Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 24 of 125
Found at i:7169098 original size:17 final size:17
Alignment explanation
Indices: 7169076--7169144 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
7169066 TATTTCTAAG
7169076 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
* *
7169093 TTTAAATTTAAAATTCATT
1 TTTAAATTT-AAATTTA-A
*
7169112 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAA
7169128 TTCTAAATTTAAATTTA
1 TT-TAAATTTAAATTTA
7169145 GCTTAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.05
17 22 0.51
18 6 0.14
19 13 0.30
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:7169123 original size:42 final size:42
Alignment explanation
Indices: 7169061--7169144 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
7169051 ATTTGGTTTC
* *
7169061 AAATTTATTTCTAAGTTTAAATTTAATT-TAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTT-ATTCTAAATTTAAATTTA
* *
7169103 AAATTCATTTTTAAATTTAAATTTGTTCTAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
7169145 GCTTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
Found at i:7169151 original size:17 final size:16
Alignment explanation
Indices: 7169113--7169152 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
7169103 AAATTCATTT
*
7169113 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
7169129 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
7169147 TTAAAT
1 TTAAAT
7169153 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:7171161 original size:29 final size:27
Alignment explanation
Indices: 7171082--7171523 Score: 121
Period size: 30 Copynumber: 15.1 Consensus size: 27
7171072 AAATTATCGT
*
7171082 TTTTACCTCCAAACTTTCCAAAATTCCA
1 TTTTACC-CCCAACTTTCCAAAATTCCA
* *
7171110 TTTTTAACCCCGA-TTTCACCCAAAATTACCA
1 -TTTTACCCCCAACTTT---CCAAAATT-CCA
7171141 TTTTACCCCCAACCTTTCCAAAATTCCA
1 TTTTACCCCCAA-CTTTCCAAAATTCCA
* * *
7171169 TTTTTGA-TCCTAA-TTTCAACAAAAATTATCA
1 -TTTT-ACCCCCAACTTTC--C-AAAATT-CCA
* *
7171200 TTTTACCTCCAAACTTTCTAAAATTCCA
1 TTTTACC-CCCAACTTTCCAAAATTCCA
* * *
7171228 TTTTAACCCCGA-TTTCACCCAAAATTAACA
1 TTTTACCCCCAACTTT---CCAAAATT-CCA
* * **
7171258 -TTTACCCTCGAACTTTCTAAAATTTTAA
1 TTTTACCC-CCAACTTTCCAAAA-TTCCA
* **
7171286 TTTTAACCCTGA-TTTCATCAAAAATTACCA
1 TTTTACCCCCAACTTTC--C-AAAATT-CCA
*
7171316 TTTTACCCCTAAACTTTCCAAAA-TCCTA
1 TTTTACCCC-CAACTTTCCAAAATTCC-A
* **
7171344 TTTTTAACCCTGA-TTTCACCAAAAATTCCCA
1 -TTTTACCCCCAACTTT--CC-AAAATT-CCA
* * *
7171375 TTTTACCCCGAACTTTCTAAAATCCCA
1 TTTTACCCCCAACTTTCCAAAATTCCA
* ** *
7171402 TTTTTAACCCTGATTTTACCAAAAATTCCTA
1 -TTTTACCCCCAACTTT-CC-AAAATTCC-A
7171433 TTTTACCCCCGAACTTTCCAAAA-TCCTA
1 TTTTACCCCC-AACTTTCCAAAATTCC-A
* ***
7171461 TTTTTAACCTTGA-TTTCACCAAAAATTCCCA
1 -TTTTACCCCCAACTTT--CC-AAAATT-CCA
*
7171492 TTTTACCCCTAAACTTTCCAAAATTCCA
1 TTTTACCCC-CAACTTTCCAAAATTCCA
7171520 TTTT
1 TTTT
7171524 TAACCCTGAA
Statistics
Matches: 305, Mismatches: 58, Indels: 101
0.66 0.12 0.22
Matches are distributed among these distances:
26 3 0.01
27 25 0.08
28 55 0.18
29 88 0.29
30 90 0.30
31 26 0.09
32 18 0.06
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.37
Consensus pattern (27 bp):
TTTTACCCCCAACTTTCCAAAATTCCA
Found at i:7171289 original size:58 final size:58
Alignment explanation
Indices: 7171082--7171553 Score: 546
Period size: 59 Copynumber: 8.1 Consensus size: 58
7171072 AAATTATCGT
* *
7171082 TTTTACCTCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCA
1 TTTTACC-CCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
* * * * * *
7171141 TTTTACCCCCAACCTTTCCAAAATTCCATTTTTGATCCTAATTTCAACAAAAATTATCA
1 TTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
* * * *
7171200 TTTTACCTCCAAACTTTCTAAAATTCCA-TTTTAACCCCGATTTCACCCAAAATTAACA
1 TTTTACC-CCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
* * ** * *
7171258 -TTTACCCTCGAACTTTCTAAAATTTTAATTTTAACCCTGATTTCATCAAAAATTACCA
1 TTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
*
7171316 TTTTACCCCTAAACTTTCCAAAA-TCCTATTTTTAACCCTGATTTCACCAAAAATTCCCA
1 TTTTACCCC-AAACTTTCCAAAATTCC-ATTTTTAACCCTGATTTCACCAAAAATTACCA
* * * *
7171375 TTTTACCCCGAACTTTCTAAAATCCCATTTTTAACCCTGATTTTACCAAAAATT-CCTA
1 TTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACC-A
* * *
7171433 TTTTACCCCCGAACTTTCCAAAA-TCCTATTTTTAACCTTGATTTCACCAAAAATTCCCA
1 TTTTA-CCCCAAACTTTCCAAAATTCC-ATTTTTAACCCTGATTTCACCAAAAATTACCA
7171492 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTGAATTTTC-CC-AAAATTA-CA
1 TTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCTG-A-TTTCACCAAAAATTACCA
7171550 TTTT
1 TTTT
7171554 CACCATCGAG
Statistics
Matches: 355, Mismatches: 42, Indels: 33
0.83 0.10 0.08
Matches are distributed among these distances:
56 1 0.00
57 24 0.07
58 109 0.31
59 207 0.58
60 10 0.03
61 4 0.01
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.37
Consensus pattern (58 bp):
TTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
Found at i:7171552 original size:30 final size:30
Alignment explanation
Indices: 7171093--7171553 Score: 166
Period size: 29 Copynumber: 15.7 Consensus size: 30
7171083 TTTACCTCCA
*
7171093 AACTTT-CCAAAATTCCATTTTTAACCCCG
1 AACTTTCCCAAAATTCCATTTTTAACCCTG
**
7171122 -A-TTTCACCCAAAATTACCA-TTTT-ACCCCC
1 AACTTT--CCCAAAATT-CCATTTTTAACCCTG
* *
7171151 AACCTTT-CCAAAATTCCATTTTTGATCCT-
1 AA-CTTTCCCAAAATTCCATTTTTAACCCTG
* * **
7171180 AA-TTTCAACAAAAATTATCA-TTTT-ACCTCCA
1 AACTTTC--CCAAAATT-CCATTTTTAACC-CTG
* *
7171211 AACTTT-CTAAAATTCCA-TTTTAACCCCG
1 AACTTTCCCAAAATTCCATTTTTAACCCTG
*
7171239 -A-TTTCACCCAAAATTAACA--TTT-ACCCTCG
1 AACTTT--CCCAAAATT-CCATTTTTAACCCT-G
* ** *
7171268 AACTTT-CTAAAATTTTAATTTTAACCCTG
1 AACTTTCCCAAAATTCCATTTTTAACCCTG
* * *
7171297 -A-TTTCATCAAAAATTACCA-TTTTACCCCTA
1 AACTTTC--CCAAAATT-CCATTTTTAACCCTG
7171327 AACTTT-CCAAAA-TCCTATTTTTAACCCTG
1 AACTTTCCCAAAATTCC-ATTTTTAACCCTG
*
7171356 -A-TTTCACCAAAAATTCCCA-TTTT-ACCCCG
1 AACTTTC-CC-AAAATT-CCATTTTTAACCCTG
* *
7171385 AACTTT-CTAAAATCCCATTTTTAACCCTG
1 AACTTTCCCAAAATTCCATTTTTAACCCTG
* * * *
7171414 -ATTTTACCAAAAATTCC-TATTTTACCCCCG
1 AACTTT-CCCAAAATTCCAT-TTTTAACCCTG
*
7171444 AACTTT-CCAAAA-TCCTATTTTTAACCTTG
1 AACTTTCCCAAAATTCC-ATTTTTAACCCTG
* *
7171473 -A-TTTCACCAAAAATTCCCA-TTTTACCCCTA
1 AACTTTC-CC-AAAATT-CCATTTTTAACCCTG
7171503 AACTTT-CCAAAATTCCATTTTTAACCCTG
1 AACTTTCCCAAAATTCCATTTTTAACCCTG
* *
7171532 AATTTTCCCAAAATTACATTTT
1 AACTTTCCCAAAATTCCATTTT
7171554 CACCATCGAG
Statistics
Matches: 328, Mismatches: 45, Indels: 117
0.67 0.09 0.24
Matches are distributed among these distances:
26 3 0.01
27 22 0.07
28 47 0.14
29 109 0.33
30 107 0.33
31 24 0.07
32 16 0.05
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (30 bp):
AACTTTCCCAAAATTCCATTTTTAACCCTG
Found at i:7171553 original size:117 final size:117
Alignment explanation
Indices: 7171082--7171553 Score: 539
Period size: 117 Copynumber: 4.0 Consensus size: 117
7171072 AAATTATCGT
* *
7171082 TTTTACCTCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
1 TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * * * * *
7171147 CCCCAACCTTTCCAAAATTCCATTTTTGATCCTAATTTCAACAAAAATTATCA
66 CCCTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTC-ACAAAAATTACCA
* * * *
7171200 TTTTACCTCCAAACTTTCTAAAATTCCA-TTTTAACCCCGATTTCACCCAAAATTAACA-TTTA-
1 TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * ** *
7171262 CCCTCGAACTTTCTAAAATTTTAATTTTAACCCTGATTTCATCAAAAATTACCA
66 CCCT-AAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA-CAAAAATTACCA
* * *
7171316 TTTTACCCCTAAACTTTCCAAAA-TCCTATTTTTAACCCTGATTTCACCAAAAATTCCCATTTTA
1 TTTTACCCCCAAACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA
* * * *
7171380 CCCC-GAACTTTCTAAAATCCCATTTTTAACCCTGATTTTACCAAAAATT-CCTA
65 CCCCTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA-CAAAAATTACC-A
* ** *
7171433 TTTTACCCCCGAACTTTCCAAAA-TCCTATTTTTAACCTTGATTTCACCAAAAATTCCCATTTTA
1 TTTTACCCCCAAACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA
*
7171497 CCCCTAAACTTTCCAAAATTCCATTTTTAACCCTGAATTTTC-CCAAAATTA-CA
65 CCCCTAAACTTTCCAAAATTCCATTTTTAACCCTG-A-TTTCACAAAAATTACCA
7171550 TTTT
1 TTTT
7171554 CACCATCGAG
Statistics
Matches: 309, Mismatches: 34, Indels: 23
0.84 0.09 0.06
Matches are distributed among these distances:
115 7 0.02
116 64 0.21
117 165 0.53
118 66 0.21
119 4 0.01
120 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.37
Consensus pattern (117 bp):
TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
CCCTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACAAAAATTACCA
Found at i:7183998 original size:200 final size:199
Alignment explanation
Indices: 7183651--7184282 Score: 926
Period size: 200 Copynumber: 3.2 Consensus size: 199
7183641 AAATGGCGAG
* * * *
7183651 GCGGTTATCTTTCTGATGAGATGCAGAGAAGAATACCAATTCAACGCTCAACA-CGAGCCAATCT
1 GCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA-AGCGAGCAAATCT
* * *
7183715 TCGTACCCAGCTTCCTTATAAGACACTGAGAAGCAAGTCGAAACAATAAAATGGTTAGCTTCCTG
65 TCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAAT-AAATGGTTAGCTTCCTG
*
7183780 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAATA
129 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACA
7183845 AGTGAT
194 AGTGAT
* *
7183851 GCGATTATCTTCCTGATGAGATACAAAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTT
1 GCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTT
* *
7183916 CGTACCCAGCTT-CTAGATGAGACACTGAGAAGCAGGTCGAAATAATGAAATGGTTAGCTTCATG
66 CGTACCCAGCTTCCT-GATGAGACACTGAGAAGCAGGTCGAAACAAT-AAATGGTTAGCTTCCTG
* * * * *
7183980 ATGAAATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATTCAAAGAAGCAAATTAGAACA
129 ATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACA
7184045 AGTGAT
194 AGTGAT
*
7184051 GCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGTAAATCTT
1 GCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTT
* * * *
7184116 CATACCCAACTTCCTGATGAGACACTAAGAAGCAGGTCGAAACAATAACATGGTTAGTTTCCTGA
66 CGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAA-ATGGTTAGCTTCCTGA
* * *
7184181 TGAGATATAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAACAA
130 TGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAA
*
7184246 ATGATT
195 GTGA-T
* * * *
7184252 GCGGTCATCTTCTTGATGAGACACTGAGAAG
1 GCGGTTATCTTCCTGATGAGATACAGAGAAG
7184283 CAGGTCGAAA
Statistics
Matches: 387, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
199 5 0.01
200 352 0.91
201 30 0.08
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (199 bp):
GCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTT
CGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAATGGTTAGCTTCCTGAT
GAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAG
TGAT
Found at i:7184372 original size:135 final size:135
Alignment explanation
Indices: 7184125--7184410 Score: 491
Period size: 135 Copynumber: 2.1 Consensus size: 135
7184115 TCATACCCAA
* *
7184125 CTTCCTGATGAGACACTAAGAAGCAGGTCGAAACAATAACATGGTTAGTTTCCTGATGAGATATA
1 CTTCCTGATGAGACACTAAGAAGCAGGTCGAAACAATAACATGGTTAGTTTCCTGATGAAATACA
* * *
7184190 GAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAACAAATGATTGCG
66 GAGAAGTGGACCAAATCTGTCTTCCTGAGGAGATCCAAAGAAGCGAATTAAAACAAATGATTGCG
7184255 GTCAT
131 GTCAT
* *
7184260 CTTCTTGATGAGACACTGAGAAGCAGGTCGAAACAATAACATGGTTAGTTTCCTGATGAAATACA
1 CTTCCTGATGAGACACTAAGAAGCAGGTCGAAACAATAACATGGTTAGTTTCCTGATGAAATACA
* *
7184325 GAGAAGTGGACCAAATCTGTCTTTCTGAGGAGATCCAAAGAAGCGAATTAAAACAGATGATTGCG
66 GAGAAGTGGACCAAATCTGTCTTCCTGAGGAGATCCAAAGAAGCGAATTAAAACAAATGATTGCG
7184390 GTCAT
131 GTCAT
7184395 CTTCCTGATGAGACAC
1 CTTCCTGATGAGACAC
7184411 AGGGAAGAAG
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 141 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (135 bp):
CTTCCTGATGAGACACTAAGAAGCAGGTCGAAACAATAACATGGTTAGTTTCCTGATGAAATACA
GAGAAGTGGACCAAATCTGTCTTCCTGAGGAGATCCAAAGAAGCGAATTAAAACAAATGATTGCG
GTCAT
Found at i:7184821 original size:11 final size:12
Alignment explanation
Indices: 7184807--7184875 Score: 63
Period size: 11 Copynumber: 5.8 Consensus size: 12
7184797 TATTTCTAAG
7184807 TTTAAATTT-AA
1 TTTAAATTTAAA
7184818 TTTAAATTTAAA
1 TTTAAATTTAAA
* **
7184830 TTTAAAATTCATT
1 TTT-AAATTTAAA
7184843 TTTAAATTTAAA
1 TTTAAATTTAAA
*
7184855 TTT--GTTCTAAA
1 TTTAAATT-TAAA
7184866 TTTAAATTTA
1 TTTAAATTTA
7184876 GCTTAAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
10 2 0.04
11 16 0.36
12 16 0.36
13 11 0.24
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:7184825 original size:6 final size:6
Alignment explanation
Indices: 7184807--7184875 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
7184797 TATTTCTAAG
* **
7184807 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAAA TTCATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
*
7184855 TTT--G TTCTAAA TTTAAA TTTA
1 TTTAAA TT-TAAA TTTAAA TTTA
7184876 GCTTAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 35 0.70
7 7 0.14
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:7184829 original size:17 final size:17
Alignment explanation
Indices: 7184807--7184875 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
7184797 TATTTCTAAG
7184807 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
* *
7184824 TTTAAATTTAAAATTCATT
1 TTTAAATTT-AAATTTA-A
*
7184843 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAA
7184859 TTCTAAATTTAAATTTA
1 TT-TAAATTTAAATTTA
7184876 GCTTAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.05
17 22 0.51
18 6 0.14
19 13 0.30
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:7184854 original size:42 final size:42
Alignment explanation
Indices: 7184792--7184875 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
7184782 ATTTGGTTTC
* *
7184792 AAATTTATTTCTAAGTTTAAATTTAATT-TAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTT-ATTCTAAATTTAAATTTA
* *
7184834 AAATTCATTTTTAAATTTAAATTTGTTCTAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
7184876 GCTTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
Found at i:7184882 original size:17 final size:16
Alignment explanation
Indices: 7184844--7184883 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
7184834 AAATTCATTT
*
7184844 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
7184860 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
7184878 TTAAAT
1 TTAAAT
7184884 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:7186820 original size:29 final size:29
Alignment explanation
Indices: 7186788--7187078 Score: 82
Period size: 29 Copynumber: 10.0 Consensus size: 29
7186778 TGTGATCCCA
* *
7186788 AAAC-TTCAAAAATTACCGTTTTTACCCCC
1 AAACTTTCAAAAATT-CCATTTTTAACCCC
*
7186817 AAACTTTCCAAAATTCCATTTTTAACCCC
1 AAACTTTCAAAAATTCCATTTTTAACCCC
*
7186846 -GA-TTTCACCCAAAATTACCA-TTTT-ACCCTC
1 AAACTTTCA---AAAATT-CCATTTTTAACCC-C
* * * *
7186876 GAACCTTCCAAAATTCTATTTTTAACCCC
1 AAACTTTCAAAAATTCCATTTTTAACCCC
* * *
7186905 -GATTTCATCAAAAATTACCA--TTTCACCCC
1 AAACTT--TCAAAAATT-CCATTTTTAACCCC
* *
7186934 TAAACTTTCCAAAA-TCCTATTTTTAACCTC
1 -AAACTTTCAAAAATTCC-ATTTTTAACCCC
*
7186964 -GA-TTTCACCAAAAATTCCCA-TTTT-ACCCTC
1 AAACTTT---CAAAAATT-CCATTTTTAACCC-C
* * *
7186994 GAACTTTCCAAAA-TCTA-TTTTAACCCC
1 AAACTTTCAAAAATTCCATTTTTAACCCC
7187021 -AA-TTTCACCAAAAATTCCCA-TTTT-ACCCC
1 AAACTTT---CAAAAATT-CCATTTTTAACCCC
* *
7187050 TAAACTTTCCAAAATCCCA-TTTTAACCCC
1 -AAACTTTCAAAAATTCCATTTTTAACCCC
7187079 GAATTTTCTC
Statistics
Matches: 196, Mismatches: 30, Indels: 72
0.66 0.10 0.24
Matches are distributed among these distances:
25 3 0.02
26 2 0.01
27 16 0.08
28 25 0.13
29 70 0.36
30 55 0.28
31 14 0.07
32 11 0.06
ACGTcount: A:0.33, C:0.32, G:0.02, T:0.33
Consensus pattern (29 bp):
AAACTTTCAAAAATTCCATTTTTAACCCC
Found at i:7186888 original size:59 final size:58
Alignment explanation
Indices: 7186794--7187080 Score: 357
Period size: 59 Copynumber: 4.9 Consensus size: 58
7186784 CCCAAAACTT
*
7186794 CAAAAATTACCGTTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACC-ATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * * *
7186854 CCAAAATTACCATTTTACCCTCGAACCTTCCAAAATTCTATTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
7186913 CAAAAATTACCATTTCACCCCTAAACTTTCCAAAA-TCCTATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCAC
* * * *
7186972 CAAAAATTCCCATTTTACCCTCGAACTTTCCAAAA-TCTA-TTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
7187029 CAAAAATTCCCATTTTACCCCTAAACTTTCCAAAATCCCA-TTTTAACCCCGA
1 CAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCGA
7187081 ATTTTCTCGA
Statistics
Matches: 198, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
56 1 0.01
57 48 0.24
58 20 0.10
59 118 0.60
60 11 0.06
ACGTcount: A:0.33, C:0.32, G:0.02, T:0.33
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:7187093 original size:29 final size:28
Alignment explanation
Indices: 7186922--7187078 Score: 94
Period size: 29 Copynumber: 5.4 Consensus size: 28
7186912 TCAAAAATTA
*
7186922 CCATTTCACCCCTAAACTTTCCAAAATC
1 CCATTTTACCCCTAAACTTTCCAAAATC
* * **
7186950 CTATTTTTA-ACCTCGA-TTTCACCAAAAATTC
1 CCA-TTTTACCCCTAAACTTT--CC-AAAA-TC
*
7186981 CCATTTTA-CCCTCGAACTTTCCAAAAT-
1 CCATTTTACCCCT-AAACTTTCCAAAATC
*
7187008 CTATTTTAACCCC--AA-TTTCACCAAAAATTC
1 CCATTTT-ACCCCTAAACTTT--CC-AAAA-TC
7187038 CCATTTTACCCCTAAACTTTCCAAAATC
1 CCATTTTACCCCTAAACTTTCCAAAATC
7187066 CCATTTTAACCCC
1 CCATTTT-ACCCC
7187079 GAATTTTCTC
Statistics
Matches: 100, Mismatches: 11, Indels: 35
0.68 0.08 0.24
Matches are distributed among these distances:
25 3 0.03
26 2 0.02
27 11 0.11
28 21 0.21
29 28 0.28
30 22 0.22
31 7 0.07
32 6 0.06
ACGTcount: A:0.32, C:0.34, G:0.01, T:0.33
Consensus pattern (28 bp):
CCATTTTACCCCTAAACTTTCCAAAATC
Found at i:7198747 original size:19 final size:20
Alignment explanation
Indices: 7198725--7198765 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7198715 GAATAATTTA
7198725 ATTCTTTT-TCTTTTTCCTT
1 ATTCTTTTATCTTTTTCCTT
* *
7198744 ATTCTTTTATTTTTTTCTTT
1 ATTCTTTTATCTTTTTCCTT
7198764 AT
1 AT
7198766 AAAAATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTCTTTTATCTTTTTCCTT
Found at i:7200763 original size:23 final size:23
Alignment explanation
Indices: 7200737--7200780 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7200727 TTAATTTAAC
*
7200737 TTAATCGAACATGCTCACGAACA
1 TTAAACGAACATGCTCACGAACA
*
7200760 TTAAACGAACATGTTCACGAA
1 TTAAACGAACATGCTCACGAA
7200781 TAATGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (23 bp):
TTAAACGAACATGCTCACGAACA
Found at i:7200881 original size:12 final size:12
Alignment explanation
Indices: 7200864--7200894 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7200854 ATCATTAATA
*
7200864 AATAAACGAGTC
1 AATAAACGAGCC
7200876 AATAAACGAGCC
1 AATAAACGAGCC
7200888 AATAAAC
1 AATAAAC
7200895 AAACCGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (12 bp):
AATAAACGAGCC
Found at i:7206120 original size:19 final size:20
Alignment explanation
Indices: 7206083--7206120 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7206073 AAAATTAAAA
*
7206083 AAAAATTCAAAATATTTATG
1 AAAAATTCAAAATAATTATG
*
7206103 AAAATTTCAAAA-AATTAT
1 AAAAATTCAAAATAATTAT
7206121 ATTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTATG
Found at i:7206609 original size:19 final size:19
Alignment explanation
Indices: 7206573--7206611 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7206563 AAGTCGGAAG
* *
7206573 TTAATTTTTGAAGCTCAAA
1 TTAATTTTTAAAACTCAAA
*
7206592 TTAATTTTTAAAATTCAAA
1 TTAATTTTTAAAACTCAAA
7206611 T
1 T
7206612 CAGTTTAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTTTTAAAACTCAAA
Found at i:7207829 original size:29 final size:29
Alignment explanation
Indices: 7207790--7207852 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
7207780 TAGTTTATAT
*
7207790 TTTTATAA-TTTTAAAGAATTAAATTAAAA
1 TTTTATAATTTTTAAAG-ATTAAAATAAAA
* * *
7207819 TTTTATCATTTTTAAAGGTTAAAATATAA
1 TTTTATAATTTTTAAAGATTAAAATAAAA
7207848 TTTTA
1 TTTTA
7207853 CTTTTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (29 bp):
TTTTATAATTTTTAAAGATTAAAATAAAA
Found at i:7208076 original size:34 final size:36
Alignment explanation
Indices: 7208031--7208110 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 36
7208021 ATAAAACTTA
* *
7208031 AATAGTTTTACACTC-TTCATATATTTTTATACTCTT
1 AATA-TTTTACACTCTTTAATATATTTTTATACTATT
*
7208067 AA-ATTTTACACTCTTTAATATATTTTTGTACTATT
1 AATATTTTACACTCTTTAATATATTTTTATACTATT
7208102 AATATTTTA
1 AATATTTTA
7208111 ATGATTCAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 10 0.26
35 21 0.54
36 8 0.21
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.54
Consensus pattern (36 bp):
AATATTTTACACTCTTTAATATATTTTTATACTATT
Found at i:7211008 original size:43 final size:43
Alignment explanation
Indices: 7210936--7211017 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
7210926 AAAATGTAGC
* *
7210936 TATAGAACATGATCTTTAACGGCGCTTTTCCCACAAACGTCGT
1 TATAGAACATGATATTTAACGACGCTTTTCCCACAAACGTCGT
* * *
7210979 TATAGAACATGATATTTAGCGACGTTTTTCTCACAAACG
1 TATAGAACATGATATTTAACGACGCTTTTCCCACAAACG
7211018 CCACTAACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (43 bp):
TATAGAACATGATATTTAACGACGCTTTTCCCACAAACGTCGT
Found at i:7211420 original size:66 final size:66
Alignment explanation
Indices: 7211288--7211421 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 66
7211278 ATTTTGAAGC
* * * * **
7211288 TGTAGCTGCAGTTCGTCATACTTTCTTTGAGACTCTGTTTCCCTCGCTGCTACCTTGGCTTCAAG
1 TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTGCTTCCCTCACTGCTACCTCCGCTTCAAG
7211353 T
66 T
* * * * ** *
7211354 TGTAGTTGAAGTTCATCATATTTTCTTTGAGCCTCTGCTTCTCTCACTGCTGTCTCCGCTTTAAG
1 TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTGCTTCCCTCACTGCTACCTCCGCTTCAAG
7211419 T
66 T
7211420 TG
1 TG
7211422 AGCAATTTGC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (66 bp):
TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTGCTTCCCTCACTGCTACCTCCGCTTCAAG
T
Found at i:7215323 original size:33 final size:32
Alignment explanation
Indices: 7215280--7215361 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
7215270 ATTACCCTAT
* **
7215280 TTAATTAAAATAAATAATTTTAGTCAAAATGAAA
1 TTAA-TAAAATAAATAA-TTTAATCAAAACAAAA
7215314 TTAGA-AAAATAACA-AATTTAATCAAAACAAAA
1 TTA-ATAAAATAA-ATAATTTAATCAAAACAAAA
7215346 TTAATAAAATAAATAA
1 TTAATAAAATAAATAA
7215362 CTTTGACTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
31 2 0.05
32 25 0.61
33 9 0.22
34 4 0.10
35 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (32 bp):
TTAATAAAATAAATAATTTAATCAAAACAAAA
Found at i:7227473 original size:21 final size:21
Alignment explanation
Indices: 7227400--7227473 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
7227390 TAAATAATTT
*
7227400 AAAAAATTATAAAAATGGTCAA
1 AAAAAATTATAAAAA-GTTCAA
** ** *
7227422 AAAAATAAAATTCAAAATTCAA
1 AAAAA-ATTATAAAAAGTTCAA
*
7227444 AAAATATTATAAAAAGTTCAA
1 AAAAAATTATAAAAAGTTCAA
7227465 AAAAAATTA
1 AAAAAATTA
7227474 GCATGGAGCA
Statistics
Matches: 38, Mismatches: 13, Indels: 3
0.70 0.24 0.06
Matches are distributed among these distances:
21 19 0.50
22 13 0.34
23 6 0.16
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAAATTATAAAAAGTTCAA
Found at i:7228090 original size:41 final size:41
Alignment explanation
Indices: 7228033--7228164 Score: 156
Period size: 41 Copynumber: 3.2 Consensus size: 41
7228023 GCCTATGGGA
* *
7228033 AAACGCCGCTATTACTCTTACCTTTTGTGGCGTTTTCTCAT
1 AAACGCCGCTAATACTCTTAACTTTTGTGGCGTTTTCTCAT
* ** * *
7228074 AAACGCCGTTAATACTCTTATTTTTTGCGGCGTTTTGTCAT
1 AAACGCCGCTAATACTCTTAACTTTTGTGGCGTTTTCTCAT
* * *
7228115 AAACGTCGCTAATACTCTTAACTTTTGTGGTGTTTTTCTTAT
1 AAACGCCGCTAATACTCTTAACTTTTGTGGCG-TTTTCTCAT
*
7228157 AAATGCCG
1 AAACGCCG
7228165 TTATTGTTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 61 0.82
42 13 0.18
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.42
Consensus pattern (41 bp):
AAACGCCGCTAATACTCTTAACTTTTGTGGCGTTTTCTCAT
Found at i:7228190 original size:82 final size:82
Alignment explanation
Indices: 7228033--7228190 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 82
7228023 GCCTATGGGA
* * *
7228033 AAACGCCGCTATTACTCTTACCTTTTGTGGCGTTTTCTCATAAACGCCGTTAATACTCTTATTTT
1 AAACGCCGCTAATACTCTTAACTTTTGTGGCGTTTTCTCATAAACGCCGTTAATACTCTTATCTT
* *
7228098 TTGCGGCGTTTTGTCAT
66 TTACGACGTTTTGTCAT
* * * * ** *
7228115 AAACGTCGCTAATACTCTTAACTTTTGTGGTGTTTTTCTTATAAATGCCGTT-ATTGTTTTATCT
1 AAACGCCGCTAATACTCTTAACTTTTGTGGCG-TTTTCTCATAAACGCCGTTAATACTCTTATCT
7228179 TTTACGACGTTT
65 TTTACGACGTTT
7228191 ATGAAAAACC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
82 46 0.73
83 17 0.27
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (82 bp):
AAACGCCGCTAATACTCTTAACTTTTGTGGCGTTTTCTCATAAACGCCGTTAATACTCTTATCTT
TTACGACGTTTTGTCAT
Found at i:7240724 original size:21 final size:21
Alignment explanation
Indices: 7240687--7240726 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7240677 AAATTGATAT
7240687 AAATCTATAAAAATTATAATA
1 AAATCTATAAAAATTATAATA
*
7240708 AAATC-ATAAATATTTATAA
1 AAATCTATAAA-AATTATAA
7240727 ATAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATCTATAAAAATTATAATA
Found at i:7240777 original size:25 final size:25
Alignment explanation
Indices: 7240697--7240779 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 25
7240687 AAATCTATAA
*
7240697 AAATTATAATAAAATCATAAATATTTAT
1 AAATTAT-ATAAAAT-ATAAA-ATTAAT
* *
7240725 AAATAATATAAAAAATAAAATTCAAAT
1 AAATTATATAAAATATAAAATT--AAT
*
7240752 AAATTATAGAAAATATAAAATTAAT
1 AAATTATATAAAATATAAAATTAAT
7240777 AAA
1 AAA
7240780 ACATATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
25 9 0.19
26 5 0.11
27 27 0.57
28 6 0.13
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (25 bp):
AAATTATATAAAATATAAAATTAAT
Found at i:7242543 original size:20 final size:19
Alignment explanation
Indices: 7242517--7242651 Score: 72
Period size: 20 Copynumber: 7.2 Consensus size: 19
7242507 AAATCGTTAC
7242517 ATTATAAAAATTAATAAAA
1 ATTATAAAAATTAATAAAA
*
7242536 ACTTATAAATAA-TATTAAAA
1 A-TTATAAA-AATTAATAAAA
*
7242556 ATATAAAAAAATT-AT-AAA
1 AT-TATAAAAATTAATAAAA
*
7242574 ATTATTAAACA-T--T-AAA
1 ATTA-TAAAAATTAATAAAA
*
7242590 ATTGATATAAACTT-ATAAAA
1 ATT-ATA-AAAATTAATAAAA
* *
7242610 ATTATAAAAAATCATAAAA
1 ATTATAAAAATTAATAAAA
* *
7242629 ACTTATGAATA-TAATAAAA
1 A-TTATAAAAATTAATAAAA
7242648 ATTA
1 ATTA
7242652 CTAAGTTCTA
Statistics
Matches: 92, Mismatches: 12, Indels: 25
0.71 0.09 0.19
Matches are distributed among these distances:
16 9 0.10
17 6 0.07
18 17 0.18
19 24 0.26
20 34 0.37
21 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (19 bp):
ATTATAAAAATTAATAAAA
Found at i:7242621 original size:10 final size:10
Alignment explanation
Indices: 7242517--7242634 Score: 64
Period size: 10 Copynumber: 11.5 Consensus size: 10
7242507 AAATCGTTAC
7242517 ATTAT-AAAA
1 ATTATAAAAA
7242526 ATTAATAAAAA
1 ATT-ATAAAAA
* *
7242537 CTTATAAATA
1 ATTATAAAAA
*
7242547 A-TATTAAAA
1 ATTATAAAAA
7242556 A-TATAAAAAA
1 ATTAT-AAAAA
*
7242566 ATTATAAAATT
1 ATTATAAAA-A
*
7242577 ATTAAACATTAAA
1 ATTATA-A--AAA
*
7242590 ATTGATATAAA
1 ATT-ATAAAAA
*
7242601 CTTAT-AAAA
1 ATTATAAAAA
7242610 ATTATAAAAA
1 ATTATAAAAA
*
7242620 ATCATAAAAA
1 ATTATAAAAA
*
7242630 CTTAT
1 ATTAT
7242635 GAATATAATA
Statistics
Matches: 82, Mismatches: 17, Indels: 19
0.69 0.14 0.16
Matches are distributed among these distances:
9 20 0.24
10 35 0.43
11 19 0.23
12 1 0.01
13 3 0.04
14 4 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:7242730 original size:19 final size:18
Alignment explanation
Indices: 7242689--7242722 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7242679 TATTTTTAAT
7242689 AAAAT-TATAAAATATTA
1 AAAATATATAAAATATTA
7242706 AAAATATATAAAA-ATTA
1 AAAATATATAAAATATTA
7242723 TAATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATATAAAATATTA
Found at i:7243476 original size:29 final size:28
Alignment explanation
Indices: 7243397--7243556 Score: 102
Period size: 29 Copynumber: 5.6 Consensus size: 28
7243387 TTTAGATGAT
*
7243397 TTTTTTATAATTTCTA-AATTTTTATAA-
1 TTTTTTATAATTT-TATAAATTTTATAAG
* *
7243424 TTTATTATAATTTTATATCA-TTTATAAG
1 TTTTTTATAATTTTATA-AATTTTATAAG
7243452 TTTTTTATGAATTTTATAAATTTTA-AA-
1 TTTTTTAT-AATTTTATAAATTTTATAAG
*
7243479 TATGTTTTATTAATTTTAT-AA-TTTATTAG
1 T-T-TTTTA-TAATTTTATAAATTTTATAAG
* * *
7243508 AATTTTTATAATATTTATAAGTTTT-TATG
1 -TTTTTTATAAT-TTTATAAATTTTATAAG
*
7243537 ATTTTTTATATTTTTTATAA
1 -TTTTTTATA-ATTTTATAA
7243557 GTTTATATCA
Statistics
Matches: 106, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
26 2 0.02
27 29 0.27
28 24 0.23
29 46 0.43
30 5 0.05
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTTTTATAATTTTATAAATTTTATAAG
Found at i:7243574 original size:26 final size:25
Alignment explanation
Indices: 7243545--7243596 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
7243535 TGATTTTTTA
7243545 TATT-TTTTATAAGTTTATATCAATTT
1 TATTATTTT-TAAGTTTATAT-AATTT
* *
7243571 TATTATTTTTAATTTTTTATAATTT
1 TATTATTTTTAAGTTTATATAATTT
7243596 T
1 T
7243597 TATGAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 6 0.26
26 13 0.57
27 4 0.17
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TATTATTTTTAAGTTTATATAATTT
Found at i:7243577 original size:29 final size:29
Alignment explanation
Indices: 7243492--7243580 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
7243482 GTTTTATTAA
* *
7243492 TTTTATAA-TTTATTAGAATTTT-TATAAT
1 TTTTATAAGTTTA-TATAATTTTATATATT
* * * *
7243520 ATTTATAAGTTTTTATGATTTTTTATATT
1 TTTTATAAGTTTATATAATTTTATATATT
7243549 TTTTATAAGTTTATATCAATTTTAT-TATT
1 TTTTATAAGTTTATAT-AATTTTATATATT
7243578 TTT
1 TTT
7243581 AATTTTTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 14 0.29
29 29 0.59
30 6 0.12
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTTATAAGTTTATATAATTTTATATATT
Found at i:7244270 original size:19 final size:19
Alignment explanation
Indices: 7244248--7244287 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
7244238 AATAATTTTC
7244248 AAAAATT-CAAAATATTTAT
1 AAAAATTCCAAAAT-TTTAT
7244267 AAAAATTCCAAAATTTTAT
1 AAAAATTCCAAAATTTTAT
7244286 AA
1 AA
7244288 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCCAAAATTTTAT
Found at i:7244324 original size:31 final size:34
Alignment explanation
Indices: 7244276--7244344 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
7244266 TAAAAATTCC
*
7244276 AAAATTTTATAA-TTTTTT-AAAAAAATATAAAA
1 AAAATTCTATAATTTTTTTGAAAAAAATATAAAA
* *
7244308 AAAATTCTA-AATTTTTTTGAATAATATATAAAA
1 AAAATTCTATAATTTTTTTGAAAAAAATATAAAA
7244341 AAAA
1 AAAA
7244345 GTTCAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 2 0.06
32 14 0.44
33 16 0.50
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (34 bp):
AAAATTCTATAATTTTTTTGAAAAAAATATAAAA
Found at i:7247464 original size:24 final size:24
Alignment explanation
Indices: 7247436--7247486 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
7247426 AATTTGACTC
7247436 AAACAAATAAACAGAGTTTAAATG
1 AAACAAATAAACAGAGTTTAAATG
7247460 AAACAAATAAACAGAGTTTAAATG
1 AAACAAATAAACAGAGTTTAAATG
7247484 AAA
1 AAA
7247487 GATTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.08, G:0.12, T:0.20
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAAATG
Found at i:7249460 original size:24 final size:24
Alignment explanation
Indices: 7249399--7249461 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
7249389 TAGACTAATA
*
7249399 AGAGTTTAATTCAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
* * *
7249423 AGAGTTTATTTGAAACAATTAAAT
1 AGAGTTTAATTGAAACAAATAAAC
*
7249447 AGAGTTTAACTGAAA
1 AGAGTTTAATTGAAA
7249462 GATTATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:7253932 original size:7 final size:8
Alignment explanation
Indices: 7253915--7253958 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
7253905 CAAGATTGTA
7253915 TTTTTCTT
1 TTTTTCTT
7253923 TTTTTCTT
1 TTTTTCTT
*
7253931 TTTTGTATT
1 TTTT-TCTT
*
7253940 TTTTTCTC
1 TTTTTCTT
7253948 TTTTT-TT
1 TTTTTCTT
7253955 TTTT
1 TTTT
7253959 GTGAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 5 0.16
8 19 0.61
9 7 0.23
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:7253951 original size:26 final size:26
Alignment explanation
Indices: 7253915--7253980 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
7253905 CAAGATTGTA
*
7253915 TTTTTCT-TTTTTTCTTTTT-TGTATT
1 TTTTTCTCTTTTTT-TTTTTGTGAATT
7253940 TTTTTCTCTTTTTTTTTTTGTGAATT
1 TTTTTCTCTTTTTTTTTTTGTGAATT
*
7253966 TTTTTCTCTTCTTTT
1 TTTTTCTCTTTTTTT
7253981 GTCTTGTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 12 0.32
26 25 0.68
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (26 bp):
TTTTTCTCTTTTTTTTTTTGTGAATT
Found at i:7253980 original size:24 final size:23
Alignment explanation
Indices: 7253910--7253980 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
7253900 TATATCAAGA
*
7253910 TTGTATTTTTCTT-TTTTTCTTTT
1 TTGTATTTTT-TTCTCTTTCTTTT
*
7253933 TTGTATTTTTTTCTCTTTTTTTTT
1 TTGTATTTTTTTCTC-TTTCTTTT
7253957 TTGTGAATTTTTTTCTC-TTCTTTT
1 TTGT--ATTTTTTTCTCTTTCTTTT
7253981 GTCTTGTAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.05
23 11 0.27
24 17 0.41
26 11 0.27
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.79
Consensus pattern (23 bp):
TTGTATTTTTTTCTCTTTCTTTT
Found at i:7255372 original size:19 final size:19
Alignment explanation
Indices: 7255348--7255404 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
7255338 AATATTTGAT
7255348 GTTGACCGTTGACTTTTTC
1 GTTGACCGTTGACTTTTTC
7255367 GTTGACCGTTGACTTTTTTC
1 GTTGACCGTTGAC-TTTTTC
* *
7255387 GTTGATCATTGACTTTTT
1 GTTGACCGTTGACTTTTT
7255405 TCGAGAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.51
Consensus pattern (19 bp):
GTTGACCGTTGACTTTTTC
Found at i:7255386 original size:20 final size:20
Alignment explanation
Indices: 7255348--7255407 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
7255338 AATATTTGAT
7255348 GTTGACCGTTGAC-TTTTTC
1 GTTGACCGTTGACTTTTTTC
7255367 GTTGACCGTTGACTTTTTTC
1 GTTGACCGTTGACTTTTTTC
* *
7255387 GTTGATCATTGACTTTTTTC
1 GTTGACCGTTGACTTTTTTC
7255407 G
1 G
7255408 AGAAACTCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 13 0.34
20 25 0.66
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
GTTGACCGTTGACTTTTTTC
Found at i:7256031 original size:6 final size:6
Alignment explanation
Indices: 7256022--7256050 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7256012 ATATATACCA
7256022 TGAGAT TGAGAT TGAGAT TGAGAT TGAGA
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGA
7256051 CATACATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (6 bp):
TGAGAT
Found at i:7265386 original size:19 final size:19
Alignment explanation
Indices: 7265350--7265412 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
7265340 TATAATATTT
7265350 AAATAATTTTAAAAAATTCA
1 AAATAATTTT-AAAAATTCA
*
7265370 AAATAATTTTTAAAATTCA
1 AAATAATTTTAAAAATTCA
*
7265389 AAAT-GTTTATAAAAATTACA
1 AAATAATTT-TAAAAATT-CA
7265409 AAAT
1 AAAT
7265413 TTAATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 3 0.08
19 19 0.50
20 16 0.42
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATAATTTTAAAAATTCA
Found at i:7268694 original size:19 final size:18
Alignment explanation
Indices: 7268668--7268737 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
7268658 AAAATCTAAT
7268668 AAATTATAAAATTCTTAA
1 AAATTATAAAATTCTTAA
* * *
7268686 AAACATATAAAAATCATAA
1 AAA-TTATAAAATTCTTAA
7268705 AAATTATAAGAATAT-TTAA
1 AAATTATAA-AAT-TCTTAA
7268724 AAATTTATAAAATT
1 AAA-TTATAAAATT
7268738 GATATAAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 9 0.21
19 26 0.62
20 7 0.17
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (18 bp):
AAATTATAAAATTCTTAA
Found at i:7268699 original size:28 final size:27
Alignment explanation
Indices: 7268643--7268762 Score: 98
Period size: 28 Copynumber: 4.3 Consensus size: 27
7268633 ATAAATTTAA
* * *
7268643 TATAAATTTATAAAAAAAATCTAATAAAT
1 TATAAAATTAT-AAAAACATATAA-AAAT
*
7268672 TATAAAATTCTTAAAAACATATAAAAAT
1 TATAAAATT-ATAAAAACATATAAAAAT
* * * *
7268700 CATAAAAATTATAAGAATATTTAAAAATT
1 TAT-AAAATTATAAAAACATATAAAAA-T
*
7268729 TATAAAATTGATATAAAC-TATAAAAAT
1 TATAAAATT-ATAAAAACATATAAAAAT
7268756 TATAAAA
1 TATAAAA
7268763 GAAATCATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
27 8 0.11
28 32 0.44
29 32 0.44
30 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (27 bp):
TATAAAATTATAAAAACATATAAAAAT
Found at i:7268737 original size:9 final size:9
Alignment explanation
Indices: 7268668--7268762 Score: 70
Period size: 9 Copynumber: 10.2 Consensus size: 9
7268658 AAAATCTAAT
7268668 AAATTAT-A
1 AAATTATAA
*
7268676 AAATTCTTAA
1 AAATT-ATAA
*
7268686 AAACATATAA
1 AAA-TTATAA
*
7268696 AAATCATAA
1 AAATTATAA
7268705 AAATTATAA
1 AAATTATAA
7268714 GAATATT-TAA
1 -AA-ATTATAA
7268724 AAATT-TATA
1 AAATTATA-A
*
7268733 AAATTGATAT
1 AAATT-ATAA
*
7268743 AAACTATAA
1 AAATTATAA
7268752 AAATTATAA
1 AAATTATAA
7268761 AA
1 AA
7268763 GAAATCATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
8 10 0.14
9 34 0.49
10 19 0.28
11 6 0.09
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:7268751 original size:38 final size:37
Alignment explanation
Indices: 7268657--7268753 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 37
7268647 AATTTATAAA
7268657 AAAAATC-TAATAAATTATAAAATTCTTAAAAACATAT
1 AAAAATCAT-ATAAATTATAAAATTCTTAAAAACATAT
* **
7268694 AAAAATCATAAAAATTATAAGAATAT-TTAAAAATTTAT
1 AAAAATCATATAAATTATAA-AAT-TCTTAAAAACATAT
* * *
7268732 AAAATTGATATAAACTATAAAA
1 AAAAATCATATAAATTATAAAA
7268754 ATTATAAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
37 19 0.38
38 30 0.60
39 1 0.02
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (37 bp):
AAAAATCATATAAATTATAAAATTCTTAAAAACATAT
Found at i:7269077 original size:22 final size:21
Alignment explanation
Indices: 7269041--7269092 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
7269031 AATTTATTAG
7269041 ATTTTTATTAA-TTTTT-TATA
1 ATTTTTA-TAACTTTTTCTATA
7269061 ATTTGTTATAACTTTTTCTATA
1 ATTT-TTATAACTTTTTCTATA
7269083 ATTTTTATAA
1 ATTTTTATAA
7269093 GTTTATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.24
21 14 0.48
22 8 0.28
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTTTATAACTTTTTCTATA
Found at i:7269174 original size:10 final size:9
Alignment explanation
Indices: 7269041--7269296 Score: 110
Period size: 10 Copynumber: 26.6 Consensus size: 9
7269031 AATTTATTAG
7269041 ATTTTTATTA
1 ATTTTTA-TA
7269051 ATTTTTTATA
1 A-TTTTTATA
7269061 ATTTGTTATA
1 ATTT-TTATA
7269071 ACTTTTTCTATA
1 A--TTTT-TATA
7269083 ATTTTTATA
1 ATTTTTATA
*
7269092 AGTTTATATCA
1 A-TTTTTAT-A
7269103 A-TTTT-TA
1 ATTTTTATA
*
7269110 ATTTTAATA
1 ATTTTTATA
7269119 ATTTTTATGA
1 ATTTTTAT-A
* *
7269129 TTTTTTATT
1 ATTTTTATA
7269138 ATTTTTATA
1 ATTTTTATA
*
7269147 AGTTTTTAAAA
1 A-TTTTT-ATA
**
7269158 AAATTTATA
1 ATTTTTATA
7269167 CATTTTTATAA
1 -ATTTTTAT-A
*
7269178 AATTTTA-A
1 ATTTTTATA
* * *
7269186 ATATTCAAA
1 ATTTTTATA
7269195 ATACATTTTATTA
1 AT---TTTTA-TA
7269208 A-TTTTATA
1 ATTTTTATA
***
7269216 A-AAATATA
1 ATTTTTATA
7269224 ATTTATTAT-
1 ATTT-TTATA
7269233 ATTTTTATA
1 ATTTTTATA
7269242 ATTTTTATA
1 ATTTTTATA
7269251 ATATTTTATTA
1 AT-TTTTA-TA
*
7269262 TTTTTTTATA
1 -ATTTTTATA
*
7269272 TTTTTTATAA
1 ATTTTTAT-A
*
7269282 ATTTATATCA
1 ATTTTTAT-A
7269292 ATTTT
1 ATTTT
7269297 AATGTTTTTA
Statistics
Matches: 188, Mismatches: 32, Indels: 52
0.69 0.12 0.19
Matches are distributed among these distances:
7 2 0.01
8 21 0.11
9 61 0.32
10 70 0.37
11 20 0.11
12 12 0.06
13 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:7269228 original size:24 final size:26
Alignment explanation
Indices: 7269192--7269242 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
7269182 TTAAATATTC
*
7269192 AAAATACATTTTATTA-A-TTTTATA
1 AAAATACAATTTATTATATTTTTATA
*
7269216 AAAATATAATTTATTATATTTTTATA
1 AAAATACAATTTATTATATTTTTATA
7269242 A
1 A
7269243 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 1 0.04
26 8 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
AAAATACAATTTATTATATTTTTATA
Found at i:7269256 original size:11 final size:10
Alignment explanation
Indices: 7269225--7269313 Score: 64
Period size: 9 Copynumber: 9.2 Consensus size: 10
7269215 AAAAATATAA
7269225 TTTATTATATT
1 TTTA-TATATT
7269236 TTTATA-ATT
1 TTTATATATT
7269245 TTTATA-ATAT
1 TTTATATAT-T
7269255 TTTAT-TATT
1 TTTATATATT
*
7269264 TTTTTATATT
1 TTTATATATT
**
7269274 TTT-TATAAA
1 TTTATATATT
*
7269283 TTTATATCAAT
1 TTTATAT-ATT
*
7269294 TTTA-ATGTT
1 TTTATATATT
7269303 TTTA-ATATT
1 TTTATATATT
7269312 TT
1 TT
7269314 CAATTTTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
9 34 0.52
10 22 0.33
11 10 0.15
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTATATATT
Found at i:7269305 original size:38 final size:38
Alignment explanation
Indices: 7269220--7269313 Score: 95
Period size: 38 Copynumber: 2.5 Consensus size: 38
7269210 TTTATAAAAA
* * *
7269220 TATAATTTATTATA-TTTTTATAATTTTTATAATATTT
1 TATATTTTTTTATATTTTTTATAATTTATATAATATTT
*
7269257 TATTATTTTTTTATATTTTTTATAAATTTATATCA-ATTT
1 TA-TATTTTTTTATATTTTTTAT-AATTTATATAATATTT
*
7269296 TA-ATGTTTTTAATATTTT
1 TATAT-TTTTTTATATTTT
7269314 CAATTTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 4 0.08
38 22 0.46
39 13 0.27
40 9 0.19
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (38 bp):
TATATTTTTTTATATTTTTTATAATTTATATAATATTT
Found at i:7269307 original size:9 final size:9
Alignment explanation
Indices: 7269293--7269359 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
7269283 TTTATATCAA
*
7269293 TTTTAATGT
1 TTTTAATAT
7269302 TTTTAATA-
1 TTTTAATAT
*
7269310 TTTTCA-AT
1 TTTTAATAT
*
7269318 TTTTAAAATT
1 TTTTAATA-T
*
7269328 TTTTAAAAT
1 TTTTAATAT
*
7269337 TTCTAATATT
1 TTTTAATA-T
7269347 TTTTAATAT
1 TTTTAATAT
7269356 TTTT
1 TTTT
7269360 TGTGAGAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 1 0.02
8 10 0.21
9 20 0.42
10 17 0.35
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTAATAT
Found at i:7269332 original size:10 final size:10
Alignment explanation
Indices: 7269317--7269360 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
7269307 ATATTTTCAA
7269317 TTTTTAAAAT
1 TTTTTAAAAT
7269327 TTTTTAAAA-
1 TTTTTAAAAT
* *
7269336 TTTCTAATAT
1 TTTTTAAAAT
*
7269346 TTTTTAATAT
1 TTTTTAAAAT
7269356 TTTTT
1 TTTTT
7269361 GTGAGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:7269347 original size:19 final size:19
Alignment explanation
Indices: 7269315--7269357 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
7269305 TAATATTTTC
*
7269315 AATTTTTAAAATTTTTTAA
1 AATTTCTAAAATTTTTTAA
*
7269334 AATTTCTAATATTTTTTAA
1 AATTTCTAAAATTTTTTAA
*
7269353 TATTT
1 AATTT
7269358 TTTGTGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTCTAAAATTTTTTAA
Found at i:7287030 original size:90 final size:90
Alignment explanation
Indices: 7286877--7287059 Score: 357
Period size: 90 Copynumber: 2.0 Consensus size: 90
7286867 TATTTACACC
7286877 ATAACTGAGTCCAACATTCAATTTTATATAAAGGCTGATAAGGATGTCACCTGTTCAATTTATCC
1 ATAACTGAGTCCAACATTCAATTTTATATAAAGGCTGATAAGGATGTCACCTGTTCAATTTATCC
7286942 AATTGGGAATAATTTCAACTTAAAT
66 AATTGGGAATAATTTCAACTTAAAT
*
7286967 ATAACTGAGTCCAACATTCAATTTTATATAAAGGCTGATAAGGATGTCACCTGTTCACTTTATCC
1 ATAACTGAGTCCAACATTCAATTTTATATAAAGGCTGATAAGGATGTCACCTGTTCAATTTATCC
7287032 AATTGGGAATAATTTCAACTTAAAT
66 AATTGGGAATAATTTCAACTTAAAT
7287057 ATA
1 ATA
7287060 TTTTTTAGAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (90 bp):
ATAACTGAGTCCAACATTCAATTTTATATAAAGGCTGATAAGGATGTCACCTGTTCAATTTATCC
AATTGGGAATAATTTCAACTTAAAT
Found at i:7290935 original size:25 final size:25
Alignment explanation
Indices: 7290884--7290935 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
7290874 ATATTAATAT
* *
7290884 TTATATTAATATGAAATAAATATAA
1 TTATATTAATATGAAATAAAAAAAA
*
7290909 TTATATTAATATTAAATAAAAAAAA
1 TTATATTAATATGAAATAAAAAAAA
7290934 TT
1 TT
7290936 CCCCCCTCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TTATATTAATATGAAATAAAAAAAA
Found at i:7291715 original size:16 final size:18
Alignment explanation
Indices: 7291696--7291739 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
7291686 TATTAAATGT
*
7291696 ATATAAACAT-AAAA-AA
1 ATATAAAAATCAAAATAA
7291712 ATATAAAAATCAAAATAA
1 ATATAAAAATCAAAATAA
7291730 ATATATAAAA
1 ATATA-AAAA
7291740 ATTCAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 4 0.17
18 7 0.29
19 4 0.17
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
ATATAAAAATCAAAATAA
Found at i:7291745 original size:21 final size:20
Alignment explanation
Indices: 7291712--7291757 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
7291702 ACATAAAAAA
7291712 ATATAAAAATCAAAATAAAT
1 ATATAAAAATCAAAATAAAT
* *
7291732 ATATAAAAATTCAATATATAT
1 ATATAAAAA-TCAAAATAAAT
7291753 ATATA
1 ATATA
7291758 TATATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAAATCAAAATAAAT
Found at i:7291747 original size:19 final size:19
Alignment explanation
Indices: 7291695--7291757 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
7291685 TTATTAAATG
*
7291695 TATATAAACAT-AAA-AAA
1 TATATAAAAATCAAATAAA
7291712 -ATATAAAAATCAAAATAAA
1 TATATAAAAATC-AAATAAA
*
7291731 TATATAAAAATTCAATATATA
1 TATATAAAAA-TCAA-ATAAA
7291752 TATATA
1 TATATA
7291758 TATATAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 9 0.24
18 3 0.08
19 3 0.08
20 11 0.29
21 12 0.32
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TATATAAAAATCAAATAAA
Found at i:7291887 original size:10 final size:10
Alignment explanation
Indices: 7291845--7291905 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
7291835 ATATTATTAC
*
7291845 AAAAAATGTA
1 AAAAAATTTA
*
7291855 AAAAAATTTG
1 AAAAAATTTA
* *
7291865 TAAGAATTATA
1 AAAAAATT-TA
7291876 AAAAAATTTA
1 AAAAAATTTA
*
7291886 AAAAAGGTTTA
1 AAAAA-ATTTA
*
7291897 AAAATATTT
1 AAAAAATTT
7291906 TTTTATAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
10 24 0.62
11 15 0.38
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:7292030 original size:19 final size:19
Alignment explanation
Indices: 7291984--7292022 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7291974 AAATTTAATT
*
7291984 ACATTTTTATAATTTTTATA
1 ACATTTTT-CAATTTTTATA
7292004 ACATTTTTCAATTTTTATA
1 ACATTTTTCAATTTTTATA
7292023 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
ACATTTTTCAATTTTTATA
Found at i:7292030 original size:20 final size:19
Alignment explanation
Indices: 7291984--7292037 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
7291974 AAATTTAATT
7291984 ACATTTTTATAATTTTTATA
1 ACATTTTTA-AATTTTTATA
*
7292004 ACATTTTTCAATTTTTATA
1 ACATTTTTAAATTTTTATA
7292023 TA-ATTTTTTAAATTT
1 -ACA-TTTTTAAATTT
7292038 ATAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
ACATTTTTAAATTTTTATA
Found at i:7292043 original size:60 final size:60
Alignment explanation
Indices: 7291949--7292064 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 60
7291939 AGTATTTAAA
7291949 TTTCAAGTTTTTATACAATTACTTGAAATTTAATTACAT-TTTTATAATTTTTATAACATT
1 TTTCAAGTTTTTATACAATTACTTGAAATTTAATTACATATTTTATAA-TTTTATAACATT
* * * *
7292009 TTTCAA-TTTTTATATAATT-TTTTAAATTTATAATTATATATTTTATAATTTTATAA
1 TTTCAAGTTTTTATACAATTACTTGAAA-TT-TAATTACATATTTTATAATTTTATAA
7292065 AAATATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
58 5 0.10
59 14 0.29
60 22 0.45
61 8 0.16
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (60 bp):
TTTCAAGTTTTTATACAATTACTTGAAATTTAATTACATATTTTATAATTTTATAACATT
Found at i:7292059 original size:8 final size:8
Alignment explanation
Indices: 7292021--7292064 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
7292011 TCAATTTTTA
7292021 TATAATTT
1 TATAATTT
* *
7292029 TTTAAATT
1 TATAATTT
*
7292037 TATAATTA
1 TATAATTT
7292045 TAT-ATTT
1 TATAATTT
7292052 TATAATTT
1 TATAATTT
7292060 TATAA
1 TATAA
7292065 AAATATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATAATTT
Found at i:7292061 original size:23 final size:24
Alignment explanation
Indices: 7292018--7292064 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
7292008 TTTTCAATTT
*
7292018 TTATATAATTTTTTAAATTTATAA
1 TTATATAATTTTATAAATTTATAA
*
7292042 TTATAT-ATTTTATAATTTTATAA
1 TTATATAATTTTATAAATTTATAA
7292065 AAATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATATAATTTTATAAATTTATAA
Found at i:7292070 original size:23 final size:23
Alignment explanation
Indices: 7292020--7292080 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
7292010 TTCAATTTTT
* **
7292020 ATATAATTTTTTAAATTTATAATT
1 ATAT-ATTTTATAAATTTATAAAA
*
7292044 ATATATTTTATAATTTTATAAAA
1 ATATATTTTATAAATTTATAAAA
* *
7292067 ATATTTTTTTTAAA
1 ATATATTTTATAAA
7292081 ATTTTTAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATATTTTATAAATTTATAAAA
Found at i:7292485 original size:29 final size:29
Alignment explanation
Indices: 7292450--7292511 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
7292440 GTTTTGATTC
7292450 ATTTTCTATACGTAAATTTAAGAATTAAT
1 ATTTTCTATACGTAAATTTAAGAATTAAT
*
7292479 ATTTTCTATACTTAAATTTAAGAATTAAT
1 ATTTTCTATACGTAAATTTAAGAATTAAT
7292508 -TTTT
1 ATTTT
7292512 ATTCTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTTTCTATACGTAAATTTAAGAATTAAT
Found at i:7293019 original size:19 final size:18
Alignment explanation
Indices: 7292997--7293047 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
7292987 TCTTTACAAA
7292997 TATTTTGAATTTTAAAAAT
1 TATTTT-AATTTTAAAAAT
**
7293016 TATTTTAAAATTTGGAAAAT
1 TATTTT--AATTTTAAAAAT
7293036 TATTTTAATTTT
1 TATTTTAATTTT
7293048 TTTTGTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 16 0.59
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
TATTTTAATTTTAAAAAT
Found at i:7295490 original size:28 final size:28
Alignment explanation
Indices: 7295458--7295511 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
7295448 ATCTTGATTG
* *
7295458 TAACAAAATTTAGTGTAAATCTAAGCTA
1 TAACAAAATCTAGTGTAAATATAAGCTA
*
7295486 TAACAAAATCTAGTGTGAATATAAGC
1 TAACAAAATCTAGTGTAAATATAAGC
7295512 CATTTATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (28 bp):
TAACAAAATCTAGTGTAAATATAAGCTA
Found at i:7297322 original size:31 final size:34
Alignment explanation
Indices: 7297269--7297332 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 34
7297259 AGCTCGTTCA
* * *
7297269 AAAAATGAGAATTTAGATAAAAATAT-AAGTTTG
1 AAAAATGAGAATTTAAACAAAAAAATAAAGTTTG
7297302 AAAAAT-AG-ATTTAAACAAAAAAATAAAGTTT
1 AAAAATGAGAATTTAAACAAAAAAATAAAGTTT
7297333 ATTTTTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 13 0.48
32 8 0.30
33 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (34 bp):
AAAAATGAGAATTTAAACAAAAAAATAAAGTTTG
Found at i:7297439 original size:21 final size:22
Alignment explanation
Indices: 7297410--7297451 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
7297400 AAAAAAGATT
7297410 ATTGCTTTTTGCTATTGTTTTC
1 ATTGCTTTTTGCTATTGTTTTC
*
7297432 ATTG-TTTTTGCTGTTGTTTT
1 ATTGCTTTTTGCTATTGTTTT
7297452 GTCACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.07, C:0.10, G:0.17, T:0.67
Consensus pattern (22 bp):
ATTGCTTTTTGCTATTGTTTTC
Found at i:7298769 original size:17 final size:17
Alignment explanation
Indices: 7298749--7298792 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
7298739 AAATAGAAAT
7298749 AAATATAAAAAATTTCA
1 AAATATAAAAAATTTCA
* * *
7298766 AAATATATATAATTTTA
1 AAATATAAAAAATTTCA
7298783 AAATATAAAA
1 AAATATAAAA
7298793 TCATAAAAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAAAAAATTTCA
Found at i:7300577 original size:29 final size:28
Alignment explanation
Indices: 7300526--7300953 Score: 207
Period size: 29 Copynumber: 14.6 Consensus size: 28
7300516 ACCCGGGGAC
* ** *
7300526 AAAATGGTAATTTTAGACTTTTGGGGGCA
1 AAAATGG-AATTTTGGAAATTTGGGGGTA
*
7300555 AAAATGGAATTTTGGGAAATTTGGGGTTA
1 AAAATGGAATTTT-GGAAATTTGGGGGTA
* *
7300584 AAAAT-GATATTTTGGATATTCGGGGGT-
1 AAAATGGA-ATTTTGGAAATTTGGGGGTA
* * ** * *
7300611 AAAACGGTAATCTTTAGAAAAATCGGGATAA
1 AAAATGG-AAT-TTTGGAAATTTGGGGGT-A
* * * *
7300642 AAAATGGAGTTTTTGAACATTCGAGGGT-
1 AAAATGGAATTTTGGAA-ATTTGGGGGTA
* * *
7300670 AAAATGGTAATTTTGGAAGTTTTGAGGTCA
1 AAAATGG-AATTTTGGAAATTTGGGGGT-A
* * *
7300700 AAAATGGAATTTTTGAGAATTTCGAGGTCA
1 AAAATGGAATTTTGGA-AATTTGGGGGT-A
* *
7300730 AAAATGGAATTTTGGAATTTTGAGGGTA
1 AAAATGGAATTTTGGAAATTTGGGGGTA
*
7300758 AAAATGGAATTTTTGGAATTTTGGGGGTA
1 AAAATGGAA-TTTTGGAAATTTGGGGGTA
* * * * *
7300787 AGAACT-TAATTTTTGGAAGTTTTGGGATAA
1 A-AAATGGAA-TTTTGGAAATTTGGGGGT-A
* * *
7300817 AAAATGGAATTTTTAGAAATTAGAGGGTA
1 AAAATGGAA-TTTTGGAAATTTGGGGGTA
* * * *
7300846 AAAATGTATTTTTTGGAAGTTTAGGGGTTA
1 AAAATGGA-ATTTTGGAAATTT-GGGGGTA
* * *
7300876 ATAATGAAATTTTTGGAAGTTTTGGGGGTA
1 AAAATGGAA-TTTTGGAA-ATTTGGGGGTA
* * * * *
7300906 AAAATGTAATTTTGGGAAGTTTTGAGATCA
1 AAAATGGAATTTT-GGAAATTTGGGGGT-A
*
7300936 AAAATGTAATTTTGGAAA
1 AAAATGGAATTTTGGAAA
7300954 AGTTTAGAGG
Statistics
Matches: 304, Mismatches: 73, Indels: 44
0.72 0.17 0.10
Matches are distributed among these distances:
27 4 0.01
28 44 0.14
29 138 0.45
30 109 0.36
31 9 0.03
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAATTTGGGGGTA
Found at i:7300703 original size:59 final size:58
Alignment explanation
Indices: 7300639--7300953 Score: 277
Period size: 59 Copynumber: 5.4 Consensus size: 58
7300629 AAAATCGGGA
*
7300639 TAAAAAATGGAGTTTTT-GAACATTCGAGGGT-AAAATGGTAATTTTGGAAGTTTTGAGG
1 TAAAAAATGGAATTTTTGGAA-ATTCGAGGGTAAAAAT-GTAATTTTGGAAGTTTTGAGG
* * *
7300697 TCAAAAATGGAATTTTTGAGAATTTCGA-GGTCAAAAATGGAATTTTGGAA-TTTTGAGGG
1 TAAAAAATGGAATTTTTG-GAAATTCGAGGGT-AAAAATGTAATTTTGGAAGTTTTGA-GG
* * * *
7300756 T-AAAAATGGAATTTTTGGAATTTTGGGGGTAAGAACT-TAATTTTTGGAAGTTTTG-GG
1 TAAAAAATGGAATTTTTGGAAATTCGAGGGTAA-AAATGTAA-TTTTGGAAGTTTTGAGG
* * * * *
7300813 ATAAAAAATGGAATTTTTAGAAATTAGAGGGTAAAAATGTATTTTTTGGAAGTTTAGGGG
1 -TAAAAAATGGAATTTTTGGAAATTCGAGGGTAAAAATGTA-ATTTTGGAAGTTTTGAGG
* * * * * * *
7300873 TTAATAATGAAATTTTTGGAAGTTTTGGGGGTAAAAATGTAATTTTGGGAAGTTTTGAGA
1 TAAAAAATGGAATTTTTGGAA-ATTCGAGGGTAAAAATGTAATTTT-GGAAGTTTTGAGG
* *
7300933 TCAAAAATGTAA-TTTTGGAAA
1 TAAAAAATGGAATTTTTGGAAA
7300954 AGTTTAGAGG
Statistics
Matches: 211, Mismatches: 30, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
57 13 0.06
58 58 0.27
59 95 0.45
60 45 0.21
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.37
Consensus pattern (58 bp):
TAAAAAATGGAATTTTTGGAAATTCGAGGGTAAAAATGTAATTTTGGAAGTTTTGAGG
Found at i:7300706 original size:30 final size:29
Alignment explanation
Indices: 7300670--7300987 Score: 224
Period size: 30 Copynumber: 10.8 Consensus size: 29
7300660 ATTCGAGGGT
7300670 AAAATGGTAA-TTTTGGAAGTTTTGAGGTCA
1 AAAAT-GTAATTTTTGGAAGTTTTGAGGT-A
* *
7300700 AAAATGGAATTTTTGAGAA-TTTCGAGGTCA
1 AAAATGTAATTTTTG-GAAGTTTTGAGGT-A
*
7300730 AAAATGGAA-TTTTGGAA-TTTTGAGGGTA
1 AAAATGTAATTTTTGGAAGTTTTGA-GGTA
* *
7300758 AAAATGGAATTTTTGGAA-TTTTGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTT-GAGGTA
*
7300787 AGAACT-TAATTTTTGGAAGTTTTG-GGATAA
1 A-AAATGTAATTTTTGGAAGTTTTGAGG-T-A
* * * *
7300817 AAAATGGAATTTTTAGAA-ATTAGAGGGTA
1 AAAATGTAATTTTTGGAAGTTTTGA-GGTA
* * *
7300846 AAAATGTATTTTTTGGAAGTTTAGGGGTTA
1 AAAATGTAATTTTTGGAAGTTTTGAGG-TA
* * *
7300876 ATAATGAAATTTTTGGAAGTTTTGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTT-GAGGTA
* *
7300906 AAAATGTAATTTTGGGAAGTTTTGAGATCA
1 AAAATGTAATTTTTGGAAGTTTTGAGGT-A
*
7300936 AAAATGTAA-TTTTGGAAAAGTTTAGAGGT-
1 AAAATGTAATTTTTGG--AAGTTTTGAGGTA
* **
7300965 CAAATACAATTTTTGGATAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
7300988 AGGGACTTTC
Statistics
Matches: 237, Mismatches: 31, Indels: 41
0.77 0.10 0.13
Matches are distributed among these distances:
28 21 0.09
29 84 0.35
30 113 0.48
31 19 0.08
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTTGAGGTA
Found at i:7302916 original size:18 final size:16
Alignment explanation
Indices: 7302880--7302941 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 16
7302870 TAAATTTATT
* *
7302880 TTTAAGTTTAAAATTA
1 TTTAAATTTAAAATAA
7302896 TTTCAAATTTAAAATAAA
1 TTT-AAATTTAAAAT-AA
7302914 TTTAAATTTAAAAATTAA
1 TTTAAATTT-AAAA-TAA
7302932 TTTAAATTTA
1 TTTAAATTTA
7302942 GATTTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.08
17 17 0.43
18 19 0.47
19 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TTTAAATTTAAAATAA
Found at i:7302921 original size:6 final size:6
Alignment explanation
Indices: 7302869--7302949 Score: 53
Period size: 6 Copynumber: 13.8 Consensus size: 6
7302859 ATTTGGACTC
** * * *
7302869 TTAAAT TTATTT TTAAGT TTAAAA TT--AT TTCAAAT TTAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
* *
7302915 TTAAAT TTAAAAA TT-AAT TTAAAT TTAGAT TTAAA
1 TTAAAT TT-AAAT TTAAAT TTAAAT TTAAAT TTAAA
7302950 AAAATTAAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
4 3 0.05
5 8 0.14
6 36 0.64
7 9 0.16
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:7302931 original size:24 final size:24
Alignment explanation
Indices: 7302895--7302951 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
7302885 GTTTAAAATT
* *
7302895 ATTTCAAATTTAAAATAAATTTAA
1 ATTTAAAAATTAAAATAAATTTAA
** *
7302919 ATTTAAAAATTAATTTAAATTTAG
1 ATTTAAAAATTAAAATAAATTTAA
7302943 ATTTAAAAA
1 ATTTAAAAA
7302952 AATTAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTTAAAAATTAAAATAAATTTAA
Found at i:7302933 original size:12 final size:12
Alignment explanation
Indices: 7302918--7302987 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
7302908 AATAAATTTA
7302918 AATTTAAAAATT
1 AATTTAAAAATT
*
7302930 AATTT-AAATTT
1 AATTTAAAAATT
7302941 AGATTTAAAAAAATT
1 A-ATTT--AAAAATT
* *
7302956 AAATTTATAAATA
1 -AATTTAAAAATT
*
7302969 AATTT-AAAATC
1 AATTTAAAAATT
7302980 AATTTAAA
1 AATTTAAA
7302988 CCAAACATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
11 15 0.33
12 16 0.35
13 5 0.11
15 9 0.20
16 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (12 bp):
AATTTAAAAATT
Found at i:7304052 original size:20 final size:20
Alignment explanation
Indices: 7304027--7304073 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
7304017 TATGTCAATG
7304027 TTTAAAAATTT-TATTAAAAA
1 TTTAAAAATTTATA-TAAAAA
*
7304047 TTT-AAAATTTATATAAAAT
1 TTTAAAAATTTATATAAAAA
7304066 TTTAAAAA
1 TTTAAAAA
7304074 AACTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAAATTTATATAAAAA
Found at i:7304473 original size:18 final size:18
Alignment explanation
Indices: 7304450--7304485 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7304440 CAAACTTGAA
7304450 AAAAAAAATACTTATTTG
1 AAAAAAAATACTTATTTG
* *
7304468 AAAAAATATATTTATTTG
1 AAAAAAAATACTTATTTG
7304486 CAACTTGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (18 bp):
AAAAAAAATACTTATTTG
Found at i:7319153 original size:18 final size:18
Alignment explanation
Indices: 7319130--7319172 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7319120 ATAAGGTTCC
* *
7319130 TACCTTTTCGGATCGAAA
1 TACCTTTACGGACCGAAA
7319148 TACCTTTACGGACCGAAA
1 TACCTTTACGGACCGAAA
7319166 TACCTTT
1 TACCTTT
7319173 GAAAATAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (18 bp):
TACCTTTACGGACCGAAA
Found at i:7321190 original size:23 final size:23
Alignment explanation
Indices: 7321164--7321221 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
7321154 AATTTATTTT
7321164 ATTATCAAC-AATAAATTTAAAAA
1 ATTAT-AACAAATAAATTTAAAAA
* *
7321187 ATTATATCAAATATATTT-AAAA
1 ATTATAACAAATAAATTTAAAAA
*
7321209 ATTAAAACAAATA
1 ATTATAACAAATA
7321222 TTAAAACAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTATAACAAATAAATTTAAAAA
Found at i:7321458 original size:11 final size:12
Alignment explanation
Indices: 7321400--7321465 Score: 55
Period size: 12 Copynumber: 5.7 Consensus size: 12
7321390 AAACAAATCG
7321400 AAACAACACCAA
1 AAACAACACCAA
*
7321412 AAACAGCACCAA
1 AAACAACACCAA
* * * *
7321424 TAATAATATC-A
1 AAACAACACCAA
*
7321435 AAACAGCACCAA
1 AAACAACACCAA
7321447 AAACAACA-CAA
1 AAACAACACCAA
*
7321458 AAAAAACA
1 AAACAACA
7321466 ACCTGCAAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 3
0.71 0.23 0.05
Matches are distributed among these distances:
11 16 0.40
12 24 0.60
ACGTcount: A:0.65, C:0.26, G:0.03, T:0.06
Consensus pattern (12 bp):
AAACAACACCAA
Found at i:7321460 original size:23 final size:24
Alignment explanation
Indices: 7321400--7321461 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
7321390 AAACAAATCG
7321400 AAACAACACCAAAAACAGCACCAA
1 AAACAACACCAAAAACAGCACCAA
* * * *
7321424 TAATAATATC-AAAACAGCACCAA
1 AAACAACACCAAAAACAGCACCAA
*
7321447 AAACAACACAAAAAA
1 AAACAACACCAAAAA
7321462 AACAACCTGC
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.65, C:0.26, G:0.03, T:0.06
Consensus pattern (24 bp):
AAACAACACCAAAAACAGCACCAA
Found at i:7323008 original size:59 final size:59
Alignment explanation
Indices: 7322929--7323332 Score: 531
Period size: 59 Copynumber: 6.9 Consensus size: 59
7322919 TGGATACACG
* *
7322929 GGGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGTAATTTT-AAGAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAGAGTTC
* * *
7322986 GAGGGTAAAATGGTAATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAA-AGTTT
1 GGGGGTAAAATGGTAA-TTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-GAAGAGTTC
* *
7323046 AGGGGTAAAATGATAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAG-GTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-GAAGAGTTC
* *
7323104 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAG-GTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-GAAGAGTTC
* *
7323163 GGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTT-AAAATGGAATTTTAGAA-AGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-GAAGAGTTC
* *
7323221 GGGGGTAAAATGGTAATTTTTGAT-AACATTGGGGTTAAAAATGGAATTTTGGAAGA-TTC
1 GGGGGTAAAATGGTAATTTTTGGTGAA-ATCGGGGTTAAAAATGGAATTTT-GAAGAGTTC
* * *
7323280 GGGGATAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTGAA
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAA
7323333 AGGTTTGGGG
Statistics
Matches: 310, Mismatches: 26, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
57 16 0.05
58 103 0.33
59 169 0.55
60 20 0.06
61 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAGAGTTC
Found at i:7323124 original size:117 final size:117
Alignment explanation
Indices: 7322930--7323360 Score: 554
Period size: 117 Copynumber: 3.7 Consensus size: 117
7322920 GGATACACGG
* * *
7322930 GGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGTAATTTT--AAGAGTTCGAGGGT
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAG-GTTCGGGGGT
7322992 AAAATGGTAATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTA
65 AAAATGGTAA-TTTTTGGTGAAATCGAGGTTAAAAATGGAATTTT-GAAAGTTTA
*
7323047 GGGGTAAAATGATAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTTCGGGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTTCGGGGGTA
* *
7323111 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGGTTTG
66 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTT-GAAAGTTTA
* * * *
7323164 GGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTT-AAAATGGAATTTTAGAAAGTTCGGGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTTCGGGGGTA
* * * * * *
7323228 AAATGGTAATTTTTGAT-AACATTGGGGTTAAAAATGGAATTTTGGAAGATTC
66 AAATGGTAATTTTTGGTGAA-ATCGAGGTTAAAAATGGAATTTTGAAAGTTTA
* * * *
7323280 GGGGATAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTGAAAGGTT-TGGGGT
1 GGGG-TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTTCGGGGGT
*
7323344 CAAAAT-GCAATTTTTGG
65 -AAAATGGTAATTTTTGG
7323361 ACTGTTTGGG
Statistics
Matches: 278, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
116 11 0.04
117 205 0.74
118 59 0.21
119 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTTCGGGGGTA
AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAGTTTA
Found at i:7323186 original size:176 final size:175
Alignment explanation
Indices: 7322929--7323360 Score: 608
Period size: 176 Copynumber: 2.5 Consensus size: 175
7322919 TGGATACACG
* * * * *
7322929 GGGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGTAATTTT-AAGAGTTCGAGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAG-GTTTGGGGGT
* *
7322992 AAAATGGTAATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAAT
65 AAAATGGTAA-TTTTTGGTGAAACCGAGGTT-AAAATGGAATTTTAGAAAGTTCAGGGGTAAAAT
* *
7323057 GATAA-TTTTGGTGAA-ATCGGGGTTAAAAATGGAATTTTGGAAGGTTC
128 GATAATTTTTGAT-AACATCGGGGTTAAAAATGGAATTTTGGAAGATTC
7323104 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGGTTTGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTT-GAAGGTTTGGGGGT
* *
7323169 AAAATGGTAATTTTTGGTGAAACCGAGGTTAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGG
65 AAAATGGTAATTTTTGGTGAAACCGAGGTTAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGA
*
7323234 TAATTTTTGATAACATTGGGGTTAAAAATGGAATTTTGGAAGATTC
130 TAATTTTTGATAACATCGGGGTTAAAAATGGAATTTTGGAAGATTC
* *
7323280 GGGGATAAAATGGTAATTTTTGATGAAATC-AGGGTTAAAAATGGAATTTTGAAAGGTTT-GGGG
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTG-AAGGTTTGGGGG
*
7323343 TCAAAAT-GCAATTTTTGG
64 T-AAAATGGTAATTTTTGG
7323361 ACTGTTTGGG
Statistics
Matches: 234, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
175 69 0.29
176 144 0.62
177 18 0.08
178 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (175 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAGGTTTGGGGGTA
AAATGGTAATTTTTGGTGAAACCGAGGTTAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGAT
AATTTTTGATAACATCGGGGTTAAAAATGGAATTTTGGAAGATTC
Found at i:7323202 original size:30 final size:29
Alignment explanation
Indices: 7322935--7323329 Score: 139
Period size: 30 Copynumber: 13.4 Consensus size: 29
7322925 CACGGGGGGC
*
7322935 AAAATGGTAA-TTTTGGTGAAATCGGGGTT
1 AAAATGG-AATTTTTGGTGAAATCGAGGTT
* ** ** *
7322964 AAAAATGTAA-TTTT-AAGAGTTCGAGGGT
1 -AAAATGGAATTTTTGGTGAAATCGAGGTT
7322992 AAAATGGTAATTTTTTGGTGAAATCGAGGTT
1 AAAATGG-AA-TTTTTGGTGAAATCGAGGTT
* ** *
7323023 AAAAATGGAA-TTTT--AGAAAGTTTAGGGGT
1 -AAAATGGAATTTTTGGTGAAA-TCGA-GGTT
* *
7323052 AAAAT-GATAATTTTGGTGAAATCGGGGTT
1 AAAATGGA-ATTTTTGGTGAAATCGAGGTT
* * *
7323081 AAAAATGGAA-TTTT-G-GAAGGTTCGGGGGT
1 -AAAATGGAATTTTTGGTGAA--ATCGAGGTT
7323110 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGG-AATTTTTGGTGAAATCGAGGTT
* * * *
7323140 AAAAATGGAA-TTTT-G-GAAGGTTTGGGGGT
1 -AAAATGGAATTTTTGGTGAA--ATCGAGGTT
*
7323169 AAAATGGTAATTTTTGGTGAAACCGAGGTT
1 AAAATGG-AATTTTTGGTGAAATCGAGGTT
* * *
7323199 AAAATGGAA-TTTT--AGAAAGTTCGGGGGT
1 AAAATGGAATTTTTGGTGAAA--TCGAGGTT
* * *
7323227 AAAATGGTAATTTTTGAT-AACATTGGGGTT
1 AAAATGG-AATTTTTGGTGAA-ATCGAGGTT
* *
7323257 AAAAATGGAA-TTTT-G-GAAGATTCGGGGAT
1 -AAAATGGAATTTTTGGTGAA-A-TCGAGGTT
*
7323286 AAAATGGTAATTTTTGATGAAATC-AGGGTT
1 AAAATGG-AATTTTTGGTGAAATCGA-GGTT
7323316 AAAAATGGAATTTT
1 -AAAATGGAATTTT
7323330 GAAAGGTTTG
Statistics
Matches: 273, Mismatches: 50, Indels: 84
0.67 0.12 0.21
Matches are distributed among these distances:
26 4 0.01
27 18 0.07
28 60 0.22
29 60 0.22
30 71 0.26
31 43 0.16
32 17 0.06
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTTGGTGAAATCGAGGTT
Found at i:7323254 original size:29 final size:31
Alignment explanation
Indices: 7323163--7323303 Score: 102
Period size: 29 Copynumber: 4.8 Consensus size: 31
7323153 TGGAAGGTTT
* * *
7323163 GGGGGTAAAATGGTAATTTTTGGTGAA-A-CC
1 GGGGATAAAATGGTAATTTTTGAT-AACATTC
* * * *
7323193 GAGGTTAAAATGG-AATTTTAGA-AA-GTTC
1 GGGGATAAAATGGTAATTTTTGATAACATTC
*
7323221 GGGGGTAAAATGGTAATTTTTGATAACATT-
1 GGGGATAAAATGGTAATTTTTGATAACATTC
* * *
7323251 GGGGTTAAAAATGG-AA-TTTTG-GAAGATTC
1 GGGGAT-AAAATGGTAATTTTTGATAACATTC
7323280 GGGGATAAAATGGTAATTTTTGAT
1 GGGGATAAAATGGTAATTTTTGAT
7323304 GAAATCAGGG
Statistics
Matches: 87, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
27 2 0.02
28 24 0.28
29 27 0.31
30 25 0.29
31 9 0.10
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (31 bp):
GGGGATAAAATGGTAATTTTTGATAACATTC
Found at i:7324334 original size:3 final size:3
Alignment explanation
Indices: 7324326--7324350 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7324316 TTTAATATAA
7324326 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
7324351 ATGGCCATTT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:7324392 original size:7 final size:7
Alignment explanation
Indices: 7324380--7324404 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7324370 ATTAATACTA
7324380 TATTTAT
1 TATTTAT
7324387 TATTTAT
1 TATTTAT
7324394 TATTTAT
1 TATTTAT
7324401 TATT
1 TATT
7324405 AATAAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:7324831 original size:27 final size:27
Alignment explanation
Indices: 7324801--7324859 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
7324791 TTTTAAAAAG
*
7324801 GGGTTCGTCTATT-GATTTTCAAGAACT
1 GGGTTCGTCTATTGGA-TTTCAAGAACA
*
7324828 GGGTTCGTGTATTGGATTTCAAGAACA
1 GGGTTCGTCTATTGGATTTCAAGAACA
7324855 GGGTT
1 GGGTT
7324860 TGTAACCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.37
Consensus pattern (27 bp):
GGGTTCGTCTATTGGATTTCAAGAACA
Found at i:7325316 original size:11 final size:11
Alignment explanation
Indices: 7325302--7325373 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
7325292 GTTTTATAAT
*
7325302 TTTAATTTTAA
1 TTTAAATTTAA
7325313 TTTAAATTTAA
1 TTTAAATTTAA
**
7325324 GGTAAATTTAA
1 TTTAAATTTAA
* *
7325335 -AT-AATTAAA
1 TTTAAATTTAA
7325344 TTTAAATTTAA
1 TTTAAATTTAA
**
7325355 GATAAATTTAAA
1 TTTAAATTT-AA
7325367 TTTAAAT
1 TTTAAAT
7325374 AAATTTCAAG
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
9 6 0.13
10 2 0.04
11 32 0.68
12 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:7325322 original size:6 final size:6
Alignment explanation
Indices: 7325294--7325373 Score: 67
Period size: 6 Copynumber: 13.2 Consensus size: 6
7325284 TTAAATTTGT
* * **
7325294 TTTATAA TTTTAA TTTTAA TTTAAA TTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
7325344 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA T
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA T
7325374 AAATTTCAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
4 1 0.02
5 6 0.10
6 44 0.72
7 4 0.07
8 6 0.10
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:7325331 original size:17 final size:17
Alignment explanation
Indices: 7325311--7325379 Score: 92
Period size: 17 Copynumber: 4.3 Consensus size: 17
7325301 TTTTAATTTT
*
7325311 AATTTAAATTTAAGGTA
1 AATTTAAATTTAAGATA
*
7325328 AATTTAAA--TAA-TTA
1 AATTTAAATTTAAGATA
7325342 AATTTAAATTTAAGATA
1 AATTTAAATTTAAGATA
7325359 AATTTAAATTTAA-ATA
1 AATTTAAATTTAAGATA
7325375 AATTT
1 AATTT
7325380 CAAGTCAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.21
15 3 0.06
16 11 0.23
17 23 0.49
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAGATA
Found at i:7325835 original size:38 final size:37
Alignment explanation
Indices: 7325787--7326064 Score: 113
Period size: 38 Copynumber: 7.3 Consensus size: 37
7325777 TATCCACTCA
7325787 ACTTCAATTTCAAACGGATAGGAAAAGATCTTGCTCTT
1 ACTTCAATTTCAAA-GGATAGGAAAAGATCTTGCTCTT
* * ** * *
7325825 ACTTCAATTTCAGA-GATA--ACAACTTGTTGTCCAACTCT
1 ACTTCAATTTCAAAGGATAGGAAAAGATCTTG--C-TCT-T
* * *
7325863 ACTTCAATTTCAAGGGGATAGGCAATGATCTTGCTCTT
1 ACTTCAATTTCAA-AGGATAGGAAAAGATCTTGCTCTT
* * *** *** *
7325901 ACTTCAATTTCAGA-GATAAAGACTTGTTATCCAAC-CCT
1 ACTTCAATTTCAAAGGAT-AGGAAAAG--ATCTTGCTCTT
* *
7325939 ACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTT
1 ACTTCAATTTCAA-AGGATAGGAAAAGATCTTGCTCTT
* * *** ***
7325977 ACTTCAATTTCAGA-GATAAAGACGTGTTATCCAACTC-T
1 ACTTCAATTTCAAAGGAT-AGGAAAAG--ATCTTGCTCTT
7326015 ACTTCAATTTC-AAGCGAATAGGAAAAGATCTTGCTCTT
1 ACTTCAATTTCAAAG-G-ATAGGAAAAGATCTTGCTCTT
7326053 ACTTCAATTTCA
1 ACTTCAATTTCA
7326065 GAGATAAAGA
Statistics
Matches: 166, Mismatches: 52, Indels: 43
0.64 0.20 0.16
Matches are distributed among these distances:
34 7 0.04
36 11 0.07
37 21 0.13
38 91 0.55
39 21 0.13
40 10 0.06
42 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (37 bp):
ACTTCAATTTCAAAGGATAGGAAAAGATCTTGCTCTT
Found at i:7325882 original size:76 final size:76
Alignment explanation
Indices: 7325743--7326420 Score: 1036
Period size: 76 Copynumber: 9.0 Consensus size: 76
7325733 CTTTGTCTAA
* * * *
7325743 CTCTTACTTCAATTTCGGAGAGATAAAGACTTGGTATCC-ACTCAACTTCAATTTCAAACGGATA
1 CTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATA
7325807 GGAAAAGATCTTG
64 GGAAAAGATCTTG
* * *
7325820 CTCTTACTTCAATTTCAGAGATAACA-ACTTGTTGTCCAACTCTACTTCAATTTCAAGGGGATAG
1 CTCTTACTTCAATTTCAGAGATAA-AGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
* *
7325884 GCAATGATCTTG
65 GAAAAGATCTTG
* * *
7325896 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACCCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
* *
7325961 AAACGATGTTG
66 AAAAGATCTTG
*
7325972 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGAATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
7326037 AAAAGATCTTG
66 AAAAGATCTTG
* *
7326048 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT--G
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
*
7326111 --ACG---TTG
66 AAAAGATCTTG
*
7326117 CTCTTACTTCAATTTCGGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
7326182 AAAAGATCTTG
66 AAAAGATCTTG
*
7326193 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
*
7326257 AAATGATCTTG
66 AAAAGATCTTG
* *
7326268 GTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
7326333 AAAAGATCTTG
66 AAAAGATCTTG
*
7326344 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTAT-CTACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
7326408 AAAAGATCTTG
66 AAAAGATCTTG
7326419 CT
1 CT
7326421 GCAGTCTGAT
Statistics
Matches: 553, Mismatches: 37, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
69 62 0.11
71 1 0.00
72 2 0.00
73 2 0.00
74 1 0.00
75 130 0.24
76 339 0.61
77 16 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (76 bp):
CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
AAAAGATCTTG
Found at i:7326094 original size:38 final size:37
Alignment explanation
Indices: 7325900--7326397 Score: 192
Period size: 38 Copynumber: 13.4 Consensus size: 37
7325890 ATCTTGCTCT
* *
7325900 TACTTCAATTTCAGAGATAAAGACTTGTTATCCAACCC
1 TACTTCAATTTCAGAGATAAAGAC-TGATATCCAACTC
* **
7325938 TACTTCAATTTCAAGAGGATAGGAA-AC-GATGT--TGCTC
1 TACTTCAATTTC-AGA-GATA--AAGACTGATATCCAACTC
*
7325975 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
1 -TACTTCAATTTCAGAGATAAAGAC-TGATATCCAACTC
* * ** * ***
7326014 TACTTCAATTTCAAGCGA-ATAGGA-AAAGATCTTGCTC
1 TACTTCAATTTC-AGAGATA-AAGACTGATATCCAACTC
7326051 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
1 -TACTTCAATTTCAGAGATAAAGAC-TGATATCCAACTC
*** * * *
7326090 TACTTCAATTTCA-AGCGGATGAC-G-T-TGC-TCT-
1 TACTTCAATTTCAGAGATAAAGACTGATATCCAACTC
* *
7326121 TACTTCAATTTCGGAGATAAAGACGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATAAAGAC-TGATATCCAACTC
* * ** * ***
7326159 TACTTCAATTTCAAGCGGAT-AGGA-AAAGATCTTGCTC
1 TACTTCAATTTC-AG-AGATAAAGACTGATATCCAACTC
*
7326196 TTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTC
1 -TACTTCAATTTCAGAGATAAAGAC-TGATATCCAACTC
* ****
7326234 TACTTCAATTTCAAGAGGATAGGAA-A-TGATCTTGGTCT-
1 TACTTCAATTTC-AGA-GATA--AAGACTGATATCCAACTC
* *
7326272 TACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATAAAGAC-TGATATCCAACTC
* * ** * ***
7326310 TACTTCAATTTCAAGCGGAT-AGGA-AAAGATCTTGCTC
1 TACTTCAATTTC-AG-AGATAAAGACTGATATCCAACTC
* *
7326347 TTACTTCAATTTCAGAGATAAAGACGTGTTAT-CTACTC
1 -TACTTCAATTTCAGAGATAAAGAC-TGATATCCAACTC
7326385 TACTTCAATTTCA
1 TACTTCAATTTCA
7326398 AGCGGATAGG
Statistics
Matches: 329, Mismatches: 87, Indels: 89
0.65 0.17 0.18
Matches are distributed among these distances:
31 12 0.04
32 8 0.02
33 2 0.01
34 6 0.02
35 4 0.01
36 16 0.05
37 85 0.26
38 137 0.42
39 42 0.13
40 11 0.03
41 4 0.01
42 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATAAAGACTGATATCCAACTC
Found at i:7326320 original size:151 final size:151
Alignment explanation
Indices: 7325743--7326420 Score: 1041
Period size: 151 Copynumber: 4.5 Consensus size: 151
7325733 CTTTGTCTAA
* *
7325743 CTCTTACTTCAATTTCGGAGAGATAAAGACTTGGTATCCACTCAACTTCAATTTCAA-ACGGATA
1 CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGA-GGATA
* *
7325807 GGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAACA-ACTTGTTGTCCAACTCTACTTCAAT
63 GGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAA-AGACGTGTTATCCAACTCTACTTCAAT
* * *
7325871 TTCAAGGGGATAGGCAATGATCTTG
127 TTCAAGCGGATAGGAAAAGATCTTG
*
7325896 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACCCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGG
* *
7325961 AAACGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC
65 AAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC
*
7326026 AAGCGAATAGGAAAAGATCTTG
130 AAGCGGATAGGAAAAGATCTTG
* *
7326048 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT--G
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGG
* *
7326111 --ACG---TTGCTCTTACTTCAATTTCGGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC
65 AAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC
7326171 AAGCGGATAGGAAAAGATCTTG
130 AAGCGGATAGGAAAAGATCTTG
*
7326193 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
* * *
7326258 AATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCA
66 AAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCA
7326323 AGCGGATAGGAAAAGATCTTG
131 AGCGGATAGGAAAAGATCTTG
* * *
7326344 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCTACTCTACTTCAATTTCAAGCGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
7326409 AAAGATCTTGCT
66 AAAGATCTTGCT
7326421 GCAGTCTGAT
Statistics
Matches: 488, Mismatches: 27, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
144 23 0.05
145 112 0.23
146 1 0.00
148 5 0.01
150 1 0.00
151 170 0.35
152 159 0.33
153 17 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (151 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
AAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCA
AGCGGATAGGAAAAGATCTTG
Found at i:7338529 original size:29 final size:28
Alignment explanation
Indices: 7338497--7338781 Score: 109
Period size: 29 Copynumber: 9.8 Consensus size: 28
7338487 TTTGGATACC
*
7338497 CGGGGGGAAAATGGTAATTTTGGTGAAAT
1 CGGGGGAAAAATGGTAATTTT-GTGAAAT
* ** **
7338526 CGGGGTTAAAAAT-GTAATTTTAAGAGTT
1 CGGGG-GAAAAATGGTAATTTTGTGAAAT
* *
7338554 CGAGGGTAAAATGGTAATTTTGGTGAAAT
1 CGGGGGAAAAATGGTAATTTT-GTGAAAT
* *
7338583 CGGGGTTAAAAATGG-AATTTTG-GAAGGTT
1 CGGGG-GAAAAATGGTAATTTTGTGAA--AT
*
7338612 CGGGGGTAAAATGGTAATTTTTAGTGAAAT
1 CGGGGGAAAAATGGTAA-TTTT-GTGAAAT
* ** * *
7338642 CAAGGTTAAAAATAG-AATTTTG-GAAGGTT
1 C-GGGGGAAAAATGGTAATTTTGTGAA--AT
* * *
7338671 TGGGGGTAAAATGGTAATTTTTGGTGAAAC
1 CGGGGGAAAAATGGTAA-TTTT-GTGAAAT
** *
7338701 CGAGGTTAAAAATGG-AATTTT-AGAAAGTT
1 CG-GGGGAAAAATGGTAATTTTGTGAAA--T
* *
7338730 CGGGGGTAAAATGGTAATTTTCGGTGAGAT
1 CGGGGGAAAAATGGTAATTTT--GTGAAAT
* *
7338760 TGGGGTTAAAAATGG-AATTTTG
1 CGGGG-GAAAAATGGTAATTTTG
7338782 GAATGTTTGG
Statistics
Matches: 183, Mismatches: 48, Indels: 51
0.65 0.17 0.18
Matches are distributed among these distances:
27 15 0.08
28 42 0.23
29 53 0.29
30 38 0.21
31 26 0.14
32 9 0.05
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.32
Consensus pattern (28 bp):
CGGGGGAAAAATGGTAATTTTGTGAAAT
Found at i:7338660 original size:59 final size:59
Alignment explanation
Indices: 7338497--7338801 Score: 404
Period size: 59 Copynumber: 5.2 Consensus size: 59
7338487 TTTGGATACC
* *
7338497 CGGGGGGAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGTAATTTT--AAGAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAG-GTT
*
7338554 CGAGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTT
* ** *
7338612 CGGGGGTAAAATGGTAATTTTTAGTGAAATCAAGGTTAAAAATAGAATTTTGGAAGGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTT
* * * * *
7338671 TGGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTT
* * * *
7338730 CGGGGGTAAAATGGTAATTTTCGGTGAGATTGGGGTTAAAAATGGAATTTTGGAATGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTT
*
7338789 -TGGGGTCAAAATG
1 CGGGGGT-AAAATG
7338802 CAATTTCTGG
Statistics
Matches: 220, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
57 47 0.21
58 24 0.11
59 149 0.68
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTT
Found at i:7338791 original size:29 final size:29
Alignment explanation
Indices: 7338525--7338822 Score: 106
Period size: 29 Copynumber: 10.2 Consensus size: 29
7338515 TTTGGTGAAA
* *
7338525 TCGGGGTTAAAAATGTAATTTT--AAGAGT
1 TCGGGGTTAAAAATGGAATTTTGGAA-TGT
*
7338553 TCGAGGG-T-AAAATGGTAATTTTGG--TGAAA
1 TCG-GGGTTAAAAATGG-AATTTTGGAATG--T
*
7338582 TCGGGGTTAAAAATGGAATTTTGGAAGGT
1 TCGGGGTTAAAAATGGAATTTTGGAATGT
* *
7338611 TCGGGGGT-AAAATGGTAATTTTTAGTGAA--A
1 TCGGGGTTAAAAATGG-AA-TTTT-G-GAATGT
** * *
7338641 TCAAGGTTAAAAATAGAATTTTGGAAGGT
1 TCGGGGTTAAAAATGGAATTTTGGAATGT
* * *
7338670 TTGGGGGT-AAAATGGTAATTTTTGG--TGAAA
1 TCGGGGTTAAAAATGG-AA-TTTTGGAATG--T
* * * *
7338700 CCGAGGTTAAAAATGGAATTTTAGAAAGT
1 TCGGGGTTAAAAATGGAATTTTGGAATGT
* *
7338729 TCGGGGGT-AAAATGGTAATTTTCGGTGA-GAT
1 TCGGGGTTAAAAATGG-AATTTT-GG-AATG-T
7338760 T-GGGGTTAAAAATGGAATTTTGGAATGT
1 TCGGGGTTAAAAATGGAATTTTGGAATGT
* * * *
7338788 TTGGGG-TCAAAATGCAATTTCTGGATTGT
1 TCGGGGTTAAAAATGGAATTT-TGGAATGT
*
7338817 TTGGGG
1 TCGGGG
7338823 ACCTATAAAT
Statistics
Matches: 202, Mismatches: 36, Indels: 63
0.67 0.12 0.21
Matches are distributed among these distances:
27 10 0.05
28 50 0.25
29 70 0.35
30 43 0.21
31 26 0.13
32 3 0.01
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.33
Consensus pattern (29 bp):
TCGGGGTTAAAAATGGAATTTTGGAATGT
Found at i:7340720 original size:6 final size:6
Alignment explanation
Indices: 7340711--7340815 Score: 96
Period size: 6 Copynumber: 17.8 Consensus size: 6
7340701 TTTATTTTAG
* * *
7340711 TTAAGT TTAAAT TT-ATT TTATAAT TTAAAT TTAAAT TTAAAT TT-AAG
1 TTAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT TTAAAT
*
7340758 GTAAAT TTAAAT AATTAAAT TTAAAT TTAAGA- -TAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT --TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT
7340806 -TAAAT TTAAA
1 TTAAAT TTAAA
7340816 GTCAATTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
4 5 0.06
5 10 0.12
6 55 0.67
7 6 0.07
8 6 0.07
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:7340764 original size:17 final size:16
Alignment explanation
Indices: 7340727--7340815 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 16
7340717 TTAAATTTAT
7340727 TTTATAATTTAAATTTAAA
1 TTTA-AATTTAAA--TAAA
*
7340746 TTTAAATTTAAGGTAAA
1 TTTAAATTTAA-ATAAA
*
7340763 TTTAAA--TAATTAAA
1 TTTAAATTTAAATAAA
7340777 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
7340794 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
7340810 TTTAAA
1 TTTAAA
7340816 GTCAATTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 25 0.40
18 7 0.11
19 4 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:7340800 original size:37 final size:38
Alignment explanation
Indices: 7340739--7340815 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 38
7340729 TATAATTTAA
*
7340739 ATTTAAATTTAAATTTAAGGTAAATTTAAATAA-TTAA
1 ATTTAAATTTAAATTAAAGGTAAATTTAAATAATTTAA
**
7340776 ATTTAAATTTAAGA-TAAATTTAAATTTAAATAAATTTAA
1 ATTTAAATTTAA-ATTAAAGGTAAATTTAAAT-AATTTAA
7340815 A
1 A
7340816 GTCAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 26 0.76
38 3 0.09
39 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (38 bp):
ATTTAAATTTAAATTAAAGGTAAATTTAAATAATTTAA
Found at i:7340824 original size:11 final size:10
Alignment explanation
Indices: 7340736--7340825 Score: 57
Period size: 11 Copynumber: 8.9 Consensus size: 10
7340726 TTTTATAATT
7340736 TAAATTTAAA
1 TAAATTTAAA
*
7340746 TTTAAATTTAAGG
1 --TAAATTTAA-A
7340759 TAAATTTAAA
1 TAAATTTAAA
7340769 T-AA-TTAAA
1 TAAATTTAAA
7340777 TTTAAATTTAAGA
1 --TAAATTTAA-A
7340790 TAAA-TT---
1 TAAATTTAAA
7340796 TAAATTTAAA
1 TAAATTTAAA
7340806 TAAATTTAAA
1 TAAATTTAAA
*
7340816 GTCAATTTAA
1 -TAAATTTAA
7340826 CTTTTAAAGT
Statistics
Matches: 64, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 5 0.08
9 2 0.03
10 14 0.22
11 23 0.36
12 13 0.20
13 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:7341751 original size:16 final size:16
Alignment explanation
Indices: 7341730--7341762 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7341720 CTGTAATAGT
7341730 GGAAGCAGGCAACAGA
1 GGAAGCAGGCAACAGA
*
7341746 GGAAGCAGGCGACAGA
1 GGAAGCAGGCAACAGA
7341762 G
1 G
7341763 ATTAGGGCTG
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:0.39, C:0.18, G:0.42, T:0.00
Consensus pattern (16 bp):
GGAAGCAGGCAACAGA
Found at i:7344451 original size:22 final size:22
Alignment explanation
Indices: 7344402--7344445 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7344392 ATAAAATTAT
7344402 TAAATATTAAAATAAAATAAAA
1 TAAATATTAAAATAAAATAAAA
*
7344424 TAAATATTTAAAA-AAATTAAAA
1 TAAATA-TTAAAATAAAATAAAA
7344446 ATAATACGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATATTAAAATAAAATAAAA
Found at i:7344550 original size:11 final size:11
Alignment explanation
Indices: 7344534--7344558 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7344524 GATTTAAGAC
7344534 TGGGTTGGATT
1 TGGGTTGGATT
7344545 TGGGTTGGATT
1 TGGGTTGGATT
7344556 TGG
1 TGG
7344559 ATAAACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.48, T:0.44
Consensus pattern (11 bp):
TGGGTTGGATT
Found at i:7349743 original size:31 final size:30
Alignment explanation
Indices: 7349687--7349752 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
7349677 TAAAATAGTC
* **
7349687 ACTAAATAATTCAAAATTTTTATTTAA-ATT
1 ACTAGATAATTCAAAAAATTTATTTAAGA-T
7349717 ACTAGATAATTCAAAAAAATTTATTTAAGAT
1 ACTAGATAATTC-AAAAAATTTATTTAAGAT
7349748 ACTAG
1 ACTAG
7349753 GCTGTTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 11 0.35
31 19 0.61
32 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (30 bp):
ACTAGATAATTCAAAAAATTTATTTAAGAT
Found at i:7349967 original size:18 final size:20
Alignment explanation
Indices: 7349936--7349975 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
7349926 TTATTTTTAT
7349936 TAATATATTATTTTTTAAAA
1 TAATATATTATTTTTTAAAA
*
7349956 TAATA-ATT-TTTTTTCAAA
1 TAATATATTATTTTTTAAAA
7349974 TA
1 TA
7349976 TTTCTAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 3 0.16
20 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATATATTATTTTTTAAAA
Found at i:7353589 original size:41 final size:41
Alignment explanation
Indices: 7353532--7353627 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
7353522 TTATTAGTAG
* *
7353532 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGAGTGACT
7353573 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGAGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGAGTGACT
7353614 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
7353628 AATAAAATTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.36
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGAGTGACT
Done.