAGT
* * **
7385341 GAATAACTTAGTAGAAAATTTGT
1 G-ATAACTTAATAGTAAATCAGT
* * *
7385364 GATAACTTGATAGTAAATTAAT
1 GATAACTTAATAGTAAATCAGT
* * * * * * *
7385386 AATAATTTAGTAATCAATAATT
1 GATAACTTAATAGTAAATCAGT
*
7385408 GATAACTTAGTACATAGTAAATCAAT
1 GATAAC-T--TA-ATAGTAAATCAGT
* *
7385434 AATAACATAATAGTAAATGCA-T
1 GATAACTTAATAGTAAAT-CAGT
* * *
7385456 AATAACTTAGTAGTGAATCA
1 GATAACTTAATAGTAAATCA
7385476 ATTATAATAT
Statistics
Matches: 119, Mismatches: 30, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
21 4 0.03
22 93 0.78
23 7 0.06
25 2 0.02
26 13 0.11
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.34
Consensus pattern (22 bp):
GATAACTTAATAGTAAATCAGT
Found at i:7385347 original size:44 final size:44
Alignment explanation
Indices: 7385291--7385381 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
7385281 ACTTAGAAGC
**
7385291 AATCATCGATAACTTAATAGTTAATCAGTGATAACTTAATAGTA
1 AATCATCGATAACTTAATAGAAAATCAGTGATAACTTAATAGTA
* ** *
7385335 AATCAT-GAATAACTTAGTAGAAAATTTGTGATAACTTGATAGTA
1 AATCATCG-ATAACTTAATAGAAAATCAGTGATAACTTAATAGTA
7385379 AAT
1 AAT
7385382 TAATAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (44 bp):
AATCATCGATAACTTAATAGAAAATCAGTGATAACTTAATAGTA
Found at i:7385482 original size:22 final size:22
Alignment explanation
Indices: 7385421--7385527 Score: 83
Period size: 22 Copynumber: 4.9 Consensus size: 22
7385411 AACTTAGTAC
7385421 ATAGTAAATCAATAATAACATA
1 ATAGTAAATCAATAATAACATA
*
7385443 ATAGTAAATGC-ATAATAACTTA
1 ATAGTAAAT-CAATAATAACATA
* * * *
7385465 GTAGTGAATCAATTATAATATA
1 ATAGTAAATCAATAATAACATA
* * * *
7385487 GTTGTAAATGC-ATAACAATATA
1 ATAGTAAAT-CAATAATAACATA
* *
7385509 GTAGTAAATCAATGATAAC
1 ATAGTAAATCAATAATAAC
7385528 TTGTTAAAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.03
22 63 0.94
23 2 0.03
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (22 bp):
ATAGTAAATCAATAATAACATA
Found at i:7385494 original size:44 final size:44
Alignment explanation
Indices: 7385422--7385527 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 44
7385412 ACTTAGTACA
*
7385422 TAGTAAATCAATAATAACATAATAGTAAATGCATAATAACT-TAG
1 TAGTAAATCAATAATAACATAATAGTAAATGCATAACAA-TATAG
* * * * *
7385466 TAGTGAATCAATTATAATATAGTTGTAAATGCATAACAATATAG
1 TAGTAAATCAATAATAACATAATAGTAAATGCATAACAATATAG
*
7385510 TAGTAAATCAATGATAAC
1 TAGTAAATCAATAATAAC
7385528 TTGTTAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.31
Consensus pattern (44 bp):
TAGTAAATCAATAATAACATAATAGTAAATGCATAACAATATAG
Found at i:7385563 original size:24 final size:24
Alignment explanation
Indices: 7385531--7385582 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
7385521 TGATAACTTG
7385531 TTAAAAAAAGTGATTACTTACTAA
1 TTAAAAAAAGTGATTACTTACTAA
7385555 TTAAAAAAAGTGATTACTTACTAA
1 TTAAAAAAAGTGATTACTTACTAA
7385579 TTAA
1 TTAA
7385583 TCATTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (24 bp):
TTAAAAAAAGTGATTACTTACTAA
Found at i:7385729 original size:22 final size:22
Alignment explanation
Indices: 7385693--7385792 Score: 62
Period size: 22 Copynumber: 4.6 Consensus size: 22
7385683 TAATTTATAA
* *
7385693 ATAACTTAATGGTAAACCAA-TG
1 ATAACTTAGTAGTAAA-CAATTG
*
7385715 ATAACTTAGTAGTAAATAATTG
1 ATAACTTAGTAGTAAACAATTG
* * * *
7385737 ATAATTTAGTAATTAATAATTG
1 ATAACTTAGTAGTAAACAATTG
* ** *
7385759 AAAACTTAAAAGTAAA-ATAAT-
1 ATAACTTAGTAGTAAACA-ATTG
7385780 ATAACTTAGTAGT
1 ATAACTTAGTAGT
7385793 TCATTAATAA
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
21 13 0.22
22 47 0.78
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (22 bp):
ATAACTTAGTAGTAAACAATTG
Found at i:7386012 original size:22 final size:21
Alignment explanation
Indices: 7385987--7386048 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
7385977 AAAAATACAC
*
7385987 AATAATATTATAGTAAATTATT
1 AATAAT-TGATAGTAAATTATT
* *
7386009 AATAATTGGTAGCAAATTATT
1 AATAATTGATAGTAAATTATT
*
7386030 GATAACTTGATAGTAAATT
1 AATAA-TTGATAGTAAATT
7386049 GATAATTTAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.40
Consensus pattern (21 bp):
AATAATTGATAGTAAATTATT
Found at i:7386027 original size:21 final size:22
Alignment explanation
Indices: 7385996--7386048 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
7385986 CAATAATATT
*
7385996 ATAGTAAATTATTAATAA-TTG
1 ATAGCAAATTATTAATAACTTG
* *
7386017 GTAGCAAATTATTGATAACTTG
1 ATAGCAAATTATTAATAACTTG
*
7386039 ATAGTAAATT
1 ATAGCAAATT
7386049 GATAATTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (22 bp):
ATAGCAAATTATTAATAACTTG
Found at i:7386051 original size:19 final size:19
Alignment explanation
Indices: 7386027--7386066 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7386017 GTAGCAAATT
7386027 ATTGATAACTTGA-TAGTAA
1 ATTGATAA-TTGAGTAGTAA
*
7386046 ATTGATAATTTAGTAGTAA
1 ATTGATAATTGAGTAGTAA
7386065 AT
1 AT
7386067 CGCTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (19 bp):
ATTGATAATTGAGTAGTAA
Found at i:7386073 original size:19 final size:21
Alignment explanation
Indices: 7386040--7386087 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
7386030 GATAACTTGA
*
7386040 TAGTAAATTGATAAT-T-TAG
1 TAGTAAATCGATAATATATAG
*
7386059 TAGTAAATCGCTAATAATATAG
1 TAGTAAATCGATAAT-ATATAG
7386081 TAGTAAA
1 TAGTAAA
7386088 ATACTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.54
21 1 0.04
22 10 0.42
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (21 bp):
TAGTAAATCGATAATATATAG
Found at i:7386094 original size:22 final size:22
Alignment explanation
Indices: 7386050--7386198 Score: 83
Period size: 22 Copynumber: 6.8 Consensus size: 22
7386040 TAGTAAATTG
*
7386050 ATAATTTAGTAGTAAATCGCTA
1 ATAATTTAGTAGTAAATCACTA
*
7386072 ATAATATAGTAGTAAAAT-ACTA
1 ATAATTTAGTAGT-AAATCACTA
**
7386094 ATAATTTAGTTTTAAATCA--A
1 ATAATTTAGTAGTAAATCACTA
* * *
7386114 ATATACCTTTA-TAATAAATAATTA
1 ATA-A--TTTAGTAGTAAATCACTA
*
7386138 ATAATTTAGTAGTAAATTA-TCA
1 ATAATTTAGTAGTAAATCACT-A
* * * * *
7386160 ACAATTTAATTGTAAATCATTC
1 ATAATTTAGTAGTAAATCACTA
* *
7386182 ATAATTTAATGGTAAAT
1 ATAATTTAGTAGTAAAT
7386199 TATTCATAAC
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.04
21 10 0.10
22 72 0.72
23 10 0.10
24 4 0.04
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCACTA
Found at i:7386203 original size:22 final size:22
Alignment explanation
Indices: 7386128--7386243 Score: 99
Period size: 22 Copynumber: 5.3 Consensus size: 22
7386118 ACCTTTATAA
* * *
7386128 TAAATAATTAATAATTTAGTAG
1 TAAATTATTCATAATTTAATAG
* *
7386150 TAAATTA-TCAACAATTTAATTG
1 TAAATTATTC-ATAATTTAATAG
* *
7386172 TAAATCATTCATAATTTAATGG
1 TAAATTATTCATAATTTAATAG
*
7386194 TAAATTATTCATAACTTAATAG
1 TAAATTATTCATAATTTAATAG
* * * * *
7386216 CAAATTTTTTATAAATTAGTAG
1 TAAATTATTCATAATTTAATAG
7386238 TAAATT
1 TAAATT
7386244 GATCATTTAT
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
21 1 0.01
22 72 0.96
23 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (22 bp):
TAAATTATTCATAATTTAATAG
Found at i:7386299 original size:22 final size:22
Alignment explanation
Indices: 7386258--7386305 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
7386248 ATTTATTAAG
*
7386258 AAATTATCTATAACTCAATAGT
1 AAATTATCTATAACTCAATAAT
7386280 AAATTA-CTTATAACAT-AATAAT
1 AAATTATC-TATAAC-TCAATAAT
7386302 AAAT
1 AAAT
7386306 CAATATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 1 0.04
22 21 0.91
23 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATTATCTATAACTCAATAAT
Found at i:7386631 original size:11 final size:11
Alignment explanation
Indices: 7386615--7386680 Score: 60
Period size: 11 Copynumber: 6.0 Consensus size: 11
7386605 GTAGTTTTAA
*
7386615 AATAATAACTT
1 AATAATAAATT
*
7386626 AATAATTAATT
1 AATAATAAATT
* ** *
7386637 ATTGCTAACTT
1 AATAATAAATT
*
7386648 AGTAATAAATT
1 AATAATAAATT
7386659 AATAATAAATT
1 AATAATAAATT
*
7386670 AATAGTAAATT
1 AATAATAAATT
7386681 GTGACCATTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (11 bp):
AATAATAAATT
Found at i:7386877 original size:22 final size:22
Alignment explanation
Indices: 7386820--7386891 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
7386810 ATATAGTTTA
*
7386820 ATAGTAAATCATCAATAACTTC
1 ATAGTAAATCATGAATAACTTC
*
7386842 ATAGT---TAATG-ATAACTTC
1 ATAGTAAATCATGAATAACTTC
* *
7386860 ATAGTAAATCATGAATAATTTA
1 ATAGTAAATCATGAATAACTTC
7386882 ATA-TAAATCA
1 ATAGTAAATCA
7386892 ATGATAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 13 0.32
19 3 0.07
21 11 0.27
22 14 0.34
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAGTAAATCATGAATAACTTC
Found at i:7387026 original size:22 final size:22
Alignment explanation
Indices: 7386987--7387115 Score: 100
Period size: 22 Copynumber: 5.9 Consensus size: 22
7386977 ACATAGTAGC
**
7386987 AAATTA-TAATAAAATAATAGT
1 AAATTATTAATAACTTAATAGT
* *
7387008 AAATTATTGATAATTTAATAGT
1 AAATTATTAATAACTTAATAGT
* *
7387030 AAATTATTAATGACTTAATAAT
1 AAATTATTAATAACTTAATAGT
* * * *
7387052 AAATCACTAATAACTTAGTTGT
1 AAATTATTAATAACTTAATAGT
* * * *
7387074 AAATTAGTGATAATTTAATAAT
1 AAATTATTAATAACTTAATAGT
*
7387096 AAATTAGTTAATCA-TTAATA
1 AAATTA-TTAATAACTTAATA
7387116 ACTTTGTATT
Statistics
Matches: 83, Mismatches: 23, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
21 6 0.07
22 73 0.88
23 4 0.05
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATTATTAATAACTTAATAGT
Found at i:7387092 original size:52 final size:52
Alignment explanation
Indices: 7387048--7387155 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
7387038 AATGACTTAA
*
7387048 TAATAAATCACTAATAACTTAGT-TGTAAATTAGTGATAATTTAATAATAAAT
1 TAATAAATCACTAATAACTTAGTAT-TAAATTAGTGATAAATTAATAATAAAT
* * * * * *
7387100 TAGTTAATCATTAATAACTTTGTATTAAATTATTGATAAATTAATAGTAAAT
1 TAATAAATCACTAATAACTTAGTATTAAATTAGTGATAAATTAATAATAAAT
7387152 TAAT
1 TAAT
7387156 TATAATTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 46 0.98
53 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (52 bp):
TAATAAATCACTAATAACTTAGTATTAAATTAGTGATAAATTAATAATAAAT
Found at i:7387179 original size:66 final size:66
Alignment explanation
Indices: 7387109--7387292 Score: 165
Period size: 66 Copynumber: 2.8 Consensus size: 66
7387099 TTAGTTAATC
* * * * *
7387109 ATTAATAACTTTGTATTAAATTATTGATAAATTAATAGTAAATTAATTATAATTTTA-TAATAAA
1 ATTAATAACTTAGTAATAAATCATTAATAAATTAATAGTAAATCAATTATAA-TTTAGTAATAAA
7387173 TT
65 TT
* * * * * * *
7387175 ATTAATTACTTAGTAATAAATCATTAATGATTTACTAGTAAATCATTTATAATTTAGTAGTGAAT
1 ATTAATAACTTAGTAATAAATCATTAATAAATTAATAGTAAATCAATTATAATTTAGTAATAAAT
7387240 T
66 T
* * * * * * *
7387241 ACTAATAACTTAGGAGTTAATCATTAATAACA-TAGTAATAAATCAATAATAA
1 ATTAATAACTTAGTAATAAATCATTAATAA-ATTAATAGTAAATCAATTATAA
7387293 CTTAATTTTG
Statistics
Matches: 93, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
65 4 0.04
66 89 0.96
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (66 bp):
ATTAATAACTTAGTAATAAATCATTAATAAATTAATAGTAAATCAATTATAATTTAGTAATAAAT
T
Found at i:7387180 original size:11 final size:11
Alignment explanation
Indices: 7386987--7387202 Score: 70
Period size: 11 Copynumber: 20.0 Consensus size: 11
7386977 ACATAGTAGC
7386987 AAATTA-TAAT
1 AAATTATTAAT
* * *
7386997 AAAATAATAGT
1 AAATTATTAAT
*
7387008 AAATTATTGAT
1 AAATTATTAAT
* * *
7387019 AATTTAATAGT
1 AAATTATTAAT
7387030 AAATTATTAAT
1 AAATTATTAAT
* * *
7387041 GACTTAATAAT
1 AAATTATTAAT
* *
7387052 AAATCACTAAT
1 AAATTATTAAT
* *
7387063 AACTTAGTT-GT
1 AAATTA-TTAAT
* *
7387074 AAATTAGTGAT
1 AAATTATTAAT
* *
7387085 AATTTAATAAT
1 AAATTATTAAT
*
7387096 AAATTAGT--T
1 AAATTATTAAT
*
7387105 -AATCATTAAT
1 AAATTATTAAT
* *
7387115 AACTT-TGTATT
1 AAATTAT-TAAT
*
7387126 AAATTATTGAT
1 AAATTATTAAT
* *
7387137 AAATTAATAGT
1 AAATTATTAAT
7387148 AAATTAATT-AT
1 AAATT-ATTAAT
*
7387159 -AATTTTATAAT
1 AAATTAT-TAAT
7387170 AAATTATTAAT
1 AAATTATTAAT
* * *
7387181 TACTTAGTAAT
1 AAATTATTAAT
*
7387192 AAATCATTAAT
1 AAATTATTAAT
7387203 GATTTACTAG
Statistics
Matches: 140, Mismatches: 54, Indels: 23
0.65 0.25 0.11
Matches are distributed among these distances:
8 5 0.04
9 2 0.01
10 13 0.09
11 111 0.79
12 9 0.06
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (11 bp):
AAATTATTAAT
Found at i:7387191 original size:22 final size:22
Alignment explanation
Indices: 7387105--7387296 Score: 118
Period size: 22 Copynumber: 8.7 Consensus size: 22
7387095 TAAATTAGTT
* *
7387105 AATCATTAATAACTTTGTATTA
1 AATCATTAATAACTTAGTAATA
* * * * *
7387127 AATTATTGATAAATTAATAGTA
1 AATCATTAATAACTTAGTAATA
* *
7387149 AATTAATT-ATAATTTTA-TAATA
1 AA-TCATTAATAA-CTTAGTAATA
* *
7387171 AATTATTAATTACTTAGTAATA
1 AATCATTAATAACTTAGTAATA
* * * *
7387193 AATCATTAATGATTTACTAGTA
1 AATCATTAATAACTTAGTAATA
* * * *
7387215 AATCATTTATAATTTAGTAGTG
1 AATCATTAATAACTTAGTAATA
* * * * *
7387237 AATTACTAATAACTTAGGAGTT
1 AATCATTAATAACTTAGTAATA
*
7387259 AATCATTAATAACATAGTAATA
1 AATCATTAATAACTTAGTAATA
*
7387281 AATCAATAATAACTTA
1 AATCATTAATAACTTA
7387297 ATTTTGCAAT
Statistics
Matches: 131, Mismatches: 35, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
21 7 0.05
22 117 0.89
23 7 0.05
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (22 bp):
AATCATTAATAACTTAGTAATA
Found at i:7387936 original size:17 final size:16
Alignment explanation
Indices: 7387903--7387935 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7387893 ACCAAAACAT
7387903 ATCAAATATTATTAAA
1 ATCAAATATTATTAAA
7387919 ATCAAA-ATTATATAAA
1 ATCAAATATTAT-TAAA
7387935 A
1 A
7387936 AGAGTTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
ATCAAATATTATTAAA
Found at i:7390399 original size:2 final size:2
Alignment explanation
Indices: 7390392--7390422 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7390382 AAAGCTAATG
7390392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7390423 CAACGACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7390511 original size:3 final size:3
Alignment explanation
Indices: 7390505--7390529 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7390495 TTATAAAATT
7390505 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
7390530 AAAATTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7391952 original size:3 final size:3
Alignment explanation
Indices: 7391942--7391987 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
7391932 GTTCATAATA
7391942 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7391988 GTGTTTTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7393313 original size:35 final size:33
Alignment explanation
Indices: 7393239--7393313 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
7393229 TTTGCTTCTC
* ** * *
7393239 TTTTATTTTTTATTTTTTTTCATTTGTTTTTTA
1 TTTTAATTTTTATTTTTTTAAATTAGTTTTTAA
7393272 TATTTAATTTTTATTTTTTAATAAATTAGTTTTTAA
1 T-TTTAATTTTTATTTTTT--TAAATTAGTTTTTAA
7393308 TTTTAA
1 TTTTAA
7393314 CATTAAGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
33 1 0.03
34 16 0.47
35 5 0.15
36 12 0.35
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (33 bp):
TTTTAATTTTTATTTTTTTAAATTAGTTTTTAA
Found at i:7395889 original size:24 final size:24
Alignment explanation
Indices: 7395860--7395912 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7395850 TTATATAATT
*
7395860 TAATTATATTTATTCGATTTTAAA
1 TAATTATATTTATTCAATTTTAAA
* *
7395884 TAATTATATTTTTTTAATTTTAAA
1 TAATTATATTTATTCAATTTTAAA
7395908 -AATTA
1 TAATTA
7395913 ACAAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TAATTATATTTATTCAATTTTAAA
Found at i:7396333 original size:2 final size:2
Alignment explanation
Indices: 7396326--7396358 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7396316 GGACTGCTCT
7396326 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7396359 CTGCCAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7399319 original size:11 final size:11
Alignment explanation
Indices: 7399299--7399328 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7399289 TTCTTTCCCC
*
7399299 CTCTCTTTTTT
1 CTCTCATTTTT
7399310 CTCTCATTTTT
1 CTCTCATTTTT
7399321 CTCTCATT
1 CTCTCATT
7399329 CTCTCTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (11 bp):
CTCTCATTTTT
Found at i:7400087 original size:45 final size:45
Alignment explanation
Indices: 7399980--7400161 Score: 171
Period size: 45 Copynumber: 4.1 Consensus size: 45
7399970 CTTCCTAAAA
* * *
7399980 ACTCCTCTAAACAGAGGTTCCACAA-TTTTGAAAAAATAAAT--G
1 ACTCCTCTAAACAGAGGCTCAACAACTTTGGAAAAAATAAATAAG
* * * *
7400022 -CTCATCTAAATATAAGCTCAACAACTTTGGAAAAAATAAATAAG
1 ACTCCTCTAAACAGAGGCTCAACAACTTTGGAAAAAATAAATAAG
7400066 ACTCCTCTAAACAGAGGCTCAACAACTTT--AAGAAAATAAAATAAG
1 ACTCCTCTAAACAGAGGCTCAACAACTTTGGAA-AAAAT-AAATAAG
* * * * * *
7400111 GCTCCTCTAAATAGAGGTTTAACAAGTTTAGG-AAAAATAAATAAA
1 ACTCCTCTAAACAGAGGCTCAACAACTTT-GGAAAAAATAAATAAG
7400156 ACTCCT
1 ACTCCT
7400162 TAACAATCAT
Statistics
Matches: 113, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
41 18 0.16
42 15 0.13
43 2 0.02
44 6 0.05
45 66 0.58
46 5 0.04
47 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.25
Consensus pattern (45 bp):
ACTCCTCTAAACAGAGGCTCAACAACTTTGGAAAAAATAAATAAG
Found at i:7400161 original size:90 final size:86
Alignment explanation
Indices: 7399977--7400161 Score: 212
Period size: 90 Copynumber: 2.1 Consensus size: 86
7399967 ACACTTCCTA
* * * *
7399977 AAAACTCCTCTAAACAGAGGTTCCACAATTTTGAAAAAATAAATGCTCATCTAAATATAAGCTCA
1 AAAACTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGCTCATCTAAATAGAAGCTCA
7400042 ACAACTTTGGAAAAAATAAAT
66 ACAACTTTGGAAAAAATAAAT
* * *
7400063 AAGACTCCTCTAAACAGAGGCTCAACAACTTT-AAGAAAATAAAATAAGGCTCCTCTAAATAGAG
1 AAAACTCCTCTAAACAGAGGCTCAACAACTTTGAA-AAAAT-AAAT---GCTCATCTAAATAGAA
* * *
7400127 GTTTAACAAGTTTAGG-AAAAATAAAT
61 GCTCAACAACTTT-GGAAAAAATAAAT
7400153 AAAACTCCT
1 AAAACTCCT
7400162 TAACAATCAT
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
85 2 0.02
86 33 0.40
87 4 0.05
90 41 0.50
91 2 0.02
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.24
Consensus pattern (86 bp):
AAAACTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGCTCATCTAAATAGAAGCTCA
ACAACTTTGGAAAAAATAAAT
Found at i:7400308 original size:19 final size:18
Alignment explanation
Indices: 7400273--7400316 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
7400263 AAAGATTCAT
7400273 AAAAATTTTCAAATTTGC
1 AAAAATTTTCAAATTTGC
**
7400291 AAAAACTTTTCAGCTTTGC
1 AAAAA-TTTTCAAATTTGC
*
7400310 AAGAATT
1 AAAAATT
7400317 CATCAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
AAAAATTTTCAAATTTGC
Found at i:7400338 original size:14 final size:15
Alignment explanation
Indices: 7400313--7400341 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7400303 GCTTTGCAAG
7400313 AATTCATCAAAATTT
1 AATTCATCAAAATTT
7400328 AATTC-TCAAAATTT
1 AATTCATCAAAATTT
7400342 CAGTTTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTCATCAAAATTT
Found at i:7400877 original size:20 final size:20
Alignment explanation
Indices: 7400840--7400877 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7400830 TACATCCAAA
* *
7400840 AGTTCAAAGCTTCTCATTCT
1 AGTTCAAAGATTCACATTCT
7400860 AGTTCAAAGATTCACATT
1 AGTTCAAAGATTCACATT
7400878 TGATAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
AGTTCAAAGATTCACATTCT
Found at i:7401956 original size:19 final size:18
Alignment explanation
Indices: 7401934--7402010 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 18
7401924 AAGTTTTTTT
7401934 TCTTTTTTTAT-TTTTCTCA
1 TCTTTTTTT-TCTTTT-TCA
7401953 TCTTTTTTTTCTTTTTCA
1 TCTTTTTTTTCTTTTTCA
*
7401971 T-TTTTTTGTCATTTCTTCA
1 TCTTTTTTTTC-TTT-TTCA
7401990 T-TTTTTCATTTCTTTTGTCA
1 TCTTTTT--TTTCTTTT-TCA
7402010 T
1 T
7402011 TATTGATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
17 8 0.16
18 8 0.16
19 24 0.48
20 7 0.14
21 3 0.06
ACGTcount: A:0.09, C:0.16, G:0.03, T:0.73
Consensus pattern (18 bp):
TCTTTTTTTTCTTTTTCA
Found at i:7401958 original size:18 final size:17
Alignment explanation
Indices: 7401936--7401995 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
7401926 GTTTTTTTTC
7401936 TTTTTTTATT-TTTCTCA
1 TTTTTTT-TTCTTTCTCA
*
7401953 TCTTTTTTTTCTTTTTCA
1 T-TTTTTTTTCTTTCTCA
*
7401971 TTTTTTTGTCATTTCTTCA
1 TTTTTTTTTC-TTTC-TCA
7401990 TTTTTT
1 TTTTTT
7401996 CATTTCTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.31
18 16 0.44
19 9 0.25
ACGTcount: A:0.08, C:0.13, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTCTTTCTCA
Found at i:7401985 original size:16 final size:14
Alignment explanation
Indices: 7401927--7402005 Score: 54
Period size: 16 Copynumber: 5.3 Consensus size: 14
7401917 TTAATTTAAG
*
7401927 TTTTTTTTC-TTTT
1 TTTTTTTTCATTTC
*
7401940 TTTATTTTTC-TCATC
1 TTT-TTTTTCAT-TTC
*
7401955 TTTTTTTTCTTTTTC
1 TTTTTTTTC-ATTTC
7401970 ATTTTTTTGTCATTTC
1 -TTTTTTT-TCATTTC
7401986 TTCATTTTTTCATTTC
1 TT--TTTTTTCATTTC
7402002 TTTT
1 TTTT
7402006 GTCATTATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.06
14 15 0.28
15 8 0.15
16 21 0.39
17 7 0.13
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (14 bp):
TTTTTTTTCATTTC
Found at i:7406537 original size:19 final size:19
Alignment explanation
Indices: 7406492--7406556 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
7406482 GCAAAACTAA
* * **
7406492 AAAAAAACACATAAATAAT
1 AAAAAAATAAATAAATACC
*
7406511 AAATAAATAAATAAATACC
1 AAAAAAATAAATAAATACC
*
7406530 AAAAAAATATAA-AAAAACC
1 AAAAAAATA-AATAAATACC
7406549 AAAAAAAT
1 AAAAAAAT
7406557 GAAAACGGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 36 0.95
20 2 0.05
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAAAATAAATAAATACC
Found at i:7407791 original size:15 final size:17
Alignment explanation
Indices: 7407765--7407796 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7407755 TTTTTTTAGG
7407765 AACATAAAAATT-TTTA
1 AACATAAAAATTATTTA
7407781 AACAT-AAAATTATTTA
1 AACATAAAAATTATTTA
7407797 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AACATAAAAATTATTTA
Found at i:7407858 original size:6 final size:6
Alignment explanation
Indices: 7407834--7407911 Score: 61
Period size: 6 Copynumber: 12.2 Consensus size: 6
7407824 ACGACAAATC
7407834 ATAAAA AT--AA ATAACAA ATAAAA ATCATTAAA ATAAAA ACTAAAA ATAAAA
1 ATAAAA ATAAAA ATAA-AA ATAAAA AT-A--AAA ATAAAA A-TAAAA ATAAAA
* *
7407885 ATAAAA GTCAAAA TATAAAA TTAAAA A
1 ATAAAA AT-AAAA -ATAAAA ATAAAA A
7407912 ATGAAATTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
4 4 0.07
6 27 0.46
7 21 0.36
8 2 0.03
9 5 0.08
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:7407910 original size:13 final size:12
Alignment explanation
Indices: 7407862--7407923 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 12
7407852 TAAAAATCAT
7407862 TAAAA-TAAAAA
1 TAAAATTAAAAA
*
7407873 CTAAAAATAAAAA
1 -TAAAATTAAAAA
*
7407886 TAAAAGTCAAAATA
1 TAAAA-TTAAAA-A
7407900 TAAAATTAAAAAA
1 TAAAATT-AAAAA
*
7407913 TGAAATTAAAA
1 TAAAATTAAAA
7407924 TAGGAAAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 14 0.33
13 18 0.43
14 10 0.24
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:7408845 original size:3 final size:3
Alignment explanation
Indices: 7408784--7408829 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
7408774 AAAAAATGTA
* * *
7408784 AAT AAT AAT AGT GAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7408830 TACTATAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7409690 original size:60 final size:60
Alignment explanation
Indices: 7409582--7409698 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
7409572 ACTGATTAAA
* ** *** *
7409582 ATCGAGTCAAGGTCGTAGATGAATGATCGAGATGATGTCACGGGTCTAAAAGTGATCAAG
1 ATCGAGTCAAGGTCATAGATGAATGATCGAGACAATGTCACAAATCTAAAAATGATCAAG
**
7409642 ATCGAGTCAAGGTCATAGATGAATGATCGAGACAATGTCGTAAATCTAAAAATGATC
1 ATCGAGTCAAGGTCATAGATGAATGATCGAGACAATGTCACAAATCTAAAAATGATC
7409699 TGACCTGAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (60 bp):
ATCGAGTCAAGGTCATAGATGAATGATCGAGACAATGTCACAAATCTAAAAATGATCAAG
Found at i:7410504 original size:56 final size:55
Alignment explanation
Indices: 7410395--7410512 Score: 141
Period size: 56 Copynumber: 2.1 Consensus size: 55
7410385 TTGAATTTTT
* *
7410395 TTTTGTTTTTTCTGTTCAAGCCGCCTTTTTGGGTTTTCAACTCGAGCTCTTTTCTCTC
1 TTTT-TTTTTTCTGTTCAAGCCACCTTTTTGGGTTTTCAACTCAAGCTCTTTTC-C-C
* * *
7410453 TTTTTTTTTT-TGTTCAAGCTA-CTCTTTTGGGTTTTCAACTTAAGCTTTTTTCCC
1 TTTTTTTTTTCTGTTCAAGCCACCT-TTTTGGGTTTTCAACTCAAGCTCTTTTCCC
7410507 TTTTTT
1 TTTTTT
7410513 GTCTTTTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
54 7 0.13
55 3 0.06
56 34 0.63
57 6 0.11
58 4 0.07
ACGTcount: A:0.10, C:0.20, G:0.13, T:0.57
Consensus pattern (55 bp):
TTTTTTTTTTCTGTTCAAGCCACCTTTTTGGGTTTTCAACTCAAGCTCTTTTCCC
Found at i:7419987 original size:25 final size:24
Alignment explanation
Indices: 7419959--7420030 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 24
7419949 ACAATAAATA
7419959 AATAATTAAGCAAATATAAGCAATG
1 AATAATTAAGCAAATATAA-CAATG
*
7419984 AATAA-AAAG--AA-A-AACAAATG
1 AATAATTAAGCAAATATAAC-AATG
*
7420004 AATAATTAAGCAAGTATAAACAATG
1 AATAATTAAGCAAATAT-AACAATG
7420029 AA
1 AA
7420031 AAGAAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
19 1 0.03
20 11 0.30
21 4 0.11
22 2 0.05
23 1 0.03
24 4 0.11
25 11 0.30
26 3 0.08
ACGTcount: A:0.62, C:0.07, G:0.11, T:0.19
Consensus pattern (24 bp):
AATAATTAAGCAAATATAACAATG
Found at i:7420009 original size:45 final size:43
Alignment explanation
Indices: 7419954--7420073 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 43
7419944 TATGTACAAT
*
7419954 AAATAAATAATTAAGCAAATATAAGCAATGAATAAAAAGAAA-AA
1 AAATAAATAATTAAGCAAGTATAAGCAATG-A-AAAAAGAAATAA
* *
7419998 CAAATGAATAATTAAGCAAGTATAAACAATG--AAAAGAAATAA
1 -AAATAAATAATTAAGCAAGTATAAGCAATGAAAAAAGAAATAA
*
7420040 AAATAAATAACTAAGCAAGTATAAGCAATGAAAA
1 AAATAAATAATTAAGCAAGTATAAGCAATGAAAA
7420074 GGAACAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 35 0.53
42 2 0.03
43 2 0.03
45 27 0.41
ACGTcount: A:0.64, C:0.07, G:0.11, T:0.18
Consensus pattern (43 bp):
AAATAAATAATTAAGCAAGTATAAGCAATGAAAAAAGAAATAA
Found at i:7420900 original size:7 final size:7
Alignment explanation
Indices: 7420888--7420934 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
7420878 ATCTGAAAAA
7420888 TATTTTT
1 TATTTTT
7420895 TATTTTT
1 TATTTTT
7420902 TA-TTTT
1 TATTTTT
7420908 TA-TTTT
1 TATTTTT
7420914 TATTTTT
1 TATTTTT
7420921 T-TGTTTT
1 TAT-TTTT
*
7420928 TGTTTTT
1 TATTTTT
7420935 GTTTTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 13 0.35
7 23 0.62
8 1 0.03
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:7420907 original size:6 final size:6
Alignment explanation
Indices: 7420891--7420920 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
7420881 TGAAAAATAT
7420891 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
7420921 TTGTTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:7420907 original size:13 final size:13
Alignment explanation
Indices: 7420891--7420941 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
7420881 TGAAAAATAT
7420891 TTTTTATTTTTTA
1 TTTTTATTTTTTA
7420904 TTTTTA-TTTTTA
1 TTTTTATTTTTTA
* *
7420916 TTTTTTTGTTTTTG
1 TTTTTAT-TTTTTA
*
7420930 TTTTTGTTTTTT
1 TTTTTATTTTTT
7420942 TTTGCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 11 0.33
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:7420922 original size:20 final size:20
Alignment explanation
Indices: 7420891--7420942 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
7420881 TGAAAAATAT
7420891 TTTTTA-TTTTTTATTTTTA
1 TTTTTATTTTTTTATTTTTA
* *
7420910 TTTTTATTTTTTTGTTTTTG
1 TTTTTATTTTTTTATTTTTA
*
7420930 TTTTTGTTTTTTT
1 TTTTTATTTTTTT
7420943 TTGCTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.87
Consensus pattern (20 bp):
TTTTTATTTTTTTATTTTTA
Found at i:7421088 original size:18 final size:17
Alignment explanation
Indices: 7421065--7421115 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
7421055 AAAGTCTAAT
*
7421065 ATAAAATAGAAAATAAA
1 ATAAAAAAGAAAATAAA
* *
7421082 CTCAAAAAATAAAATTAAA
1 AT-AAAAAAGAAAA-TAAA
7421101 ATAAAAAAGAAAATA
1 ATAAAAAAGAAAATA
7421116 TGTTATTCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (17 bp):
ATAAAAAAGAAAATAAA
Found at i:7424573 original size:2 final size:2
Alignment explanation
Indices: 7424566--7424591 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7424556 AAATATCAAA
7424566 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7424592 TAAACAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7426567 original size:86 final size:86
Alignment explanation
Indices: 7426452--7426618 Score: 325
Period size: 86 Copynumber: 1.9 Consensus size: 86
7426442 GTGAGAACAG
7426452 TAAACTAATAATGAAGTTTATTATTAATGGTAGACATGGAATTGAACATAACTACTAATAAACTC
1 TAAACTAATAATGAAGTTTATTATTAATGGTAGACATGGAATTGAACATAACTACTAATAAACTC
*
7426517 AGTTTTTGTTCTTTTCTTTTA
66 AATTTTTGTTCTTTTCTTTTA
7426538 TAAACTAATAATGAAGTTTATTATTAATGGTAGACATGGAATTGAACATAACTACTAATAAACTC
1 TAAACTAATAATGAAGTTTATTATTAATGGTAGACATGGAATTGAACATAACTACTAATAAACTC
7426603 AATTTTTGTTCTTTTC
66 AATTTTTGTTCTTTTC
7426619 CTTTCAAACA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (86 bp):
TAAACTAATAATGAAGTTTATTATTAATGGTAGACATGGAATTGAACATAACTACTAATAAACTC
AATTTTTGTTCTTTTCTTTTA
Found at i:7429928 original size:50 final size:50
Alignment explanation
Indices: 7429850--7429944 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
7429840 TACTGGTTTG
* * *
7429850 TCCTATCCCCTATTTGATTATTCGGAAAGGCTTCCTCCAAAAACACACTT
1 TCCTATCCCCTATTTGATCATCCAGAAAGGCTTCCTCCAAAAACACACTT
*
7429900 TCCTATCCCCTATTTGATCATCCAGAAAGGTTTCCTCCAAAAACA
1 TCCTATCCCCTATTTGATCATCCAGAAAGGCTTCCTCCAAAAACA
7429945 AACGCAGTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (50 bp):
TCCTATCCCCTATTTGATCATCCAGAAAGGCTTCCTCCAAAAACACACTT
Found at i:7430716 original size:1 final size:1
Alignment explanation
Indices: 7430712--7430744 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
7430702 TTCTTTCAAT
7430712 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7430745 CCACTAAGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7432291 original size:21 final size:21
Alignment explanation
Indices: 7432258--7432300 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7432248 CATACTGGCT
* *
7432258 TCCCTTGATTCAGGCATTCGC
1 TCCCTAGAATCAGGCATTCGC
7432279 TCCCTAGAATCAGGCATTCGC
1 TCCCTAGAATCAGGCATTCGC
7432300 T
1 T
7432301 GATGTGTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.30
Consensus pattern (21 bp):
TCCCTAGAATCAGGCATTCGC
Found at i:7434420 original size:26 final size:27
Alignment explanation
Indices: 7434391--7434453 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
7434381 ACTTAATATT
7434391 TTAATATTTTTAAATATT-TTTTAT-AA
1 TTAATATTTTTAAA-ATTATTTTATAAA
* **
7434417 TTAAAATTAATAAAATTATTTTATAAA
1 TTAATATTTTTAAAATTATTTTATAAA
*
7434444 ATAATATTTT
1 TTAATATTTT
7434454 ATACTAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
25 3 0.11
26 17 0.61
27 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAATATTTTTAAAATTATTTTATAAA
Found at i:7436556 original size:3 final size:3
Alignment explanation
Indices: 7436541--7436608 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
7436531 NNNNAAGAGA
*
7436541 TAG TAG TAC TAG TAG TAG TAG TAG -AG TAG TAG TAG TAG TAG TAG TTAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG -TAG
7436589 TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TA
7436609 ATAATGTCGA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.92
4 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:7441163 original size:15 final size:16
Alignment explanation
Indices: 7441133--7441176 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
7441123 TAATTTTTGC
* *
7441133 TAAAAAATAA-AAAAA
1 TAAAAAATAATTAAAT
*
7441148 TAAAAAATGATTAAAT
1 TAAAAAATAATTAAAT
7441164 TAAAAAATAATTA
1 TAAAAAATAATTA
7441177 TTGACGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
TAAAAAATAATTAAAT
Found at i:7441964 original size:14 final size:14
Alignment explanation
Indices: 7441930--7441956 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7441920 TACTTGTCAT
7441930 AAATGAATTTTAAG
1 AAATGAATTTTAAG
7441944 AAATGAATTTTAA
1 AAATGAATTTTAA
7441957 AATTTGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AAATGAATTTTAAG
Found at i:7442824 original size:19 final size:19
Alignment explanation
Indices: 7442800--7442836 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7442790 GTCATTGTCT
*
7442800 ATTTATTATAGTAGGTAAC
1 ATTTATTAGAGTAGGTAAC
*
7442819 ATTTATTAGATTAGGTAA
1 ATTTATTAGAGTAGGTAA
7442837 TATGAGGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
ATTTATTAGAGTAGGTAAC
Found at i:7457871 original size:40 final size:40
Alignment explanation
Indices: 7457814--7457891 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
7457804 ATGACTATGT
*
7457814 ATAACTAATCGATAACTTCCTTATCCTTAAATTACTTAGC
1 ATAACTAATCGACAACTTCCTTATCCTTAAATTACTTAGC
* *
7457854 ATAACTAATTGACAACTTCTTTATCCTTAAATTACTTA
1 ATAACTAATCGACAACTTCCTTATCCTTAAATTACTTA
7457892 ACAAGTTCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.40
Consensus pattern (40 bp):
ATAACTAATCGACAACTTCCTTATCCTTAAATTACTTAGC
Found at i:7462300 original size:189 final size:188
Alignment explanation
Indices: 7461985--7462349 Score: 590
Period size: 189 Copynumber: 1.9 Consensus size: 188
7461975 AAAATATAAA
* * *
7461985 ATAAAATTTTCAAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAATAAA
1 ATAAAATTTTAAAAAAAACATTGTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAATAAA
*
7462050 ATTTCAATAAAAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA
66 ATTTCAATAAAAAAAAAGATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAA
7462115 ACTTTCAAAAAAAAGT-ATTTTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAG
131 ACTTTC-AAAAAAAGTGATTTTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAG
*
7462173 ATAAAATTTTAAGGAAAAAACATTGTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAATA
1 ATAAAATTTTAA--AAAAAACATTGTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAATA
*
7462238 AAATTTCAATAAAAAAAAAGATA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATA
64 AAATTTCAATAAAAAAAAAGATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATA
* * * * *
7462302 AAATTTTCAAAAAAGGTGTTTTTTTTAAGGAAAAGTTGAAAGTATCAA
129 AAACTTTCAAAAAAAGTGATTTTTTTAAGGAAAAATTGAAAATATCAA
7462350 AATTTCTTGA
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
188 19 0.12
189 73 0.45
190 71 0.44
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (188 bp):
ATAAAATTTTAAAAAAAACATTGTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAATAAA
ATTTCAATAAAAAAAAAGATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAA
ACTTTCAAAAAAAGTGATTTTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAG
Found at i:7462360 original size:63 final size:62
Alignment explanation
Indices: 7461982--7462349 Score: 424
Period size: 63 Copynumber: 5.9 Consensus size: 62
7461972 TAAAAAATAT
*
7461982 AAAATAAAATTTTC--AAAAAA-ATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTCAAAAAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
7462041 AAAAATAAAATTTCAATAAAAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 -AAAATAAAATTT---TCAAAAAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT
7462106 G
62 G
* * * *
7462107 AAAATAAAACTTTCAAAAAAAAGTATTTTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTG
1 AAAATAAAATTTTCAAAAAAAAG-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
7462170 AAGATAAAATTTT-AAGGAAAAA-ACATTGTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTCAA-AAAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
7462231 AAAAATAAAATTTCAATAAAAAAAAAGATA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTT
1 -AAAATAAAATTT---TCAAAAAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT
7462295 G
62 G
** * *
7462296 AAAATAAAATTTTCAAAAAAGGTGTTTTTTTTAAGGAAAAGTTGAAAGTATCAA
1 AAAATAAAATTTTCAAAAAA-AAGATATTTTTAAGGAAAAGTTGAAAGTATCAA
7462350 AATTTCTTGA
Statistics
Matches: 261, Mismatches: 31, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
60 12 0.05
61 41 0.16
62 25 0.10
63 76 0.29
64 12 0.05
65 54 0.21
66 41 0.16
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (62 bp):
AAAATAAAATTTTCAAAAAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:7467264 original size:6 final size:6
Alignment explanation
Indices: 7467246--7467279 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
7467236 TTAAAAATTT
*
7467246 TTTCTC TTTTCTC TTTCTC TCTCTC TTTCTC TTT
1 TTTCTC -TTTCTC TTTCTC TTTCTC TTTCTC TTT
7467280 TCCTTAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCTC
Found at i:7467985 original size:3 final size:3
Alignment explanation
Indices: 7467977--7468010 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
7467967 AAGAAAAAAG
*
7467977 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7468011 GTAGTAGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7470513 original size:16 final size:18
Alignment explanation
Indices: 7470492--7470528 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
7470482 AATAATTTTA
*
7470492 TTTAAATAT-TTTA-ATT
1 TTTAAAGATATTTACATT
7470508 TTTAAAGATATTTACATT
1 TTTAAAGATATTTACATT
7470526 TTT
1 TTT
7470529 CTATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 4 0.22
18 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTAAAGATATTTACATT
Found at i:7472030 original size:6 final size:6
Alignment explanation
Indices: 7471981--7472058 Score: 66
Period size: 6 Copynumber: 12.5 Consensus size: 6
7471971 AAAATTTAAA
* * *
7471981 ATTTTT ATTTATT AATTTTA ACTTTT ATTTTT ACTTTT ATTTTT ATTTTTT
1 ATTTTT ATTT-TT -ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTTT
* * * *
7472032 ATTATT ATTATT ATTATT ATTATT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
7472059 ATTGATTAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
6 49 0.79
7 9 0.15
8 4 0.06
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:7472030 original size:19 final size:18
Alignment explanation
Indices: 7471981--7472061 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 18
7471971 AAAATTTAAA
*
7471981 ATTTTTATTTATTAATTTT
1 ATTTTTATTT-TTTATTTT
*
7472000 AACTTTTA-TTTTTACTTTT
1 -ATTTTTATTTTTTA-TTTT
7472019 ATTTTTATTTTTTATTATT
1 ATTTTTATTTTTTATT-TT
*
7472038 ATTATTATTATTATTATTATT
1 ATTTTTATT-TT-TTATT-TT
7472059 ATT
1 ATT
7472062 GATTAATCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
18 11 0.21
19 22 0.42
20 8 0.15
21 11 0.21
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTTTATTTT
Found at i:7472038 original size:3 final size:3
Alignment explanation
Indices: 7472017--7472066 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
7472007 ATTTTTACTT
*
7472017 TTA TTT TTA TT- TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
7472064 TTA
1 TTA
7472067 ATCTTAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7473715 original size:15 final size:14
Alignment explanation
Indices: 7473667--7473714 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
7473657 TAATCACACG
7473667 ATAATATATT-ATA
1 ATAATATATTAATA
* * *
7473680 ATAATTTATAAAAA
1 ATAATATATTAATA
7473694 ATAATAATATTAATA
1 ATAAT-ATATTAATA
7473709 ATAATA
1 ATAATA
7473715 ACCATAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 8 0.30
14 8 0.30
15 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATATATTAATA
Found at i:7486550 original size:13 final size:13
Alignment explanation
Indices: 7486534--7486558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7486524 ATTTCTTCTT
7486534 CAAATTTCTAAAA
1 CAAATTTCTAAAA
7486547 CAAATTTCTAAA
1 CAAATTTCTAAA
7486559 TCTCATTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAATTTCTAAAA
Found at i:7488794 original size:19 final size:19
Alignment explanation
Indices: 7488770--7488806 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7488760 GTCATTGTCT
7488770 ATTTATTAGATTAGGTAAC
1 ATTTATTAGATTAGGTAAC
7488789 ATTTATTAGATTAGGTAA
1 ATTTATTAGATTAGGTAA
7488807 TATTAGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
ATTTATTAGATTAGGTAAC
Found at i:7488812 original size:15 final size:18
Alignment explanation
Indices: 7488772--7488811 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
7488762 CATTGTCTAT
7488772 TTATTAGATTAGGTAACA
1 TTATTAGATTAGGTAACA
*
7488790 TTTATTAGATTAGGTAATA
1 -TTATTAGATTAGGTAACA
7488809 TTA
1 TTA
7488812 GGTATACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.45
Consensus pattern (18 bp):
TTATTAGATTAGGTAACA
Found at i:7489854 original size:40 final size:40
Alignment explanation
Indices: 7489797--7489872 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
7489787 ATGACTATGT
* *
7489797 ATAACTAATCGATAACTTCCTTATCCTTAAATTACTTAGC
1 ATAACTAATCGACAACTTCCTTATCCCTAAATTACTTAGC
* *
7489837 ATAACTAATTGACAACTTCTTTATCCCTAAATTACT
1 ATAACTAATCGACAACTTCCTTATCCCTAAATTACT
7489873 CAACAAGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (40 bp):
ATAACTAATCGACAACTTCCTTATCCCTAAATTACTTAGC
Found at i:7493557 original size:15 final size:14
Alignment explanation
Indices: 7493536--7493567 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7493526 GAGGGGAGAG
7493536 AAAAGA-AAGGGAA
1 AAAAGAGAAGGGAA
7493549 AAAAGAGAAGGGAA
1 AAAAGAGAAGGGAA
7493563 AAAAG
1 AAAAG
7493568 TGATCTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAAAGAGAAGGGAA
Found at i:7494088 original size:123 final size:121
Alignment explanation
Indices: 7493918--7494288 Score: 428
Period size: 123 Copynumber: 3.0 Consensus size: 121
7493908 ATAAAAAAAT
* * * * *
7493918 AAAAA-AAAATTTTCA-AAAGAAACATTCTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAA
1 AAAAATAAAATTTTAAGAAAAAAACATTGTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAA
*
7493981 ATAAAATTTTTAAAAAA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
66 ATAAAATTTTAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
7494036 AAAAATAAAATTTCAATAA-AAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAATAAAATTT---TAAGAAAAAA-ACATTGTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
** * * *
7494100 GGGAATAAAATTTTCAAAAAAAGTATTTTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTG
62 GAAAATAAAATTTT-AAAAAAAGTA--TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
7494163 -AAGATAAAATTTTAAGGAAAAAACATTGTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA
1 AAAAATAAAATTTTAAGAAAAAAACATTGTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAA
* * *
7494227 ATAAAATTTTCAAAAAATGTGTCTTTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTG
66 ATAAAATTTT-AAAAAA--AGT-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
7494287 AA
1 AA
7494289 TAAAGGCTTT
Statistics
Matches: 212, Mismatches: 27, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
118 5 0.02
119 7 0.03
122 7 0.03
123 101 0.48
124 43 0.20
125 5 0.02
126 11 0.05
127 33 0.16
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (121 bp):
AAAAATAAAATTTTAAGAAAAAAACATTGTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAA
ATAAAATTTTAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:7494152 original size:62 final size:61
Alignment explanation
Indices: 7493945--7494288 Score: 394
Period size: 61 Copynumber: 5.6 Consensus size: 61
7493935 AGAAACATTC
* * *
7493945 TTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAAATTTT-TAAAAA--ATATTT
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAAGTATATTT
7494003 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAAATTTCAATAAAAAAAAG-ATATT
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG-AAAATAAAATTT---T-AAAAAAAGTATATT
7494067 T
61 T
* ** *
7494068 TTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGGAATAAAATTTTCAAAAAAAGTATTTTT
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT-AAAAAAAGTATATTT
* * * * * *
7494130 TTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAGATAAAATTTTAAGGAAAAA--ACATTG
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAA--AAAAAGTATATTT
* * * *
7494191 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAATGTGTCTTTT
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT-AAAAAAAGTAT-ATTT
*
7494254 TTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAA
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAA
7494289 TAAAGGCTTT
Statistics
Matches: 242, Mismatches: 30, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
58 31 0.13
59 12 0.05
60 4 0.02
61 55 0.23
62 47 0.19
63 40 0.17
64 15 0.06
65 38 0.16
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (61 bp):
TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAAGTATATTT
Found at i:7498187 original size:18 final size:18
Alignment explanation
Indices: 7498166--7498231 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
7498156 AAAAGGATGA
7498166 AAAAATGAAAAGAAAAAG
1 AAAAATGAAAAGAAAAAG
*
7498184 AAAAA-GAGAAAGAAAAAAT
1 AAAAATGA-AAAG-AAAAAG
* *
7498203 AAAAAAG-AGAGAAAAAG
1 AAAAATGAAAAGAAAAAG
7498220 AAAAATGGAAAA
1 AAAAAT-GAAAA
7498232 AATATGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
17 12 0.32
18 13 0.34
19 12 0.32
20 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAAATGAAAAGAAAAAG
Found at i:7498206 original size:6 final size:6
Alignment explanation
Indices: 7498173--7498224 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
7498163 TGAAAAAATG
* *
7498173 AAAAGA AAAAGA AAAAGA GAAAGA AAAA-A TAAAA-A AGAGAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAAAGA A-AAAGA AAAAGA
7498221 AAAA
1 AAAA
7498225 TGGAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 2 0.05
6 35 0.90
7 2 0.05
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:7498216 original size:22 final size:22
Alignment explanation
Indices: 7498184--7498225 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7498174 AAAGAAAAAG
*
7498184 AAAAAGAGAAAGA-AAAAATAA
1 AAAAAGAGAAAAAGAAAAATAA
7498205 AAAAGAGAGAAAAAGAAAAAT
1 AAAA-AGAGAAAAAGAAAAAT
7498226 GGAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (22 bp):
AAAAAGAGAAAAAGAAAAATAA
Found at i:7498257 original size:34 final size:32
Alignment explanation
Indices: 7498141--7498249 Score: 91
Period size: 34 Copynumber: 3.3 Consensus size: 32
7498131 ACAATGGGTG
*
7498141 AAAGATGAGAAAAA-AAAAAGGATGAAAAAATGAAA
1 AAAGA-GAGAAAAAGAAAAATG--GAAAAAAT-AAA
* *
7498176 AGAA-AAAGAAAAAGAGAAA--GAAAAAATAAA
1 A-AAGAGAGAAAAAGAAAAATGGAAAAAATAAA
7498206 AAAGAGAGAAAAAGAAAAATGGAAAAAATATGAA
1 AAAGAGAGAAAAAGAAAAATGGAAAAAATA--AA
*
7498240 AATGAGAGAA
1 AAAGAGAGAA
7498250 TATGAAAACT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
29 2 0.03
30 17 0.27
31 8 0.13
32 9 0.15
34 18 0.29
35 6 0.10
36 2 0.03
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (32 bp):
AAAGAGAGAAAAAGAAAAATGGAAAAAATAAA
Found at i:7499543 original size:46 final size:47
Alignment explanation
Indices: 7499497--7499811 Score: 329
Period size: 46 Copynumber: 6.9 Consensus size: 47
7499487 CTAAATTTTC
** * *
7499497 AAATGAGAATCTTT-GA-GCCTT-AAATGAGAATCTTTAAGATATTTT
1 AAATGAGAATCTTTAGATGTTTTCAAATGAGAATCTTTAAGA-GTCTT
* *
7499542 CAAATAAGAATCTTTAAGATGTTTTTAAAT--GAATCTTT--GAGTCTT
1 -AAATGAGAATCTTT-AGATGTTTTCAAATGAGAATCTTTAAGAGTCTT
7499587 AAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT--GAGTCTT
1 AAATGAGAATCTTT-AGATGTTTTCAAATGAGAATCTTTAAGAGTCTT
* *
7499633 AAATGAGAATCTTTAAGACGTTTTCAAATGAGAAT-TTT-TGAGTCTT
1 AAATGAGAATCTTT-AGATGTTTTCAAATGAGAATCTTTAAGAGTCTT
7499679 AAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT-A-AGTCTT
1 AAATGAGAATCTTT-AGATGTTTTCAAATGAGAATCTTTAAGAGTCTT
* *
7499725 AAATAAGAATCTTTAAGATGTTTTCAAATGAGAATCTTTAAGATGTTTT
1 AAATGAGAATCTTT-AGATGTTTTCAAATGAGAATCTTTAAGA-GTCTT
* *
7499774 CAAATGAGAATCTTT-GA-GTCTT-AAATGAGAACCTTTAA
1 -AAATGAGAATCTTTAGATGTTTTCAAATGAGAATCTTTAA
7499812 AACAATTTCA
Statistics
Matches: 242, Mismatches: 15, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
44 27 0.11
45 6 0.02
46 164 0.68
47 8 0.03
48 13 0.05
49 7 0.03
50 17 0.07
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (47 bp):
AAATGAGAATCTTTAGATGTTTTCAAATGAGAATCTTTAAGAGTCTT
Found at i:7499552 original size:25 final size:25
Alignment explanation
Indices: 7499492--7499841 Score: 347
Period size: 25 Copynumber: 15.0 Consensus size: 25
7499482 AAGTCCTAAA
7499492 TTTTCAAATGAGAATCTTT--GA-G
1 TTTTCAAATGAGAATCTTTAAGATG
** *
7499514 CCTT-AAATGAGAATCTTTAAGATA
1 TTTTCAAATGAGAATCTTTAAGATG
*
7499538 TTTTCAAATAAGAATCTTTAAGATG
1 TTTTCAAATGAGAATCTTTAAGATG
*
7499563 TTTTTAAAT--GAATCTTT--GA-G
1 TTTTCAAATGAGAATCTTTAAGATG
*
7499583 TCTT-AAATGAGAATCTTTAAGATG
1 TTTTCAAATGAGAATCTTTAAGATG
7499607 TTTTCAAATGAGAATCTTT--GA-G
1 TTTTCAAATGAGAATCTTTAAGATG
* *
7499629 TCTT-AAATGAGAATCTTTAAGACG
1 TTTTCAAATGAGAATCTTTAAGATG
*
7499653 TTTTCAAATGAGAAT-TTT-TGA-G
1 TTTTCAAATGAGAATCTTTAAGATG
*
7499675 TCTT-AAATGAGAATCTTTAAGATG
1 TTTTCAAATGAGAATCTTTAAGATG
7499699 TTTTCAAATGAGAATCTTT-A-A-G
1 TTTTCAAATGAGAATCTTTAAGATG
* *
7499721 TCTT-AAATAAGAATCTTTAAGATG
1 TTTTCAAATGAGAATCTTTAAGATG
7499745 TTTTCAAATGAGAATCTTTAAGATG
1 TTTTCAAATGAGAATCTTTAAGATG
7499770 TTTTCAAATGAGAATCTTT--GA-G
1 TTTTCAAATGAGAATCTTTAAGATG
* * * **
7499792 TCTT-AAATGAGAACCTTTAAAACA
1 TTTTCAAATGAGAATCTTTAAGATG
* *
7499816 ATTTCAAATGAGAATCTTTGAGATG
1 TTTTCAAATGAGAATCTTTAAGATG
7499841 T
1 T
7499842 GAAACCTTAA
Statistics
Matches: 270, Mismatches: 32, Indels: 49
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.01
20 4 0.01
21 74 0.27
22 22 0.08
23 25 0.09
24 24 0.09
25 117 0.43
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (25 bp):
TTTTCAAATGAGAATCTTTAAGATG
Found at i:7499692 original size:92 final size:92
Alignment explanation
Indices: 7499518--7499811 Score: 384
Period size: 92 Copynumber: 3.2 Consensus size: 92
7499508 TTTGAGCCTT
* * *
7499518 AAATGAGAATCTTTAAGATATTTTCAAATAAGAATCTTTAAGATGTTTTTAAAT--GAATCTTTG
1 AAATGAGAATCTTTAAG---TCTT-AAATAAGAATCTTTAAGATGTTTTCAAATGAGAATTTTTG
7499581 AGTCTTAAATGAGAATCTTTAAGATGTTTTC
62 AGTCTTAAATGAGAATCTTTAAGATGTTTTC
* * *
7499612 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATTTTTGAGTC
1 AAATGAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATTTTTGAGTC
7499677 TTAAATGAGAATCTTTAAGATGTTTTC
66 TTAAATGAGAATCTTTAAGATGTTTTC
*
7499704 AAATGAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATCTTTAAGAT
1 AAATGAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAAT-TTT-TGA-
* *
7499769 GTTTTCAAATGAGAATCTTT--GA-GTCTT-
63 GTCTT-AAATGAGAATCTTTAAGATGTTTTC
*
7499796 AAATGAGAACCTTTAA
1 AAATGAGAATCTTTAA
7499812 AACAATTTCA
Statistics
Matches: 181, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
90 26 0.14
91 3 0.02
92 107 0.59
93 7 0.04
94 20 0.11
95 4 0.02
96 14 0.08
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (92 bp):
AAATGAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATTTTTGAGTC
TTAAATGAGAATCTTTAAGATGTTTTC
Found at i:7499795 original size:71 final size:71
Alignment explanation
Indices: 7499492--7499841 Score: 450
Period size: 71 Copynumber: 5.0 Consensus size: 71
7499482 AAGTCCTAAA
* * *
7499492 TTTTCAAATGAGAATCTTTGAGCCTTAAATGAGAATCTTTAAGATATTTTCAAATAAGAATCTTT
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
7499557 AAGATG
66 AAGATG
*
7499563 TTTTTAAAT--GAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
7499626 --GA-G
66 AAGATG
* * * *
7499629 TCTT-AAATGAGAATCTTTAAGACGTTTTCAAATGAGAAT-TTT-TGA-GTCTT-AAATGAGAAT
1 TTTTCAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATCTTTAAGATGTTTTCAAATGAGAAT
7499689 CTTTAAGATG
62 CTTTAAGATG
* *
7499699 TTTTCAAATGAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
7499764 AAGATG
66 AAGATG
* * ***
7499770 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAACCTTTAAAACAATTTCAAATGAGAATCTTT
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
*
7499835 GAGATG
66 AAGATG
7499841 T
1 T
7499842 GAAACCTTAA
Statistics
Matches: 243, Mismatches: 22, Indels: 28
0.83 0.08 0.10
Matches are distributed among these distances:
65 4 0.02
66 4 0.02
67 33 0.14
68 11 0.05
69 60 0.25
70 15 0.06
71 116 0.48
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (71 bp):
TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
AAGATG
Found at i:7499947 original size:48 final size:48
Alignment explanation
Indices: 7499893--7499988 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
7499883 AAAAGTTTTA
* *
7499893 AACTTTTGGATGTGAATCTCCAAA-ATTCAAGTGAAAAGCTTTGAACTC
1 AACTTTTGGATGCGAATCTCCAAATATT-AAGTGAAAACCTTTGAACTC
* *
7499941 AACTTTTGGATGCGAATCTCTAAATTATTTAGTGAAAACCTTTGAACT
1 AACTTTTGGATGCGAATCTCCAAA-TATTAAGTGAAAACCTTTGAACT
7499989 TAGATGTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
48 22 0.52
49 17 0.40
50 3 0.07
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (48 bp):
AACTTTTGGATGCGAATCTCCAAATATTAAGTGAAAACCTTTGAACTC
Found at i:7500086 original size:114 final size:114
Alignment explanation
Indices: 7499898--7500136 Score: 379
Period size: 114 Copynumber: 2.1 Consensus size: 114
7499888 TTTTAAACTT
*** *
7499898 TTGGATGTGAATCTCCAAAATTCAAGTGAAAAGCTTTGAACTCAACTTTTGGATGCGAATCTCTA
1 TTGGATGTGAATCTCCAAAATTCAAACAAAAAGCTTTGAACTCAACTTTTGGATGCGAATATCTA
7499963 AATTATTTAGTGAAAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
66 AATTATTTAGTGAAAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
* * * *
7500012 TTGGATGTGAATTTTCAAAATTCAAACAAAAAGCTTTGAATTCAATTTTTGGATGCGAATATCTA
1 TTGGATGTGAATCTCCAAAATTCAAACAAAAAGCTTTGAACTCAACTTTTGGATGCGAATATCTA
* *
7500077 AATTTTTTAGTGAATACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
66 AATTATTTAGTGAAAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
*
7500126 TTGAATGTGAA
1 TTGGATGTGAA
7500137 AATTTTGAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (114 bp):
TTGGATGTGAATCTCCAAAATTCAAACAAAAAGCTTTGAACTCAACTTTTGGATGCGAATATCTA
AATTATTTAGTGAAAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
Found at i:7500730 original size:17 final size:17
Alignment explanation
Indices: 7500705--7500754 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
7500695 TAATTGGCCA
7500705 TTTTTTTATTTTTT-GT
1 TTTTTTTATTTTTTAGT
7500721 TTTTTATTATTTTTTAGT
1 TTTTT-TTATTTTTTAGT
*
7500739 TTTATTTATTTATTTA
1 TTTTTTTATTT-TTTA
7500755 TTTATTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 5 0.17
17 15 0.50
18 10 0.33
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTTTTATTTTTTAGT
Found at i:7500748 original size:4 final size:4
Alignment explanation
Indices: 7500704--7500761 Score: 52
Period size: 4 Copynumber: 15.0 Consensus size: 4
7500694 CTAATTGGCC
* *
7500704 ATTT TTTT ATTT -TTT GTTT -TTT A-TT ATTT -TTT AGTTTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A--TTT ATTT ATTT
7500750 ATTT ATTT ATTT
1 ATTT ATTT ATTT
7500762 TGGCTAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 12 0.26
4 30 0.65
6 4 0.09
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (4 bp):
ATTT
Found at i:7500807 original size:19 final size:20
Alignment explanation
Indices: 7500770--7500809 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
7500760 TTTGGCTAAT
7500770 TATTCATTTGTTCTTATTTA
1 TATTCATTTGTTCTTATTTA
7500790 TATTCAATTT-TT-TTATTTA
1 TATTC-ATTTGTTCTTATTTA
7500809 T
1 T
7500810 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTCATTTGTTCTTATTTA
Found at i:7501792 original size:61 final size:63
Alignment explanation
Indices: 7501727--7501859 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 63
7501717 AAATTTTAAA
* *
7501727 AAAAATAAAAAAATTAAAAAAAAACA-TTTTTAAAG-AAAAGTTG-AAAGTATCAATTTTTCTT
1 AAAAATAAAAAAATTAAAAAAAAACATTTTTTAAAGAAAAAATTGCAAA-TATCAATTTTCCTT
** * ** *
7501788 AAAAAT-AAAATTTTCAAAAAAAGTATTTTTTTAAGAAAAAATTGCAAATATCAATTTTCCTT
1 AAAAATAAAAAAATTAAAAAAAAACATTTTTTAAAGAAAAAATTGCAAATATCAATTTTCCTT
*
7501850 AAAGATAAAA
1 AAAAATAAAA
7501860 TTTTAAGAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
60 14 0.24
61 14 0.24
62 25 0.42
63 6 0.10
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (63 bp):
AAAAATAAAAAAATTAAAAAAAAACATTTTTTAAAGAAAAAATTGCAAATATCAATTTTCCTT
Done.