Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 28 of 66
Found at i:9493414 original size:67 final size:67
Alignment explanation
Indices: 9493177--9493419 Score: 271
Period size: 67 Copynumber: 3.6 Consensus size: 67
9493167 AAGTTAGTTG
* * *
9493177 TTGGGTTTTAGTTGATCCCAAT-AAAAACCATTATTG-TAGGTTGTGGTTGAGCCTTTGAAAAAC
1 TTGGGTTTTGGTTGATCCC-ATGAAAAACCATT-GTGAAAGGTTGTGGTTGAGCCTTTGAAAAAC
9493240 CACT
64 CACT
* * *
9493244 TTGGGTTTTGGTTAATCCCATGAAAAACCATTGTTG-TAGGTTGTGGTTGAACCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCCATGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
9493308 ACCT
65 A-CT
* * *
9493312 TT-GGTTTTGGTTGAGCCTATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCTTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
*
9493376 TT
66 CT
** * * *
9493378 TTGGGTTTCAGTTGATCTCGAT-AAAAATCATCGTGAAAGGTT
1 TTGGGTTTTGGTTGATC-CCATGAAAAACCATTGTGAAAGGTT
9493420 TTAACTAAGC
Statistics
Matches: 153, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
66 7 0.05
67 139 0.91
68 7 0.05
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
CT
Found at i:9503589 original size:16 final size:16
Alignment explanation
Indices: 9503548--9503590 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9503538 TTTCAAGATA
9503548 ATTTATAAAATCATTTC
1 ATTTATAAAA-CATTTC
*
9503565 ATTTA-AAAACATTTT
1 ATTTATAAAACATTTC
*
9503580 GTTTATAAAAC
1 ATTTATAAAAC
9503591 CTAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
16 9 0.39
17 5 0.22
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTATAAAACATTTC
Found at i:9518871 original size:73 final size:73
Alignment explanation
Indices: 9518710--9518872 Score: 170
Period size: 73 Copynumber: 2.2 Consensus size: 73
9518700 CTAACTACGC
**
9518710 TCTTAGTCGACTAAGTCGTCTCTGTCTTCTGATCCCAGTTTTTAGTAGTAAGCTCTTAGTCGGCT
1 TCTTAGTCGACTAAGTCGTCTCTGTCTTCTGATCCCAGTTTTTAGTAGTAAGCTCTTAGTCAACT
9518775 AACAAACT
66 AACAAACT
** * * * * *
9518783 TCTTAACCGATTAAGTGGTCTCTGTC-T-TGAAGT-CTAGATTTTTGGTAGTAAGCTCTTAGTTA
1 TCTTAGTCGACTAAGTCGTCTCTGTCTTCTG-A-TCCCAG-TTTTTAGTAGTAAGCTCTTAGTCA
**
9518845 ACTAACCTACT
63 ACTAACAAACT
*
9518856 TCTTGGTCGACTAAGTC
1 TCTTAGTCGACTAAGTC
9518873 TTTTTTGTCT
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
71 2 0.03
72 5 0.07
73 64 0.90
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (73 bp):
TCTTAGTCGACTAAGTCGTCTCTGTCTTCTGATCCCAGTTTTTAGTAGTAAGCTCTTAGTCAACT
AACAAACT
Found at i:9521500 original size:42 final size:43
Alignment explanation
Indices: 9521441--9521558 Score: 161
Period size: 42 Copynumber: 2.8 Consensus size: 43
9521431 ATTGACTCGG
* *
9521441 CTATGTGC-GAGTAGGAGTGCACATAAGCCGTTGCTGACCCGA
1 CTATGTACTGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGA
* *
9521483 CTATGTA-TGAGTGGGAGTGCACATAAGTCGTTGCTGACCCGG
1 CTATGTACTGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGA
**
9521525 CTATGTACT-AGTGGGAGTGCGTATAAGCCGTTGC
1 CTATGTACTGAGTGGGAGTGCACATAAGCCGTTGC
9521559 ATATGAGATG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 66 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (43 bp):
CTATGTACTGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGA
Found at i:9526896 original size:44 final size:43
Alignment explanation
Indices: 9526785--9526904 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
9526775 AGTGAAGAAT
*
9526785 AAATATTTAGTTATAAAAAATACACATAGGTAGAAATAATAATA
1 AAATATTTAGTTAT-AAAAATATACATAGGTAGAAATAATAATA
* * * * *
9526829 AAGTATTTAGTTACATGAAATATACATAGGTGGAAATAATGATA
1 AAATATTTAGTTATA-AAAATATACATAGGTAGAAATAATAATA
* * *
9526873 AAATGTTTAGTTATACAACATATATATAGGTA
1 AAATATTTAGTTATA-AAAATATACATAGGTA
9526905 TACAAAAATT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 1 0.02
44 60 0.98
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (43 bp):
AAATATTTAGTTATAAAAATATACATAGGTAGAAATAATAATA
Found at i:9533343 original size:28 final size:27
Alignment explanation
Indices: 9533295--9533443 Score: 145
Period size: 28 Copynumber: 5.1 Consensus size: 27
9533285 CTTTAATATG
*
9533295 TTTGTCTTAATTTAGACAAGAAAACATA
1 TTTGTCTCAATTTAGACAAGAAAA-ATA
*
9533323 TTTATCTCAATTTAGACAAGATAAAATATA
1 TTTGTCTCAATTTAGACAAG--AAAA-ATA
*
9533353 TTTGTCTTAATTTAAGACAAGAAAAATA
1 TTTGTCTCAATTT-AGACAAGAAAAATA
* * *
9533381 TTTTTTTGTCTCAATCTAGGCAAAAAAACATA
1 ----TTTGTCTCAATTTAGACAAGAAAA-ATA
9533413 TTTGTCTCAATTTAGACAAGATAAAATA
1 TTTGTCTCAATTTAGACAAGA-AAAATA
9533441 TTT
1 TTT
9533444 TTGTCTTAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
28 45 0.45
29 7 0.07
30 18 0.18
31 16 0.16
32 14 0.14
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (27 bp):
TTTGTCTCAATTTAGACAAGAAAAATA
Found at i:9533365 original size:30 final size:29
Alignment explanation
Indices: 9533289--9533464 Score: 176
Period size: 30 Copynumber: 5.9 Consensus size: 29
9533279 TGGCAGCTTT
* *
9533289 AATATGTTTGTCTTAATTTAGACAAG-AA
1 AATATATTTGTCTCAATTTAGACAAGAAA
* *
9533317 AACATATTTATCTCAATTTAGACAAGATAA
1 AATATATTTGTCTCAATTTAGACAAGA-AA
*
9533347 AATATATTTGTCTTAATTTAAGACAAGAAA
1 AATATATTTGTCTCAATTT-AGACAAGAAA
* * *
9533377 AATATTTTTTTGTCTCAATCTAGGCAA-AAA
1 AATA--TATTTGTCTCAATTTAGACAAGAAA
*
9533407 AACATATTTGTCTCAATTTAGACAAGATAA
1 AATATATTTGTCTCAATTTAGACAAGA-AA
* * *
9533437 AATATTTTTGTCTTAATTAAAGACAAGA
1 AATATATTTGTCTCAATT-TAGACAAGA
9533465 GTTGTCTTAA
Statistics
Matches: 121, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
28 40 0.33
29 1 0.01
30 47 0.39
31 21 0.17
32 12 0.10
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (29 bp):
AATATATTTGTCTCAATTTAGACAAGAAA
Found at i:9533447 original size:90 final size:90
Alignment explanation
Indices: 9533295--9533464 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 90
9533285 CTTTAATATG
* * *
9533295 TTTGTCTTAATTTAGACAAGAAAACATATTTATCTCAATTTAGACAAGATAAAATATATTTGTCT
1 TTTGTCTCAATCTAGACAAAAAAACATATTTATCTCAATTTAGACAAGATAAAATATATTTGTCT
*
9533360 TAATTTAAGACAAGAAAAATATTTT
66 TAATTAAAGACAAGAAAAATATTTT
* * *
9533385 TTTGTCTCAATCTAGGCAAAAAAACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTGTCT
1 TTTGTCTCAATCTAGACAAAAAAACATATTTATCTCAATTTAGACAAGATAAAATATATTTGTCT
9533450 TAATTAAAGACAAGA
66 TAATTAAAGACAAGA
9533465 GTTGTCTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (90 bp):
TTTGTCTCAATCTAGACAAAAAAACATATTTATCTCAATTTAGACAAGATAAAATATATTTGTCT
TAATTAAAGACAAGAAAAATATTTT
Found at i:9533713 original size:17 final size:17
Alignment explanation
Indices: 9533693--9533725 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9533683 ATAATAATAA
9533693 AATAA-GAGTTATTATTC
1 AATAAGGAG-TATTATTC
9533710 AATAAGGAGTATTATT
1 AATAAGGAGTATTATT
9533726 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (17 bp):
AATAAGGAGTATTATTC
Found at i:9546262 original size:28 final size:29
Alignment explanation
Indices: 9546221--9546280 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
9546211 GTCTATGGGC
*
9546221 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
9546249 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
9546279 AA
1 AA
9546281 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:9548974 original size:27 final size:26
Alignment explanation
Indices: 9548944--9548994 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
9548934 TTGGAACATA
* *
9548944 AGGGTAAAATGGTAATTTTGCCACCCT
1 AGGGCAAAATAGTAATTTT-CCACCCT
9548971 AGGGCAAAATAGTAATTTTCCACC
1 AGGGCAAAATAGTAATTTTCCACC
9548995 ACCAGAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (26 bp):
AGGGCAAAATAGTAATTTTCCACCCT
Found at i:9555719 original size:19 final size:20
Alignment explanation
Indices: 9555695--9555739 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
9555685 CTTCTAAGCC
*
9555695 TCAAATCATAGTCCAAT-AG
1 TCAAATCATACTCCAATAAG
9555714 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
9555734 TCAAAT
1 TCAAAT
9555740 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:9573735 original size:35 final size:35
Alignment explanation
Indices: 9573696--9573801 Score: 167
Period size: 35 Copynumber: 3.0 Consensus size: 35
9573686 AATGCATATT
* *
9573696 ATGATACTGAAATGTGCGAGTAAGGAGTGCACATG
1 ATGATATTGAAATGTGCGAGTAGGGAGTGCACATG
*
9573731 ATGATATTGAAATGTGCGAGTAGGGAGTGCACGTG
1 ATGATATTGAAATGTGCGAGTAGGGAGTGCACATG
* *
9573766 ATGATATTGAAATGTGCGTGTAGGGAGTGTACATG
1 ATGATATTGAAATGTGCGAGTAGGGAGTGCACATG
9573801 A
1 A
9573802 GCTAAGTGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.31, C:0.08, G:0.34, T:0.26
Consensus pattern (35 bp):
ATGATATTGAAATGTGCGAGTAGGGAGTGCACATG
Found at i:9575834 original size:2 final size:2
Alignment explanation
Indices: 9575827--9575867 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
9575817 TGTTATGTTG
* *
9575827 AT AT AT AT AT AT AT AT AT AT AT AT CT AA AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
9575868 GTATTGATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9575952 original size:2 final size:2
Alignment explanation
Indices: 9575945--9575987 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
9575935 TGTTATGTTG
* *
9575945 AT AT AT AT AT AT AT AT AT AT AT AT AT CT AA AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
9575988 GTATTGATAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9576023 original size:120 final size:116
Alignment explanation
Indices: 9575807--9576042 Score: 436
Period size: 120 Copynumber: 2.0 Consensus size: 116
9575797 TGATGAATCC
9575807 ATGTGCCCTGTGTTATGTTGATATATATATATATATATATATATCTAAATATATATGATATGTAT
1 ATGTGCCCTGTGTTATGTTGATATATATATATATATATATATATCTAAATATATATGATATGTAT
9575872 TGATAGTAATATTGTATGTAATTATAACCGAGCATGTGCACGATGTGGGTT
66 TGATAGTAATATTGTATGTAATTATAACCGAGCATGTGCACGATGTGGGTT
9575923 NATGTGCCCCTGTGTTATGTTGATATATATATATATATATATATATATCTAAATATATATGATAT
1 -ATGTG-CCCTGTGTTATGTTG--ATATATATATATATATATATATATCTAAATATATATGATAT
9575988 GTATTGATAGTAATATTGTATGTAATTATAACCGAGCATGTGCACGATGTGGGTT
62 GTATTGATAGTAATATTGTATGTAATTATAACCGAGCATGTGCACGATGTGGGTT
9576043 GTTTATTCAA
Statistics
Matches: 116, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
117 5 0.04
118 15 0.13
120 96 0.83
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (116 bp):
ATGTGCCCTGTGTTATGTTGATATATATATATATATATATATATCTAAATATATATGATATGTAT
TGATAGTAATATTGTATGTAATTATAACCGAGCATGTGCACGATGTGGGTT
Found at i:9580509 original size:19 final size:19
Alignment explanation
Indices: 9580482--9580519 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9580472 CCATTTGACT
9580482 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
9580501 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
9580520 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:9592428 original size:151 final size:151
Alignment explanation
Indices: 9592154--9592450 Score: 481
Period size: 151 Copynumber: 2.0 Consensus size: 151
9592144 TCCACGCTTC
**
9592154 CCCCCCCTTCACCCGGTAAAAGGTGCACTTCATTCTGGATCACGAAGCAACGGAGCAGTCCCTTC
1 CCCCCCCTTCACCCGACAAAAGGTGCACTTCATTCTGGATCACGAAGCAACGGAGCAGTCCCTTC
* *
9592219 CTTCCTCTTCCAAGCTCTTGGGAGGAGGGGTGGGAGATCACGGAGCATCCCCCCCTTCGTTACGG
66 CTTCCTCTTCCAAGCTCCTGGGAGGAGGGGTGGGAGATCACGGAGCATCCCCCCCTTCGCTACGG
*
9592284 AGGCAACAACGGCTTAAGCAT
131 AGGCAACAACGACTTAAGCAT
* *
9592305 CCCCCCCTTCACTCGACAAGAGGTGCACTTCACTT-TGGATCACGAAGCAACGGAGCAGTCCCTT
1 CCCCCCCTTCACCCGACAAAAGGTGCACTTCA-TTCTGGATCACGAAGCAACGGAGCAGTCCC-T
* *
9592369 TCC-TCCTCTTCCAAGCTCCTGGGCGGAGGGGTGGGAGATCACGGAGTATCCCCCCCTTCGCTAC
64 TCCTTCCTCTTCCAAGCTCCTGGGAGGAGGGGTGGGAGATCACGGAGCATCCCCCCCTTCGCTAC
9592433 GGAGGCAACAACGACTTA
129 GGAGGCAACAACGACTTA
9592451 TGTGCACTCC
Statistics
Matches: 135, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
151 129 0.96
152 6 0.04
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.20
Consensus pattern (151 bp):
CCCCCCCTTCACCCGACAAAAGGTGCACTTCATTCTGGATCACGAAGCAACGGAGCAGTCCCTTC
CTTCCTCTTCCAAGCTCCTGGGAGGAGGGGTGGGAGATCACGGAGCATCCCCCCCTTCGCTACGG
AGGCAACAACGACTTAAGCAT
Found at i:9609075 original size:13 final size:13
Alignment explanation
Indices: 9609037--9609077 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9609027 TTCCCATACC
9609037 AATAATAAT-AAT
1 AATAATAATAAAT
*
9609049 AATAATAATGAAT
1 AATAATAATAAAT
9609062 AA-AATAAATAAAT
1 AATAAT-AATAAAT
9609075 AAT
1 AAT
9609078 GAAAAAGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:9609548 original size:58 final size:58
Alignment explanation
Indices: 9609485--9609602 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
9609475 TTAAATCCCT
* * *
9609485 AACAAGCCTTAGTTGATATTCTTGTAATTAACGGAACATTCTTACGCATATATAAATC
1 AACAAGCCTTAGTTGAGATTCCTGTAATTAACGGAACATTCTTACACATATATAAATC
**
9609543 AACAAGCCTTAGTTGAGATTCCTGTAATTAATTGAACATTCTTACACATATATAAATC
1 AACAAGCCTTAGTTGAGATTCCTGTAATTAACGGAACATTCTTACACATATATAAATC
9609601 AA
1 AA
9609603 GTTGGATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (58 bp):
AACAAGCCTTAGTTGAGATTCCTGTAATTAACGGAACATTCTTACACATATATAAATC
Found at i:9625096 original size:36 final size:36
Alignment explanation
Indices: 9625048--9625133 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
9625038 TGTACAACCC
*
9625048 CACATCGTGCACAGCTAATGCCATCATGTGCTCCCA
1 CACATCGCGCACAGCTAATGCCATCATGTGCTCCCA
* ** *
9625084 CACATCGCGCACAGCTAATGCTATTGTGTGCTCCCC
1 CACATCGCGCACAGCTAATGCCATCATGTGCTCCCA
9625120 CACATCGCGCACAG
1 CACATCGCGCACAG
9625134 GCAATATCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (36 bp):
CACATCGCGCACAGCTAATGCCATCATGTGCTCCCA
Found at i:9629962 original size:2 final size:2
Alignment explanation
Indices: 9629957--9629984 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9629947 AGAGAAAATG
9629957 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9629985 TAAAATGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9636172 original size:2 final size:2
Alignment explanation
Indices: 9636165--9636198 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9636155 ATTGCATAAG
*
9636165 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9636199 AACACGCCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9638611 original size:14 final size:15
Alignment explanation
Indices: 9638592--9638620 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9638582 TCATAGATTG
9638592 CATTTCCTT-GATAT
1 CATTTCCTTGGATAT
9638606 CATTTCCTTGGATAT
1 CATTTCCTTGGATAT
9638621 TTCTCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (15 bp):
CATTTCCTTGGATAT
Found at i:9641793 original size:17 final size:16
Alignment explanation
Indices: 9641771--9641826 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
9641761 GAAAGAAAGG
9641771 AAGAAAGACAAAAAGCA
1 AAGAAA-ACAAAAAGCA
9641788 AAGAAAAC-AAAAG-A
1 AAGAAAACAAAAAGCA
9641802 AAG---ACAAAAAGCA
1 AAGAAAACAAAAAGCA
9641815 AAGAAAACAAAA
1 AAGAAAACAAAA
9641827 GAGAAGAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 4 0.12
14 4 0.12
15 5 0.15
16 8 0.24
17 6 0.18
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAAAACAAAAAGCA
Found at i:9641808 original size:27 final size:27
Alignment explanation
Indices: 9641771--9641833 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
9641761 GAAAGAAAGG
9641771 AAGAAAGACAAAAAGCAAAGAAAACAA
1 AAGAAAGACAAAAAGCAAAGAAAACAA
9641798 AAGAAAGACAAAAAGCAAAGAAAACAA
1 AAGAAAGACAAAAAGCAAAGAAAACAA
9641825 AAGAGAAGA
1 AAGA-AAGA
9641834 ATGTAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 31 0.89
28 4 0.11
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (27 bp):
AAGAAAGACAAAAAGCAAAGAAAACAA
Found at i:9642313 original size:23 final size:25
Alignment explanation
Indices: 9642274--9642319 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
9642264 TTTGTACAGG
9642274 AAAATTGGACAGCTTTG-TGCTGCC
1 AAAATTGGACAGCTTTGTTGCTGCC
9642298 AAAATTGAGA-AG-TTTGTTGCTG
1 AAAATTG-GACAGCTTTGTTGCTG
9642320 GAAATTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 14 0.70
25 2 0.10
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (25 bp):
AAAATTGGACAGCTTTGTTGCTGCC
Found at i:9642466 original size:19 final size:22
Alignment explanation
Indices: 9642416--9642462 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9642406 GAGAAGAAAA
9642416 GAAGAGAGGAAGCCACGATGGT
1 GAAGAGAGGAAGCCACGATGGT
*
9642438 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGCCACGATGGT
9642460 GAA
1 GAA
9642463 AGGAGTGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.43, T:0.09
Consensus pattern (22 bp):
GAAGAGAGGAAGCCACGATGGT
Found at i:9642531 original size:16 final size:17
Alignment explanation
Indices: 9642510--9642547 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9642500 CGTGGATGAG
9642510 AGAAAAAG-AAAGAAAA
1 AGAAAAAGAAAAGAAAA
*
9642526 AG-AAAAGAAAAGAAAT
1 AGAAAAAGAAAAGAAAA
9642542 AGAAAA
1 AGAAAA
9642548 TAAGTGGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 11 0.58
17 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAAAGAAAA
Found at i:9650920 original size:16 final size:17
Alignment explanation
Indices: 9650891--9650922 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9650881 CTCTCTTTTT
9650891 CTTTCTTCTTCTCCTTC
1 CTTTCTTCTTCTCCTTC
9650908 CTTTCTT-TTCTCCTT
1 CTTTCTTCTTCTCCTT
9650923 TCTTCCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
CTTTCTTCTTCTCCTTC
Found at i:9654055 original size:21 final size:22
Alignment explanation
Indices: 9654029--9654069 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9654019 ACCTAAGAGT
*
9654029 TTCTCGCTGCAGCGA-AAATGA
1 TTCTCGCTGCAACGAGAAATGA
*
9654050 TTCTCGTTGCAACGAGAAAT
1 TTCTCGCTGCAACGAGAAAT
9654070 ATGGCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (22 bp):
TTCTCGCTGCAACGAGAAATGA
Found at i:9654289 original size:23 final size:23
Alignment explanation
Indices: 9654262--9654344 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
9654252 TATATGTATA
* **
9654262 CCCATCATCATCATGTACACCAT
1 CCCATCAACATCATACACACCAT
9654285 CCCATCAACATCATACACACCAT
1 CCCATCAACATCATACACACCAT
9654308 CCCATCAACATCATACACACCAT
1 CCCATCAACATCATACACACCAT
* *
9654331 CACATCATCATCAT
1 CCCATCAACATCAT
9654345 CACCAGCTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.36, C:0.41, G:0.01, T:0.22
Consensus pattern (23 bp):
CCCATCAACATCATACACACCAT
Found at i:9654388 original size:43 final size:43
Alignment explanation
Indices: 9654341--9654463 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
9654331 CACATCATCA
* * * ** *
9654341 TCATCACCAGCTCATGCGCATTCCCTACTCGCACATGGCTGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* *
9654384 TCATCACCGGGTTATGCTCACTCCCTACTCGCACATAACCGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
9654427 TCATC-CTCGGCTTATGCGCACTCCCTACTCGCACATA
1 TCATCAC-CGGCTTATGCGCACTCCCTACTCGCACATA
9654464 GCCAAGTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.20, C:0.38, G:0.18, T:0.24
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:9670532 original size:21 final size:20
Alignment explanation
Indices: 9670493--9670532 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9670483 AAGTCAGTTA
*
9670493 TTTTAATTTTATGTTATTTC
1 TTTTAATTTTATATTATTTC
*
9670513 TTTTAATTTGTTTATTATTT
1 TTTTAATTT-TATATTATTT
9670533 ATTAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTTAATTTTATATTATTTC
Found at i:9671638 original size:14 final size:14
Alignment explanation
Indices: 9671619--9671645 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9671609 TTGGTTTTAA
9671619 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
9671633 TTTTAGTTAATTA
1 TTTTAGTTAATTA
9671646 ATAAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:9680447 original size:13 final size:13
Alignment explanation
Indices: 9680429--9680453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9680419 GGAGAAATTG
9680429 TGATTTTATAAAA
1 TGATTTTATAAAA
9680442 TGATTTTATAAA
1 TGATTTTATAAA
9680454 TTTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:9684153 original size:14 final size:14
Alignment explanation
Indices: 9684134--9684160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9684124 TTGGTTTTTA
9684134 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
9684148 TTTTAGTTAATTA
1 TTTTAGTTAATTA
9684161 ATAAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:9688240 original size:2 final size:2
Alignment explanation
Indices: 9688233--9688278 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9688223 AATCAACACG
9688233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9688275 TA TA
1 TA TA
9688279 GTTATGGGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9689013 original size:12 final size:12
Alignment explanation
Indices: 9688970--9689013 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
9688960 TGTTTTTTTC
*
9688970 TTCTTTC-TCAT
1 TTCTTTCTTCCT
9688981 TTCTTTCTTCCT
1 TTCTTTCTTCCT
*
9688993 TCCTTTCTTCCT
1 TTCTTTCTTCCT
*
9689005 TTCTCTCTT
1 TTCTTTCTT
9689014 TGCTTCCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTCTTCCT
Found at i:9689476 original size:16 final size:16
Alignment explanation
Indices: 9689449--9689489 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9689439 TTAAAATATT
9689449 ATAAAT-AATAAA-ACA
1 ATAAATGAATAAAGA-A
9689464 ATAAATGAATAAAGAA
1 ATAAATGAATAAAGAA
9689480 ATAAAATGAA
1 AT-AAATGAA
9689490 ATGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 9 0.39
17 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (16 bp):
ATAAATGAATAAAGAA
Found at i:9692739 original size:21 final size:21
Alignment explanation
Indices: 9692713--9692752 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9692703 ATTTGAACAT
9692713 ATTTCGATCACAATCATGCCG
1 ATTTCGATCACAATCATGCCG
9692734 ATTTCGATCACAATCATGC
1 ATTTCGATCACAATCATGC
9692753 TTACTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
ATTTCGATCACAATCATGCCG
Found at i:9700897 original size:42 final size:43
Alignment explanation
Indices: 9700837--9700947 Score: 147
Period size: 42 Copynumber: 2.6 Consensus size: 43
9700827 TTGACTCAGC
* * *
9700837 TATGTGCGTGTAGGGAGTGCGCATAAG-TCGAGGATGA-CCGGT
1 TATGTGCGAGTAGAGAGTGCGCATAAGCT-GAGAATGACCCGGT
9700879 TATGTGCGAGTAGAGAGTGCGCATAAGCTGAGAATGACCCGGT
1 TATGTGCGAGTAGAGAGTGCGCATAAGCTGAGAATGACCCGGT
*
9700922 TATGTGCGAGTA-AGGAGTGTGCATAA
1 TATGTGCGAGTAGA-GAGTGCGCATAA
9700948 CCTGGTGATG
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
42 33 0.53
43 29 0.47
ACGTcount: A:0.26, C:0.14, G:0.37, T:0.23
Consensus pattern (43 bp):
TATGTGCGAGTAGAGAGTGCGCATAAGCTGAGAATGACCCGGT
Found at i:9700940 original size:43 final size:43
Alignment explanation
Indices: 9700837--9700994 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
9700827 TTGACTCAGC
* *
9700837 TATGTGCGTGTAGGGAGTGCGCATAAG-TCGAGGATGA-CCGGT
1 TATGTGCGAGTAAGGAGTGCGCATAAGCT-GAGGATGACCCGGT
*
9700879 TATGTGCGAGT-AGAGAGTGCGCATAAGCTGAGAATGACCCGGT
1 TATGTGCGAGTAAG-GAGTGCGCATAAGCTGAGGATGACCCGGT
* * * *
9700922 TATGTGCGAGTAAGGAGTGTGCATAACCTG-GTGATGACCCAGC
1 TATGTGCGAGTAAGGAGTGCGCATAAGCTGAG-GATGACCCGGT
* * *
9700965 CATGTGCGAGTAAGGAATGCGCATGAGCTG
1 TATGTGCGAGTAAGGAGTGCGCATAAGCTG
9700995 GTGATGATGA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 31 0.32
43 64 0.65
44 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.36, T:0.22
Consensus pattern (43 bp):
TATGTGCGAGTAAGGAGTGCGCATAAGCTGAGGATGACCCGGT
Found at i:9708784 original size:43 final size:43
Alignment explanation
Indices: 9708678--9708915 Score: 311
Period size: 43 Copynumber: 5.6 Consensus size: 43
9708668 TTGACTCAGC
* *
9708678 TATGTGCGAGTAGGGAGTGCGCATAAGTCGAGGATGA-CCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGAT
*
9708720 TATGTGCGAGTAGGGAGTGCGCATAAGCCCAGGATGACCCGAT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGAT
* * * *
9708763 TATGTACGAGTAGGGATTGCGCATAAGCCGAGGATGACCTGGT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGAT
* *
9708806 TATGTGCAAGTAGGGAGTGCGCATAAGCGGAGGATGACCCGAT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGAT
* * *
9708849 TATGTGCAAGTAGGGAGTGCGCATAACCCG-GTGATGACCC-AGC
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGA-T
* *
9708892 CATGTGCGAGTAAGGAGTGCGCAT
1 TATGTGCGAGTAGGGAGTGCGCAT
9708916 GAGCTGGTGA
Statistics
Matches: 173, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 37 0.21
43 136 0.79
ACGTcount: A:0.26, C:0.18, G:0.36, T:0.20
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGAT
Found at i:9714260 original size:38 final size:40
Alignment explanation
Indices: 9714217--9714319 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
9714207 ATAGTGTCCG
* * *
9714217 TGTGCACGATGTGGGGGGATGTATACGATGGC-ACTGAT-
1 TGTGCACGATGTGGGGGGATGCACACGATGGCGACGGATA
* * *
9714255 TGTGCACGATGTGGGGTGATGCACACGATGGCGTCGGCTA
1 TGTGCACGATGTGGGGGGATGCACACGATGGCGACGGATA
9714295 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
9714320 TGAGCTAGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 29 0.52
39 3 0.05
40 24 0.43
ACGTcount: A:0.19, C:0.17, G:0.41, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACGATGGCGACGGATA
Found at i:9716185 original size:2 final size:2
Alignment explanation
Indices: 9716178--9716206 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9716168 CCTAGCCACG
9716178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9716207 CACAGGCCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9716724 original size:2 final size:2
Alignment explanation
Indices: 9716717--9716742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9716707 AACCAACATG
9716717 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9716743 GTTACAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9729972 original size:20 final size:20
Alignment explanation
Indices: 9729955--9729992 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9729945 CCTCAAATCT
9729955 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
9729975 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
9729993 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:9730889 original size:8 final size:8
Alignment explanation
Indices: 9730851--9730905 Score: 64
Period size: 8 Copynumber: 7.2 Consensus size: 8
9730841 TAGGTTGAAC
9730851 CTTCCTTGT
1 CTTCCTT-T
9730860 CTT--TTT
1 CTTCCTTT
9730866 CTT-CTTT
1 CTTCCTTT
9730873 C-TCCTTT
1 CTTCCTTT
*
9730880 CTTTCTTT
1 CTTCCTTT
9730888 CTTCCTTT
1 CTTCCTTT
9730896 CTTCCTTT
1 CTTCCTTT
9730904 CT
1 CT
9730906 CTCTTTACTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 5 0.12
7 11 0.27
8 22 0.54
9 3 0.07
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (8 bp):
CTTCCTTT
Found at i:9730911 original size:8 final size:7
Alignment explanation
Indices: 9730859--9730916 Score: 55
Period size: 8 Copynumber: 7.7 Consensus size: 7
9730849 ACCTTCCTTG
9730859 TCTT-TT
1 TCTTCTT
9730865 TCTTCTT
1 TCTTCTT
*
9730872 TCTCCTT
1 TCTTCTT
9730879 TCTTTCTT
1 TC-TTCTT
9730887 TCTTCCTT
1 TCTT-CTT
9730895 TCTTCCTT
1 TCTT-CTT
9730903 TCTCTCTT
1 TCT-TCTT
9730911 TACTTC
1 T-CTTC
9730917 CAAGCCGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
6 4 0.09
7 12 0.27
8 26 0.58
9 3 0.07
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (7 bp):
TCTTCTT
Found at i:9730911 original size:16 final size:15
Alignment explanation
Indices: 9730851--9730917 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 15
9730841 TAGGTTGAAC
9730851 CTTCCTTGTCTT-TTT
1 CTTCCTT-TCTTCTTT
*
9730866 CTT-CTTTCTCCTTT
1 CTTCCTTTCTTCTTT
*
9730880 CTTTCTTTCTTCCTTT
1 CTTCCTTTCTT-CTTT
9730896 CTTCCTTTCTCTCTTT
1 CTTCCTTTCT-TCTTT
9730912 ACTTCC
1 -CTTCC
9730918 AAGCCGATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.07
14 9 0.20
15 9 0.20
16 17 0.39
17 6 0.14
ACGTcount: A:0.01, C:0.34, G:0.01, T:0.63
Consensus pattern (15 bp):
CTTCCTTTCTTCTTT
Found at i:9734107 original size:15 final size:15
Alignment explanation
Indices: 9734082--9734124 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
9734072 GATCAGAGAT
9734082 TTTGG-TTTTAAAGC
1 TTTGGATTTTAAAGC
*
9734096 TTTGGATTTTAAAGT
1 TTTGGATTTTAAAGC
*
9734111 TTTCGATTTTAAAG
1 TTTGGATTTTAAAG
9734125 TTGTTTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.51
Consensus pattern (15 bp):
TTTGGATTTTAAAGC
Found at i:9734125 original size:15 final size:15
Alignment explanation
Indices: 9734087--9734126 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
9734077 GAGATTTTGG
* *
9734087 TTTTAAAGCTTTGGA
1 TTTTAAAGTTTTCGA
9734102 TTTTAAAGTTTTCGA
1 TTTTAAAGTTTTCGA
9734117 TTTTAAAGTT
1 TTTTAAAGTT
9734127 GTTTTAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (15 bp):
TTTTAAAGTTTTCGA
Found at i:9741777 original size:18 final size:18
Alignment explanation
Indices: 9741731--9741777 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
9741721 TTTATGAGAA
*
9741731 AAATATGAATTTATAAAAT
1 AAAT-TGAAATTATAAAAT
*
9741750 AAA-TGGAATTATAAAAT
1 AAATTGAAATTATAAAAT
9741767 AAATTGAAATT
1 AAATTGAAATT
9741778 TTTATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.62
18 6 0.25
19 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
AAATTGAAATTATAAAAT
Found at i:9744400 original size:15 final size:14
Alignment explanation
Indices: 9744376--9744421 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
9744366 TTAATTTGTA
9744376 TTATTATTTTTATT
1 TTATTATTTTTATT
9744390 TATATT-TTTTTATT
1 T-TATTATTTTTATT
9744404 TT-TTATTTTTATT
1 TTATTATTTTTATT
*
9744417 CTATT
1 TTATT
9744422 TGCTCATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.07
13 10 0.36
14 12 0.43
15 4 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTATTTTTATT
Found at i:9744401 original size:33 final size:32
Alignment explanation
Indices: 9744350--9744416 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
9744340 ACTTTGAATT
*
9744350 TTTTTATTTTCTTCTTTTAATTTGTATTATTA
1 TTTTTATTTTATTCTTTTAATTTGTATTATTA
* * * *
9744382 TTTTTATTTATATTTTTTTATTTTTTATTTTTA
1 TTTTTATTT-TATTCTTTTAATTTGTATTATTA
9744415 TT
1 TT
9744417 CTATTTGCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 9 0.31
33 20 0.69
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (32 bp):
TTTTTATTTTATTCTTTTAATTTGTATTATTA
Found at i:9744412 original size:13 final size:13
Alignment explanation
Indices: 9744349--9744416 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
9744339 AACTTTGAAT
9744349 TTTTTTATTTTCT-
1 TTTTTTATTTT-TA
* *
9744362 TCTTTTAATTTGTA
1 T-TTTTTATTTTTA
*
9744376 -TTATTATTTTTA
1 TTTTTTATTTTTA
9744388 TTTATATT-TTTTTA
1 TTT-T-TTATTTTTA
9744402 TTTTTTATTTTTA
1 TTTTTTATTTTTA
9744415 TT
1 TT
9744417 CTATTTGCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
12 11 0.26
13 13 0.30
14 17 0.40
15 2 0.05
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:9746429 original size:21 final size:21
Alignment explanation
Indices: 9746387--9746429 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9746377 GAACATCATG
*
9746387 AATAGCTTCAGCATCATCAGT
1 AATAGCTTCAGCATCAACAGT
* * *
9746408 AATAGTTTTAGCATCAAGAGT
1 AATAGCTTCAGCATCAACAGT
9746429 A
1 A
9746430 GCCTTAACTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (21 bp):
AATAGCTTCAGCATCAACAGT
Found at i:9746920 original size:35 final size:35
Alignment explanation
Indices: 9746853--9746921 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
9746843 GCGTAATCTT
*
9746853 TACAACATGCCTTTTACAAGATCAAGTGTAACCTC
1 TACAACATGCCTTTTACAAGATCAAGTATAACCTC
** *
9746888 TACAACATGGTTTTTGCAAGATCAA-TCATAACCT
1 TACAACATGCCTTTTACAAGATCAAGT-ATAACCT
9746922 TTATCAAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (35 bp):
TACAACATGCCTTTTACAAGATCAAGTATAACCTC
Found at i:9748549 original size:21 final size:21
Alignment explanation
Indices: 9748525--9748572 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
9748515 TTTTTAAAAT
9748525 ATTAAATACAAAAAATTTATA
1 ATTAAATACAAAAAATTTATA
* ***
9748546 ATTAATTTTTAAAAATTTATA
1 ATTAAATACAAAAAATTTATA
9748567 ATTAAA
1 ATTAAA
9748573 GTTTTAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTAAATACAAAAAATTTATA
Found at i:9748577 original size:22 final size:21
Alignment explanation
Indices: 9748535--9748579 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9748525 ATTAAATACA
*
9748535 AAAAATTTATAATTAATTTTT
1 AAAAATTTATAATTAAGTTTT
9748556 AAAAATTTATAATTAAAGTTTT
1 AAAAATTTATAATT-AAGTTTT
9748578 AA
1 AA
9748580 TTTAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AAAAATTTATAATTAAGTTTT
Found at i:9750057 original size:42 final size:42
Alignment explanation
Indices: 9750011--9750151 Score: 167
Period size: 42 Copynumber: 3.4 Consensus size: 42
9750001 CTTCCACTAG
*
9750011 CACATGGCTGGGTCAGCATCGGCTTATGCGCACTCCTACTCA
1 CACATAGCTGGGTCAGCATCGGCTTATGCGCACTCCTACTCA
* * * * **
9750053 CACATAGCCGGGTCAGCATCGGCTTATTCGCACTCCCATTTT
1 CACATAGCTGGGTCAGCATCGGCTTATGCGCACTCCTACTCA
* *
9750095 CACATAG-TCGGGTCAGCATCGGCTTATGCACACTCCTACTCG
1 CACATAGCT-GGGTCAGCATCGGCTTATGCGCACTCCTACTCA
**
9750137 CACATATTTGGGTCA
1 CACATAGCTGGGTCA
9750152 ATATCATTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 81 0.99
43 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (42 bp):
CACATAGCTGGGTCAGCATCGGCTTATGCGCACTCCTACTCA
Found at i:9755154 original size:379 final size:378
Alignment explanation
Indices: 9754455--9755210 Score: 1359
Period size: 379 Copynumber: 2.0 Consensus size: 378
9754445 TTAGTTTTTA
*
9754455 CTAATTTAGTTGATTTATGATTTATTTTCTTTATTTTATTTAGATTAGGATTCTTTTCTTATTTT
1 CTAATTTAGTTGATTTAGGATTTATTTTCTTTATTTTATTTAGATTAGGATTCTTTTCTTATTTT
9754520 TATTTTAATACTTTTAAGAATTAGTATTTAATTAGGATAGTCATGTTCTATTTAGGAATAGAACA
66 TATTTTAATACTTTTAAGAATTAGTATTTAATTAGGATAGTCATGTTCTATTTAGGAATAGAACA
*
9754585 CCTATTTTATTTAAATCTCTTATTAATTATTCTAATTGTATTAGATAACTAGGAGTAGAGTTTTA
131 CCTATTTTATTTAAATCTCTTATTAATTATTCTAATTGTATTAGATAACTAGAAGTAGAGTTTTA
*
9754650 TTAGGATTTGGGCCTATAATACTATAAATAGGACCCTTAGGCTTAGTTATGAGACATTCAGAATT
196 TTAGGATTTAGGCCTATAATACTATAAATAGGACCCTTAGGCTTAGTTATGAGACATTCAGAATT
* * *
9754715 GAGAGTTAATAAATAATATTTTCTTAAGCAGGAGTGCTTATTTCTCTAGGCTCTTTTAAAGAGTA
261 GAGAGTTAATAAATAATATTTTCTTAAGCAAGAGTACTTATTTCTCTAGACTCTTTTAAAGAGTA
* *
9754780 AGAGGTTTTAATATCTTTGGCCTAGCCAACCAAAGTGGGATTTTGGCTATTNTG
326 AGAGGTTTTAATATCTTTGGCCTAACCAACCAAAGTGGGATTTTGACTATT-TG
*
9754834 CTAATTTAGTTGATTTAGGATTTATTTTTTTTATTTTATTTAGATTAGGATTCTTTTCTTATTTT
1 CTAATTTAGTTGATTTAGGATTTATTTTCTTTATTTTATTTAGATTAGGATTCTTTTCTTATTTT
**
9754899 TATTTTAATACTTTTAAGAATTAGTATTTAATTAGGATAGTCATGTTCTATTTAGGAATAGAATG
66 TATTTTAATACTTTTAAGAATTAGTATTTAATTAGGATAGTCATGTTCTATTTAGGAATAGAACA
*
9754964 CCTATTTTATTTAAATCTCTTATTAATTATTCTAATTGTATTTGATAACTAGAAGTAGAGTTTTA
131 CCTATTTTATTTAAATCTCTTATTAATTATTCTAATTGTATTAGATAACTAGAAGTAGAGTTTTA
* *
9755029 TTAGGATTTAGGTCTATAATACTATAAATAGGACCCTTAGGCTTAGTTATGAGACATTCAGAGTT
196 TTAGGATTTAGGCCTATAATACTATAAATAGGACCCTTAGGCTTAGTTATGAGACATTCAGAATT
*
9755094 GAGAGTTAATAAATAATATTTTCTTAAGTAAGAGTACTTATTTCTCTAGACTCTTTTAAAGAGTA
261 GAGAGTTAATAAATAATATTTTCTTAAGCAAGAGTACTTATTTCTCTAGACTCTTTTAAAGAGTA
*
9755159 AGAGGTTTTAGTATCTTTGGCCTAACCAACCAAAGTGGGATTTTGACTATTT
326 AGAGGTTTTAATATCTTTGGCCTAACCAACCAAAGTGGGATTTTGACTATTT
9755211 TTCACCTTAG
Statistics
Matches: 361, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
378 1 0.00
379 360 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (378 bp):
CTAATTTAGTTGATTTAGGATTTATTTTCTTTATTTTATTTAGATTAGGATTCTTTTCTTATTTT
TATTTTAATACTTTTAAGAATTAGTATTTAATTAGGATAGTCATGTTCTATTTAGGAATAGAACA
CCTATTTTATTTAAATCTCTTATTAATTATTCTAATTGTATTAGATAACTAGAAGTAGAGTTTTA
TTAGGATTTAGGCCTATAATACTATAAATAGGACCCTTAGGCTTAGTTATGAGACATTCAGAATT
GAGAGTTAATAAATAATATTTTCTTAAGCAAGAGTACTTATTTCTCTAGACTCTTTTAAAGAGTA
AGAGGTTTTAATATCTTTGGCCTAACCAACCAAAGTGGGATTTTGACTATTTG
Found at i:9755270 original size:40 final size:40
Alignment explanation
Indices: 9755211--9755289 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
9755201 TTGACTATTT
* *
9755211 TTCACCTTAGTGGGGTTTTCACCCTTGCCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
* *
9755251 TTCACCTTAGTGGGTTTTTCAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTG
9755290 TTTTTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.35
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:9757524 original size:24 final size:24
Alignment explanation
Indices: 9757497--9757547 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
9757487 TTTTTACTAA
*
9757497 TTTAGTTGATTTATGATTA-TTTTC
1 TTTAGTTGATTTA-GATTAGTATTC
* *
9757521 TTTATTTTATTTAGATTAGTATTC
1 TTTAGTTGATTTAGATTAGTATTC
9757545 TTT
1 TTT
9757548 TCTTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.65
Consensus pattern (24 bp):
TTTAGTTGATTTAGATTAGTATTC
Found at i:9757988 original size:40 final size:40
Alignment explanation
Indices: 9757933--9758011 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
9757923 TTGGCTATTT
*
9757933 TTCACCTTAGTGGGGTTTTCAACCTTGCAAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCAAAGATTGGTGA
* * *
9757973 TTCACCTTAGTGGGGTTTTTAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCAAAGATTGGTG
9758012 TTTTTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCAAAGATTGGTGA
Found at i:9760072 original size:17 final size:17
Alignment explanation
Indices: 9760052--9760103 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
9760042 CAATCAAAAA
9760052 TATT-ATTTAATCAAGGT
1 TATTAATTT-ATCAAGGT
9760069 TATTAATTTATCAA-G-
1 TATTAATTTATCAAGGT
*
9760084 TATTAATTTATAAAGGT
1 TATTAATTTATCAAGGT
9760101 TAT
1 TAT
9760104 ACTGTATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 13 0.42
16 2 0.06
17 12 0.39
18 4 0.13
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (17 bp):
TATTAATTTATCAAGGT
Found at i:9760901 original size:29 final size:28
Alignment explanation
Indices: 9760869--9760937 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
9760859 CTTTTTCTTG
** *
9760869 TGTACCTATTCATTTACAGCTTCTTCTCT
1 TGTACCT-TTCAAGTACAGCTTCTTATCT
*
9760898 TGTACTTGTTCAAGTACAGCTTCTTATCT
1 TGTACCT-TTCAAGTACAGCTTCTTATCT
9760927 TGTACCTTTCA
1 TGTACCTTTCA
9760938 CGTGTACCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.19, C:0.25, G:0.10, T:0.46
Consensus pattern (28 bp):
TGTACCTTTCAAGTACAGCTTCTTATCT
Found at i:9764579 original size:36 final size:36
Alignment explanation
Indices: 9764499--9764572 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
9764489 ACCATTGCAC
* *
9764499 CCCCACATCGAGCACAATTAATGCCATCGTGTGGTT
1 CCCCACATCGAGCACAACTAATGCCATCGTGTGCTT
* * *
9764535 CCCCACATCGTGCACAGCTAATGCCATTGTGTGCTT
1 CCCCACATCGAGCACAACTAATGCCATCGTGTGCTT
9764571 CC
1 CC
9764573 TTACATCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.26
Consensus pattern (36 bp):
CCCCACATCGAGCACAACTAATGCCATCGTGTGCTT
Found at i:9767418 original size:29 final size:29
Alignment explanation
Indices: 9767340--9767420 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
9767330 AAAAGGTAAT
*
9767340 AGAGAA-AGAGGTGTACGTGAACAAGTACA
1 AGAGAATA-AGGTGTATGTGAACAAGTACA
* * * *
9767369 AGAGAATAAGCTGT-TCATGAATAGGTACA
1 AGAGAATAAGGTGTAT-GTGAACAAGTACA
9767398 AGAGAATAAGGTGTATGTGAACA
1 AGAGAATAAGGTGTATGTGAACA
9767421 GATATACGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
29 39 0.95
30 2 0.05
ACGTcount: A:0.43, C:0.09, G:0.28, T:0.20
Consensus pattern (29 bp):
AGAGAATAAGGTGTATGTGAACAAGTACA
Found at i:9767891 original size:12 final size:12
Alignment explanation
Indices: 9767856--9767893 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9767846 GTTTTATTGC
9767856 TTTATTTGCTC-
1 TTTATTTGCTCA
**
9767867 TTTATTTATTCA
1 TTTATTTGCTCA
9767879 TTTATTTGCTCA
1 TTTATTTGCTCA
9767891 TTT
1 TTT
9767894 TGTTGCCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.16, C:0.13, G:0.05, T:0.66
Consensus pattern (12 bp):
TTTATTTGCTCA
Found at i:9769994 original size:21 final size:23
Alignment explanation
Indices: 9769948--9769995 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
9769938 GTTGGAGCTT
9769948 AAGGAAGAAGAAGAAGAAGACCGA
1 AAGGAAGAAGAAGAAGAAGA-CGA
9769972 AAGGAAGTAA-AAGAA-AAGA-GA
1 AAGGAAG-AAGAAGAAGAAGACGA
9769993 AAG
1 AAG
9769996 AGCATCACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.22
23 4 0.17
24 12 0.52
25 2 0.09
ACGTcount: A:0.62, C:0.04, G:0.31, T:0.02
Consensus pattern (23 bp):
AAGGAAGAAGAAGAAGAAGACGA
Found at i:9780840 original size:38 final size:39
Alignment explanation
Indices: 9780798--9780900 Score: 104
Period size: 38 Copynumber: 2.6 Consensus size: 39
9780788 ATAGTGCCCG
*
9780798 TGTGCACGATGTGGAGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGG-GGGATGTACACGATGGTGC-CGGATA
* * * *
9780836 TGTGCACAATGTGGGGGGATGCACATGATGGTGCCGGCTA
1 TGTGCACGATGT-GGGGGATGTACACGATGGTGCCGGATA
9780876 TGTGCACGATGTGGGGGCATGTACA
1 TGTGCACGATGTGGGGG-ATGTACA
9780901 TGAGTCGAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
38 23 0.43
39 11 0.21
40 19 0.36
ACGTcount: A:0.21, C:0.17, G:0.39, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGATGTACACGATGGTGCCGGATA
Found at i:9780888 original size:40 final size:38
Alignment explanation
Indices: 9780798--9780903 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 38
9780788 ATAGTGCCCG
* * *
9780798 TGTGCACGATGTGGAGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACGGAT
* * *
9780836 TGTGCACAATGTGGGGGGATGCACATGATGGTGC-CGGCT
1 TGTGCACGATGTGGGGGGATGTACATGAT-G-GCACGGAT
*
9780875 ATGTGCACGATGTGGGGGCATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
9780904 GTCGAGTGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 25 0.45
39 4 0.07
40 27 0.48
ACGTcount: A:0.22, C:0.16, G:0.39, T:0.24
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACGGAT
Found at i:9793650 original size:52 final size:52
Alignment explanation
Indices: 9793594--9793730 Score: 202
Period size: 52 Copynumber: 2.6 Consensus size: 52
9793584 TGTGTTGTGT
*
9793594 GAGTGCACACACTGATGATATATGCCATATGTGTGATAGTGCCGTGCTATGC
1 GAGTGCACACACTGATGATATATGCCATATGCGTGATAGTGCCGTGCTATGC
* ** *
9793646 GAGTGCACACACTGATGATATATGCCATGTGCGTGATAGTGGTGTGCTATGT
1 GAGTGCACACACTGATGATATATGCCATATGCGTGATAGTGCCGTGCTATGC
* * *
9793698 GAGTACACACATTGATGATATATGCCATGTGCG
1 GAGTGCACACACTGATGATATATGCCATATGCG
9793731 ATGTGGGAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (52 bp):
GAGTGCACACACTGATGATATATGCCATATGCGTGATAGTGCCGTGCTATGC
Found at i:9793771 original size:35 final size:36
Alignment explanation
Indices: 9793705--9793817 Score: 115
Period size: 35 Copynumber: 3.1 Consensus size: 36
9793695 TGTGAGTACA
* *
9793705 CACATTGATGATATATGCCATGTGCGATGTGGGAGTG
1 CACA-TGATGATATATGCCTTGTGCGGTGTGGGAGTG
*
9793742 CACATGATGATAT-TGCCTTGTGCGGTGTGGGAATG
1 CACATGATGATATATGCCTTGTGCGGTGTGGGAGTG
* * * *
9793777 CACAGGATGAT-TCTAG-CTATGTGTGGTGTGGAAGTG
1 CACATGATGATATAT-GCCT-TGTGCGGTGTGGGAGTG
9793813 CACAT
1 CACAT
9793818 AAGCTGGTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.02
35 32 0.49
36 28 0.43
37 4 0.06
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (36 bp):
CACATGATGATATATGCCTTGTGCGGTGTGGGAGTG
Found at i:9799153 original size:28 final size:29
Alignment explanation
Indices: 9799112--9799168 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
9799102 TATTTTTAAA
* *
9799112 AAATTTGAATAAATTTTTAT-TTTTTATT
1 AAATTTGAATAAATTCTTATCCTTTTATT
9799140 AAATTT-AATAAAATTCTTATCCTTTTATT
1 AAATTTGAAT-AAATTCTTATCCTTTTATT
9799169 TTAGACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 15 0.60
29 7 0.28
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (29 bp):
AAATTTGAATAAATTCTTATCCTTTTATT
Found at i:9799566 original size:9 final size:10
Alignment explanation
Indices: 9799539--9799567 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9799529 GCTTTATTCA
9799539 TTAAATAATT
1 TTAAATAATT
9799549 TTAAATAATT
1 TTAAATAATT
9799559 TT-AATAATT
1 TTAAATAATT
9799568 AGAATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTAAATAATT
Found at i:9802164 original size:26 final size:26
Alignment explanation
Indices: 9802113--9802175 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
9802103 GATTTCTAAT
** *
9802113 GAAATTTTTCATTGGAATTTATCAAC
1 GAAATTTTTTGTTGGAATTTAGCAAC
9802139 GAAATTTTTTGTTGGAAGTTT-GCAAC
1 GAAATTTTTTGTTGGAA-TTTAGCAAC
*
9802165 G-GATTTTTTGT
1 GAAATTTTTTGT
9802176 AGAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 9 0.28
26 20 0.62
27 3 0.09
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (26 bp):
GAAATTTTTTGTTGGAATTTAGCAAC
Found at i:9821640 original size:24 final size:24
Alignment explanation
Indices: 9821612--9821662 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
9821602 AGTTGCTACC
9821612 TTGGTTGATTTGAATTTCTACCGA
1 TTGGTTGATTTGAATTTCTACCGA
9821636 TTGGTTGATTTGAATTTCTACCGA
1 TTGGTTGATTTGAATTTCTACCGA
9821660 TTG
1 TTG
9821663 CTTCAGCACT
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:0.20, C:0.12, G:0.22, T:0.47
Consensus pattern (24 bp):
TTGGTTGATTTGAATTTCTACCGA
Found at i:9835790 original size:20 final size:19
Alignment explanation
Indices: 9835765--9835804 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
9835755 CGCGATTTCC
9835765 CCTTTGAATTTTCTACTTTT
1 CCTTTGAATTTTCT-CTTTT
**
9835785 CCTTTGGTTTTTCTCTTTT
1 CCTTTGAATTTTCTCTTTT
9835804 C
1 C
9835805 TTCCTTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.62
Consensus pattern (19 bp):
CCTTTGAATTTTCTCTTTT
Found at i:9842440 original size:27 final size:27
Alignment explanation
Indices: 9842377--9842552 Score: 146
Period size: 27 Copynumber: 6.5 Consensus size: 27
9842367 TTATGGTGGG
* **
9842377 TAAATGTATCCAT-ATACTTTTGATAAT
1 TAAATGTATCCATCA-ACTTTCGATGGT
*
9842404 TAAATTTATCCATCAACTTTCGATGGT
1 TAAATGTATCCATCAACTTTCGATGGT
* * *
9842431 TCAATGTATCCATCCA-TTTCTAGTGGT
1 TAAATGTATCCATCAACTTTCGA-TGGT
* *
9842458 TAAATGTATCTATTC-A-TTTCCAGTGGT
1 TAAATGTATCCA-TCAACTTTCGA-TGGT
* *
9842485 TAAATGTATCGAT-ACACTTTCGGTGGT
1 TAAATGTATCCATCA-ACTTTCGATGGT
* * *
9842512 TAAATGTATCCATCCACTTTCGGTGAT
1 TAAATGTATCCATCAACTTTCGATGGT
9842539 TAAATGTATCCATC
1 TAAATGTATCCATC
9842553 TATTTTGGAT
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.05
27 112 0.90
28 7 0.06
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (27 bp):
TAAATGTATCCATCAACTTTCGATGGT
Found at i:9842466 original size:81 final size:82
Alignment explanation
Indices: 9842361--9842559 Score: 203
Period size: 81 Copynumber: 2.5 Consensus size: 82
9842351 TTCACTTTTT
* * *
9842361 ATCCATTTATGGTGGGTAAATGTATCCATATACTTTTGA-TAATTAAATTTATCCAT-CAACTTT
1 ATCCATTTCTGGTGGTTAAATGTATCCATATACTTTTGAGTAATTAAATGTATCCATAC-ACTTT
*
9842424 CGATGGTTCAATGTATCC
65 CGATGGTTAAATGTATCC
* * ** ** *
9842442 ATCCATTTCTAGTGGTTAAATGTAT-C-TATTCATTTCCAGTGGTTAAATGTATCGATACACTTT
1 ATCCATTTCTGGTGGTTAAATGTATCCATATAC-TTTTGAGTAATTAAATGTATCCATACACTTT
*
9842505 CGGTGGTTAAATGTATCC
65 CGATGGTTAAATGTATCC
* *
9842523 ATCCACTTTC-GGTGATTAAATGTATCCATCTA-TTTTG
1 ATCCA-TTTCTGGTGGTTAAATGTATCCATATACTTTTG
9842560 GATGATATTC
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
79 4 0.04
80 5 0.05
81 77 0.82
82 6 0.06
83 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (82 bp):
ATCCATTTCTGGTGGTTAAATGTATCCATATACTTTTGAGTAATTAAATGTATCCATACACTTTC
GATGGTTAAATGTATCC
Found at i:9844820 original size:20 final size:20
Alignment explanation
Indices: 9844775--9844812 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9844765 TTTTGGCCCC
9844775 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
9844795 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
9844813 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:9852479 original size:13 final size:13
Alignment explanation
Indices: 9852461--9852485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9852451 ATTTTCAAAA
9852461 ATTTTATAAAATT
1 ATTTTATAAAATT
9852474 ATTTTATAAAAT
1 ATTTTATAAAAT
9852486 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:9856361 original size:15 final size:16
Alignment explanation
Indices: 9856341--9856374 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9856331 AATAAGCTTG
*
9856341 ATTGTAACT-TAATTC
1 ATTGTAACTGAAATTC
9856356 ATTGTAACTGAAATTC
1 ATTGTAACTGAAATTC
9856372 ATT
1 ATT
9856375 CCGATTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (16 bp):
ATTGTAACTGAAATTC
Found at i:9857719 original size:55 final size:55
Alignment explanation
Indices: 9857635--9857781 Score: 233
Period size: 55 Copynumber: 2.7 Consensus size: 55
9857625 GGCTTATTAG
* *
9857635 CTCATGTGCACTCCCACACCGCATATAGCTGGAATCATCATCCACCGGTCATCAA
1 CTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCATCCACCGGTCATCAA
*
9857690 CTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCATCCACCGGTCATCAG
1 CTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCATCCACCGGTCATCAA
* *
9857745 CTCATGTGCACTCCCACA-TCGTACATAGTTGGAATCA
1 CTCATGTGCACTCCCACACT-GCACATAGCTGGAATCA
9857782 CCCGTCATCA
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
54 1 0.01
55 85 0.99
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.23
Consensus pattern (55 bp):
CTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCATCCACCGGTCATCAA
Found at i:9858935 original size:18 final size:18
Alignment explanation
Indices: 9858914--9858957 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
9858904 ACATTTAAAC
9858914 ATAAATTAAACTAAAAA-A
1 ATAAATTAAA-TAAAAATA
*
9858932 ATAAAATAAATAAAAATA
1 ATAAATTAAATAAAAATA
9858950 ATTAAATT
1 A-TAAATT
9858958 TGATCCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAATTAAATAAAAATA
Found at i:9866807 original size:31 final size:31
Alignment explanation
Indices: 9866769--9866830 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
9866759 TAATCAACTA
9866769 AGAAGAATGGTTAGCCAGCTAAAAAGCTCAC
1 AGAAGAATGGTTAGCCAGCTAAAAAGCTCAC
9866800 AGAAGAATGGTTAGCCAGCTAAAAAGCTCAC
1 AGAAGAATGGTTAGCCAGCTAAAAAGCTCAC
9866831 TGTTTGAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (31 bp):
AGAAGAATGGTTAGCCAGCTAAAAAGCTCAC
Found at i:9867802 original size:22 final size:21
Alignment explanation
Indices: 9867742--9867805 Score: 66
Period size: 17 Copynumber: 3.2 Consensus size: 21
9867732 GAATATATCA
*
9867742 ATTTCATTTTAGTTTCATTTT
1 ATTTCATTTTATTTTCATTTT
9867763 ATTT--TTATT-TTTT-A-TTT
1 ATTTCATT-TTATTTTCATTTT
9867780 ATTTCATTTTCATTTTCATTTT
1 ATTTCATTTT-ATTTTCATTTT
9867802 ATTT
1 ATTT
9867806 TACATTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
17 7 0.20
18 3 0.09
19 7 0.20
20 6 0.17
21 5 0.14
22 7 0.20
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTTCATTTTATTTTCATTTT
Found at i:9867806 original size:11 final size:11
Alignment explanation
Indices: 9867743--9867807 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
9867733 AATATATCAA
*
9867743 TTTCATTTTAG
1 TTTCATTTTAT
9867754 TTTCATTTTAT
1 TTTCATTTTAT
*
9867765 TTTTATTTT-T
1 TTTCATTTTAT
* *
9867775 TATTTATTTCAT
1 T-TTCATTTTAT
9867787 TTTCATTTTCAT
1 TTTCATTTT-AT
9867799 TTT-ATTTTA
1 TTTCATTTTA
9867808 CATTATTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.07
11 36 0.78
12 7 0.15
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTCATTTTAT
Found at i:9873724 original size:34 final size:34
Alignment explanation
Indices: 9873677--9873792 Score: 117
Period size: 34 Copynumber: 3.4 Consensus size: 34
9873667 GGGCGATTTT
* *
9873677 GCTGCCAAGTTTTGAGGGAGAAAGGAGTAGCTTG
1 GCTGCTAATTTTTGAGGGAGAAAGGAGTAGCTTG
* * * *
9873711 GCTGCTGATTTTTGAGGCATAACA-GAGTAGCTTTT
1 GCTGCTAATTTTTGAGGGAGAA-AGGAGTAGC-TTG
* * * *
9873746 GCTACCAAGTTTTGAGGGAGAAAGAAGTAGCTTG
1 GCTGCTAATTTTTGAGGGAGAAAGGAGTAGCTTG
9873780 GCTGCTAATTTTT
1 GCTGCTAATTTTT
9873793 TTAGGAAGAA
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
34 37 0.60
35 25 0.40
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (34 bp):
GCTGCTAATTTTTGAGGGAGAAAGGAGTAGCTTG
Found at i:9873756 original size:69 final size:70
Alignment explanation
Indices: 9873673--9873842 Score: 227
Period size: 69 Copynumber: 2.4 Consensus size: 70
9873663 AGGGGGGCGA
* * *
9873673 TTTTGCTGCCAAGTTTTGAGGGAGAAAGGAGTAGCTTGGCTGCTGA-TTTTTGAGGCATAACAGA
1 TTTTGCTGCCAAGTTTTGAGGGAGAAAGGAGTAGCTTGGCTGCTAATTTTTTGAGGAAGAACA-A
*
9873737 GT-AGC
65 ATCAGC
* * *
9873742 TTTTGCTACCAAGTTTTGAGGGAGAAAGAAGTAGCTTGGCTGCTAATTTTTTTAGGAAGAACAAA
1 TTTTGCTGCCAAGTTTTGAGGGAGAAAGGAGTAGCTTGGCTGCTAATTTTTTGAGGAAGAACAAA
9873807 TCAGC
66 TCAGC
* * *
9873812 TTTGGCTGCCAAGTTTTGAGGGTGAGAGGAG
1 TTTTGCTGCCAAGTTTTGAGGGAGAAAGGAG
9873843 CAACTTTAGT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 45 0.52
70 42 0.48
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.31
Consensus pattern (70 bp):
TTTTGCTGCCAAGTTTTGAGGGAGAAAGGAGTAGCTTGGCTGCTAATTTTTTGAGGAAGAACAAA
TCAGC
Found at i:9873775 original size:35 final size:34
Alignment explanation
Indices: 9873673--9873833 Score: 121
Period size: 35 Copynumber: 4.6 Consensus size: 34
9873663 AGGGGGGCGA
9873673 TTTTGCTGCCAAGTTTTGAGGGAGAAAGGAGTAGC
1 TTTTGCTGCCAAGTTTTGAGGGAGAAA-GAGTAGC
* ** * * *
9873708 -TTGGCTGCTGATTTTTGAGGCATAACAGAGTAGC
1 TTTTGCTGCCAAGTTTTGAGGGAGAA-AGAGTAGC
*
9873742 TTTTGCTACCAAGTTTTGAGGGAGAAAGAAGTAGC
1 TTTTGCTGCCAAGTTTTGAGGGAGAAAG-AGTAGC
* * * * * *
9873777 -TTGGCTGCTAATTTTTTTAGGAAGAACA-AATCAGC
1 TTTTGCTGCCAA-GTTTTGAGGGAGAA-AGAGT-AGC
*
9873812 TTTGGCTGCCAAGTTTTGAGGG
1 TTTTGCTGCCAAGTTTTGAGGG
9873834 TGAGAGGAGC
Statistics
Matches: 95, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
34 38 0.40
35 46 0.48
36 11 0.12
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (34 bp):
TTTTGCTGCCAAGTTTTGAGGGAGAAAGAGTAGC
Found at i:9874212 original size:25 final size:25
Alignment explanation
Indices: 9874182--9874248 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
9874172 AAAATATGAG
*
9874182 TGGGCATAGCCCAATAAGAAAAGAA
1 TGGGCATAGCCTAATAAGAAAAGAA
* *
9874207 TTGGCATAACCTAATAAGAAAAGAA
1 TGGGCATAGCCTAATAAGAAAAGAA
*
9874232 TGGGCATGGCCTAATAA
1 TGGGCATAGCCTAATAA
9874249 AAAGAAATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (25 bp):
TGGGCATAGCCTAATAAGAAAAGAA
Found at i:9875549 original size:23 final size:23
Alignment explanation
Indices: 9875519--9875578 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
9875509 GTGCGCANTG
* * *
9875519 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
9875542 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
9875565 ATGATAATGATGGG
1 ATGATGATGATGGG
9875579 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:9880937 original size:2 final size:2
Alignment explanation
Indices: 9880930--9880957 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9880920 TGCAACAAGG
9880930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9880958 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9883423 original size:69 final size:70
Alignment explanation
Indices: 9883346--9883501 Score: 181
Period size: 69 Copynumber: 2.2 Consensus size: 70
9883336 AGGGGGGTGA
* * * * *
9883346 TTTTGCTACCAAGTTTTAAG-GAAGAAAGAAGTAGCTTGGCTACTGA-TTTTTGAGGCATAACAG
1 TTTTGCTACCAAGTTTTAAGAG-AGAAAGAAGCAGCTTGGCTACTAATTTTTTGAGGAAGAACAA
9883409 AGCAGC
65 AGCAGC
* * * **
9883415 TTTTGCTACCAAGTTTTGAGAGAGAAAGGAGCAGCTTGGCTGCTAATTTTTTTTGGAAGAACAAA
1 TTTTGCTACCAAGTTTTAAGAGAGAAAGAAGCAGCTTGGCTACTAATTTTTTGAGGAAGAACAAA
9883480 GCAGC
66 GCAGC
* *
9883485 TTTGGTTACCAAGTTTT
1 TTTTGCTACCAAGTTTT
9883502 GAGGGTGAGA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
69 39 0.53
70 34 0.47
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (70 bp):
TTTTGCTACCAAGTTTTAAGAGAGAAAGAAGCAGCTTGGCTACTAATTTTTTGAGGAAGAACAAA
GCAGC
Found at i:9883500 original size:70 final size:69
Alignment explanation
Indices: 9883350--9883535 Score: 194
Period size: 70 Copynumber: 2.7 Consensus size: 69
9883340 GGGTGATTTT
* * * * * * *
9883350 GCTACCAAGTTTTAAGGAAGAAAGAAGTAGCTTGGCTACTGA-TTTTTGAGGCATAACAGAGCAG
1 GCTACCAAGTTTTGAGG-AGAAAGGAGCAGCTTGGCTGCTGATTTTTTGAGGAAGAACAAAGCAG
*
9883414 CTTTT
65 CTTTG
* **
9883419 GCTACCAAGTTTTGAGAGAGAAAGGAGCAGCTTGGCTGCTAATTTTTTTTGGAAGAACAAAGCAG
1 GCTACCAAGTTTTGAG-GAGAAAGGAGCAGCTTGGCTGCTGATTTTTTGAGGAAGAACAAAGCAG
9883484 CTTTG
65 CTTTG
* * * *
9883489 GTTACCAAGTTTTGAGGGTGAGAGGAGCAGCTTTAGCTGCTGATTTT
1 GCTACCAAGTTTTGA-GGAGAAAGGAGCAGC-TTGGCTGCTGATTTT
9883536 GATGGCTGAA
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
69 35 0.36
70 48 0.49
71 14 0.14
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (69 bp):
GCTACCAAGTTTTGAGGAGAAAGGAGCAGCTTGGCTGCTGATTTTTTGAGGAAGAACAAAGCAGC
TTTG
Found at i:9883550 original size:35 final size:34
Alignment explanation
Indices: 9883498--9883571 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
9883488 GGTTACCAAG
* * *
9883498 TTTTGAGGGTGAGAGGAGCAGCTTTAGCTGCTGA
1 TTTTGAGGCTGAAAGGAGCAACTTTAGCTGCTGA
* *
9883532 TTTTGATGGCTGAAAGGAGCAACTTTGGTTGCTGA
1 TTTTGA-GGCTGAAAGGAGCAACTTTAGCTGCTGA
9883567 TTTTG
1 TTTTG
9883572 GAGGTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 6 0.18
35 28 0.82
ACGTcount: A:0.20, C:0.11, G:0.34, T:0.35
Consensus pattern (34 bp):
TTTTGAGGCTGAAAGGAGCAACTTTAGCTGCTGA
Found at i:9888765 original size:67 final size:67
Alignment explanation
Indices: 9888671--9888806 Score: 186
Period size: 67 Copynumber: 2.0 Consensus size: 67
9888661 GAAAAGTTAG
*
9888671 TTTTGGGTTTTGGTTAATCTCGGGAAAAACCATTGTTAAAGGTTAG-GGCTGAGCCTATGAAAAG
1 TTTTGGGTTTTGGTTAATCTCGGGAAAAACCATTGTTAAAGGTT-GTGGCTAAGCCTATGAAAAG
9888735 CCA
65 CCA
** * * *
9888738 TTTTGGGTTTTGGTTGTTC-CTGTGAAAAACCATTGTTAAAGGTTGTGGCTAAGCTTGTGAAAAG
1 TTTTGGGTTTTGGTTAATCTC-GGGAAAAACCATTGTTAAAGGTTGTGGCTAAGCCTATGAAAAG
9888802 CCA
65 CCA
9888805 TT
1 TT
9888807 GTAAAACCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
66 2 0.03
67 59 0.97
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (67 bp):
TTTTGGGTTTTGGTTAATCTCGGGAAAAACCATTGTTAAAGGTTGTGGCTAAGCCTATGAAAAGC
CA
Found at i:9897382 original size:11 final size:10
Alignment explanation
Indices: 9897370--9897443 Score: 71
Period size: 10 Copynumber: 7.2 Consensus size: 10
9897360 TTCCTTTCTC
9897370 TTTTTTC-TT
1 TTTTTTCTTT
* *
9897379 TCTTTTCTCT
1 TTTTTTCTTT
9897389 TTTTTTCTTT
1 TTTTTTCTTT
*
9897399 TTTTTT-TAT
1 TTTTTTCTTT
9897408 TTTTTTCTTCT
1 TTTTTTCTT-T
9897419 CTTTTTTCTCTT
1 -TTTTTTCT-TT
9897431 ATTTTTTCTTT
1 -TTTTTTCTTT
9897442 TT
1 TT
9897444 CCCAACTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
9 14 0.26
10 18 0.34
11 3 0.06
12 17 0.32
13 1 0.02
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:9897393 original size:19 final size:19
Alignment explanation
Indices: 9897349--9897442 Score: 84
Period size: 19 Copynumber: 4.8 Consensus size: 19
9897339 CTTTGTTTAT
*
9897349 TTTTTTTCCTCTTCCTTTCTC
1 TTTTTTT-CT-TTCTTTTCTC
9897370 -TTTTTTCTTTCTTTTCTC
1 TTTTTTTCTTTCTTTTCTC
* * *
9897388 TTTTTTTCTTTTTTTTTTA
1 TTTTTTTCTTTCTTTTCTC
*
9897407 TTTTTTTCTTCTCTTTTTTC
1 TTTTTTTCTT-TCTTTTCTC
*
9897427 TCTTATTT-TTTCTTTT
1 T-TTTTTTCTTTCTTTT
9897443 TCCCAACTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
18 9 0.14
19 33 0.52
20 16 0.25
21 5 0.08
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTCTTTCTTTTCTC
Found at i:9897443 original size:19 final size:16
Alignment explanation
Indices: 9897364--9897425 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 16
9897354 TTCCTCTTCC
9897364 TTTCTCTTTTTTCTTTCT
1 TTTCTCTTTTTT-TTT-T
9897382 TTTCTCTTTTTTTCTTT
1 TTTCTCTTTTTTT-TTT
9897399 TTT-T-TTTATTTTTTT
1 TTTCTCTTT-TTTTTTT
*
9897414 CTTCTCTTTTTT
1 TTTCTCTTTTTT
9897426 CTCTTATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 8 0.21
16 9 0.23
17 8 0.21
18 14 0.36
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTCTTTTTTTTTT
Found at i:9897443 original size:32 final size:29
Alignment explanation
Indices: 9897370--9897443 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 29
9897360 TTCCTTTCTC
*
9897370 TTTTTTCTTTCTTTTCTCTTTTTTTCTTTT
1 TTTTTTCTTT-TTTTCTCTTTTTTTCTTTA
*
9897400 TTTTTTATTTTTTTCTTCTCTTTTTTCTCTTA
1 TTTTTTCTTTTTTTC-TCT-TTTTTTCT-TTA
9897432 TTTTTTCTTTTT
1 TTTTTTCTTTTT
9897444 CCCAACTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.13
30 12 0.32
31 8 0.21
32 13 0.34
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (29 bp):
TTTTTTCTTTTTTTCTCTTTTTTTCTTTA
Found at i:9899643 original size:55 final size:55
Alignment explanation
Indices: 9899582--9899727 Score: 211
Period size: 55 Copynumber: 2.7 Consensus size: 55
9899572 TGATGACGGG
* * * **
9899582 TGATTCCAGCTATGTGCAGTGTGAGAGTGCACATGAGCTGATGATCGGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAATGGATGA
* * *
9899637 TGATTCCAGCTATATGCGGTGTGGGAGTGCATATGAGCTGATGACCAATGGGTGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAATGGATGA
*
9899692 TGATTCCAGCTATGTGCGGGGTGGGAGTGCACATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGA
9899728 ACTAATGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCAATGGATGA
Found at i:9900624 original size:15 final size:15
Alignment explanation
Indices: 9900586--9900625 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
9900576 TGTTATTTTC
9900586 CCTGCAATCACATTA
1 CCTGCAATCACATTA
*
9900601 CTTGCAATCACATTA
1 CCTGCAATCACATTA
*
9900616 CCTGTAATCA
1 CCTGCAATCA
9900626 TATTGCATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (15 bp):
CCTGCAATCACATTA
Found at i:9907121 original size:34 final size:34
Alignment explanation
Indices: 9907078--9907198 Score: 95
Period size: 34 Copynumber: 3.4 Consensus size: 34
9907068 GCATGTGCAA
*
9907078 TGTGGGAGTGCACATGACGGTGATAGTGGTGTGC
1 TGTGTGAGTGCACATGACGGTGATAGTGGTGTGC
*
9907112 TGTGTGAGTGCACACACTGATGGT-ATATGCCATGCGTG-G-
1 TGTGTGAGTG--CACA-TGACGGTGATA-G---TG-GTGTGC
* * * *
9907151 TTTGAGAGTGCACATGACAGTGATAGTGGTGTAC
1 TGTGTGAGTGCACATGACGGTGATAGTGGTGTGC
9907185 TGTGTGAGTGCACA
1 TGTGTGAGTGCACA
9907199 CACTGATGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 22
0.68 0.09 0.22
Matches are distributed among these distances:
32 3 0.04
33 2 0.03
34 21 0.31
36 13 0.19
37 14 0.21
39 8 0.12
40 3 0.04
41 3 0.04
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.28
Consensus pattern (34 bp):
TGTGTGAGTGCACATGACGGTGATAGTGGTGTGC
Found at i:9907230 original size:73 final size:73
Alignment explanation
Indices: 9907069--9907240 Score: 254
Period size: 73 Copynumber: 2.4 Consensus size: 73
9907059 TGTAGTCGTG
* * *
9907069 CATGTGCAATGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATG
1 CATGTGCAATGTGAGAGTGCACATGACAGTGATAGTGGTGTACTGTGTGAGTGCACACACTGATG
*
9907134 GTATATGC
66 ATATATGC
* *** *
9907142 CATGCGTGGTTTGAGAGTGCACATGACAGTGATAGTGGTGTACTGTGTGAGTGCACACACTGATG
1 CATGTGCAATGTGAGAGTGCACATGACAGTGATAGTGGTGTACTGTGTGAGTGCACACACTGATG
9907207 ATATATGC
66 ATATATGC
*
9907215 CATGTGCCATGTGAGAGTGCACATGA
1 CATGTGCAATGTGAGAGTGCACATGA
9907241 TGATATTGCC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (73 bp):
CATGTGCAATGTGAGAGTGCACATGACAGTGATAGTGGTGTACTGTGTGAGTGCACACACTGATG
ATATATGC
Found at i:9907268 original size:35 final size:36
Alignment explanation
Indices: 9907197--9907311 Score: 112
Period size: 36 Copynumber: 3.2 Consensus size: 36
9907187 TGTGAGTGCA
* *
9907197 CACACTGATGATATATGCCATGTGCCA-TGTGAGAGTG
1 CACA-TGATGATATATGCCTTGTG-CAGTGTGGGAGTG
9907234 CACATGATGATAT-TGCCTTGTGCAGTGTGGGAGTG
1 CACATGATGATATATGCCTTGTGCAGTGTGGGAGTG
* * * *
9907269 CACAGGCTGAT-TCTAG-CTATGTGCGGTGTGGGAGTG
1 CACATGATGATATAT-GCCT-TGTGCAGTGTGGGAGTG
9907305 CACATGA
1 CACATGA
9907312 GCTGGTGAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
34 3 0.04
35 29 0.43
36 31 0.46
37 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (36 bp):
CACATGATGATATATGCCTTGTGCAGTGTGGGAGTG
Found at i:9912683 original size:2 final size:2
Alignment explanation
Indices: 9912676--9912702 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9912666 AATGTTTTTC
9912676 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9912703 AAAACTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9913129 original size:29 final size:28
Alignment explanation
Indices: 9913094--9913152 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 28
9913084 CCACGGTCTA
*
9913094 TGATATATATACGTGGCAAGGCCACAGGT
1 TGATA-ATATACGTGGCAAGGCCACAAGT
*
9913123 TG---ATATACGTGGCTAGGCCACAAGT
1 TGATAATATACGTGGCAAGGCCACAAGT
9913148 TGATA
1 TGATA
9913153 CACGTGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
25 23 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (28 bp):
TGATAATATACGTGGCAAGGCCACAAGT
Found at i:9913134 original size:25 final size:25
Alignment explanation
Indices: 9913100--9913159 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
9913090 TCTATGATAT
*
9913100 ATATACGTGGCAAGGCCACAGGTTG
1 ATATACGTGGCAAGGCCACAAGTTG
*
9913125 ATATACGTGGCTAGGCCACAAGTTG
1 ATATACGTGGCAAGGCCACAAGTTG
*
9913150 ATACACGTGG
1 ATATACGTGG
9913160 TTGCGACCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (25 bp):
ATATACGTGGCAAGGCCACAAGTTG
Found at i:9923164 original size:11 final size:11
Alignment explanation
Indices: 9923128--9923171 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
9923118 CGATTGTCGG
9923128 AGAAAGCAAAA
1 AGAAAGCAAAA
9923139 AG--AGC-AAA
1 AGAAAGCAAAA
*
9923147 GGAAAGCAAAA
1 AGAAAGCAAAA
9923158 AGAAAGCAAAA
1 AGAAAGCAAAA
9923169 AGA
1 AGA
9923172 GCAAAGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 4 0.14
9 3 0.11
10 3 0.11
11 18 0.64
ACGTcount: A:0.68, C:0.09, G:0.23, T:0.00
Consensus pattern (11 bp):
AGAAAGCAAAA
Found at i:9923191 original size:20 final size:19
Alignment explanation
Indices: 9923154--9923197 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9923144 AAAGGAAAGC
* *
9923154 AAAAAGAAAGCAAAAAGAG
1 AAAAGGAAAGAAAAAAGAG
*
9923173 CAAAGGAAAGAAAAGAAGAG
1 AAAAGGAAAGAAAA-AAGAG
9923193 AAAAG
1 AAAAG
9923198 CAGAGCGGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (19 bp):
AAAAGGAAAGAAAAAAGAG
Found at i:9923203 original size:30 final size:29
Alignment explanation
Indices: 9923128--9923186 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 29
9923118 CGATTGTCGG
9923128 AGAAAGCAAAAAGAGCAAAGGAAAGCAAAA
1 AGAAAGCAAAAAGAGCAAAGGAAAG-AAAA
9923158 AGAAAGCAAAAAGAGCAAAGGAAAGAAAA
1 AGAAAGCAAAAAGAGCAAAGGAAAGAAAA
9923187 GAAGAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (29 bp):
AGAAAGCAAAAAGAGCAAAGGAAAGAAAA
Found at i:9923430 original size:22 final size:22
Alignment explanation
Indices: 9923391--9923432 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9923381 AAATGAGCGG
** *
9923391 CTTTGGCTGCTGATTTTTGAAA
1 CTTTGGCTGCCAAGTTTTGAAA
9923413 CTTTGGCTGCCAAGTTTTGA
1 CTTTGGCTGCCAAGTTTTGA
9923433 GGGAGAAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.43
Consensus pattern (22 bp):
CTTTGGCTGCCAAGTTTTGAAA
Found at i:9923446 original size:93 final size:93
Alignment explanation
Indices: 9923278--9923465 Score: 234
Period size: 93 Copynumber: 2.0 Consensus size: 93
9923268 TTTGCTACCA
* * * **
9923278 TTTAGGGAAGAAATGAGCAACTTTGGTTGCTTATTTTTGGAGGCTTTGGCTGCCAGTTTTGAGGG
1 TTTAAGGAAGAAATGAGCAACTTTGGCTGCTGATTTTTGGAAACTTTGGCTGCCAGTTTTGAGGG
* * * *
9923343 TGAGATGAGCAGCTTTAGCTGCTGATTT
66 AGAAAGGAGCAACTTTAGCTGCTGATTT
* **
9923371 TTTAAGGATGAAATGAGCGGCTTTGGCTGCTGATTTTT-GAAACTTTGGCTGCCAAGTTTTGAGG
1 TTTAAGGAAGAAATGAGCAACTTTGGCTGCTGATTTTTGGAAACTTTGGCTGCC-AGTTTTGAGG
* *
9923435 GAGAAAGGAGCAACTTTGGCTGCTTATTT
65 GAGAAAGGAGCAACTTTAGCTGCTGATTT
9923464 TT
1 TT
9923466 GAGGCTCTGG
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
92 13 0.16
93 67 0.84
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (93 bp):
TTTAAGGAAGAAATGAGCAACTTTGGCTGCTGATTTTTGGAAACTTTGGCTGCCAGTTTTGAGGG
AGAAAGGAGCAACTTTAGCTGCTGATTT
Found at i:9923520 original size:56 final size:57
Alignment explanation
Indices: 9923380--9923524 Score: 152
Period size: 57 Copynumber: 2.6 Consensus size: 57
9923370 TTTTAAGGAT
* * *
9923380 GAAATGAGCGGCTTTGGCTGCTGATTTTTGAAACTTTGGCTGCCAAGTTTTGAGGGA
1 GAAATGAGCAGCTTTGGCTGTTGATTTTTGAAACTCTGGCTGCCAAGTTTTGAGGGA
* * ** * *
9923437 GAAAGGAGCAACTTTGGCTGCTT-ATTTTTGAGGCTCTGGCTGTCGA-TTTTGAGGGTA
1 GAAATGAGCAGCTTTGGCTG-TTGATTTTTGAAACTCTGGCTGCCAAGTTTTGAGGG-A
* *
9923494 -AGATGAGCAGCTTTAGCTGTTGATTTTTGAA
1 GAAATGAGCAGCTTTGGCTGTTGATTTTTGAA
9923525 GGTTGAAAGG
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
55 2 0.03
56 32 0.45
57 36 0.51
58 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.30, T:0.35
Consensus pattern (57 bp):
GAAATGAGCAGCTTTGGCTGTTGATTTTTGAAACTCTGGCTGCCAAGTTTTGAGGGA
Found at i:9923557 original size:149 final size:150
Alignment explanation
Indices: 9923281--9923613 Score: 456
Period size: 149 Copynumber: 2.2 Consensus size: 150
9923271 GCTACCATTT
* * * *
9923281 AGGGAAGAAATGAGCAACTTTGGTTGCTTATTTTTGGAGGCTTTGGCTGCCAGTTTTGAGGGTGA
1 AGGG-AGAAAGGAGCAACTTTGGCTGCTTATTTTTGGAGGCTCTGGCTGCCAGTTTTGAGGGTAA
* * * * *
9923346 GATGAGCAGCTTTAGCTGCTGATTTTTTAAGGATGAAATGAGCGGCTTTGGCTGCTGATTTTTGA
65 GATGAGCAGCTTTAGCTGCTGATTTTTGAAGGATGAAAGGAACGACTTTGGCTACTGATTTTTGA
*
9923411 AACTTTGGCTGCCAAGTTTTG
130 AACTTTGGCTACCAAGTTTTG
*
9923432 AGGGAGAAAGGAGCAACTTTGGCTGCTTATTTTT-GAGGCTCTGGCTGTC-GATTTTGAGGGTAA
1 AGGGAGAAAGGAGCAACTTTGGCTGCTTATTTTTGGAGGCTCTGGCTGCCAG-TTTTGAGGGTAA
* * *
9923495 GATGAGCAGCTTTAGCTGTTGATTTTTGAAGGTTGAAAGGAATGACTTTGGCTACTGATTTTTGA
65 GATGAGCAGCTTTAGCTGCTGATTTTTGAAGGATGAAAGGAACGACTTTGGCTACTGATTTTTGA
*
9923560 AGCTTTGGCTACCAAGTTTTG
130 AACTTTGGCTACCAAGTTTTG
* * * *
9923581 AAGGATAAAGGAGCAGC-TTGGCTGCTGATTTTT
1 AGGGAGAAAGGAGCAACTTTGGCTGCTTATTTTT
9923614 TAAGAAGAAT
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
148 16 0.10
149 114 0.70
150 28 0.17
151 4 0.02
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (150 bp):
AGGGAGAAAGGAGCAACTTTGGCTGCTTATTTTTGGAGGCTCTGGCTGCCAGTTTTGAGGGTAAG
ATGAGCAGCTTTAGCTGCTGATTTTTGAAGGATGAAAGGAACGACTTTGGCTACTGATTTTTGAA
ACTTTGGCTACCAAGTTTTG
Done.