Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 77 of 150
Found at i:23272083 original size:32 final size:32
Alignment explanation
Indices: 23272042--23272305 Score: 157
Period size: 32 Copynumber: 8.3 Consensus size: 32
23272032 GTGATGCTAT
*
23272042 TGATGGCTTTGTGCCGATCATAGTACCGTTAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* * * * * *
23272074 TGATGGCTTTATGGCAATCATAGTATTATCAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* * * *
23272106 TGATGACTTTGTGTCGATCATATTACTGTTAT
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* *
23272138 TGATGG-TTGTGTGCTGATCAT-TTCACTGTTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACTGTTAC
* *
23272170 GGATGG-TTGTGTGCCGATCATA-TCACTGCTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACTGTTAC
* ** **
23272202 TGATGACTTTGTGTTGATCAT-GTTACCATTAC
1 TGATGGCTTTGTGCCGATCATAG-TACTGTTAC
* * *
23272234 TAATGG-TTGTGTGCCAATCATA-TCACTGCTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACTGTTAC
* * * *
23272266 TAATGGCTTTGTGCCAATCACATTACTG-TAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
*
23272297 TTATGGCTT
1 TGATGGCTT
23272306 ATAGTCATTC
Statistics
Matches: 181, Mismatches: 40, Indels: 23
0.74 0.16 0.09
Matches are distributed among these distances:
31 18 0.10
32 157 0.87
33 6 0.03
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATAGTACTGTTAC
Found at i:23272188 original size:64 final size:64
Alignment explanation
Indices: 23272115--23272279 Score: 181
Period size: 64 Copynumber: 2.6 Consensus size: 64
23272105 CTGATGACTT
* * * * * ** *
23272115 TGTGTCGATCATATTACTGTTATTGATG-GTTGTGTGCTGATCAT-TTCACTGTTACGGATGGTT
1 TGTGCCGATCATATCACTGCTACTGATGACTT-TGTGCTGATCATGTT-ACCATTACGAATGGTT
23272178 G
64 G
* *
23272179 TGTGCCGATCATATCACTGCTACTGATGACTTTGTGTTGATCATGTTACCATTACTAATGGTTG
1 TGTGCCGATCATATCACTGCTACTGATGACTTTGTGCTGATCATGTTACCATTACGAATGGTTG
* * *
23272243 TGTGCCAATCATATCACTGCTACTAATGGCTTTGTGC
1 TGTGCCGATCATATCACTGCTACTGATGACTTTGTGC
23272280 CAATCACATT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
64 81 0.95
65 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (64 bp):
TGTGCCGATCATATCACTGCTACTGATGACTTTGTGCTGATCATGTTACCATTACGAATGGTTG
Found at i:23272279 original size:96 final size:96
Alignment explanation
Indices: 23272104--23272285 Score: 231
Period size: 96 Copynumber: 1.9 Consensus size: 96
23272094 TAGTATTATC
** * * ** * *
23272104 ACTGATGACTTTGTGTCGATCATATTACTGTTATTGATGGTTGTGTGCTGATCATTTCACTGTTA
1 ACTGATGACTTTGTGTCGATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTGCTA
* *
23272169 CGGATGGTTGTGTGCCGATCATATCACTGCT
66 CGAATGGTTGTGTGCCAATCATATCACTGCT
* *
23272200 ACTGATGACTTTGTGTTGATCATGTTACCATTACTAATGGTTGTGTGCCAATCATATCACTGCTA
1 ACTGATGACTTTGTGTCGATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTGCTA
*
23272265 CTAATGGCTT-TGTGCCAATCA
66 CGAATGG-TTGTGTGCCAATCA
23272286 CATTACTGTA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 70 0.97
97 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (96 bp):
ACTGATGACTTTGTGTCGATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTGCTA
CGAATGGTTGTGTGCCAATCATATCACTGCT
Found at i:23283399 original size:41 final size:41
Alignment explanation
Indices: 23283338--23283486 Score: 210
Period size: 41 Copynumber: 3.6 Consensus size: 41
23283328 ACCGAAGTCT
* *
23283338 AAACAGGGGAACGTACGTGCAATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* *
23283379 AAACAGGGGCACATATGTGCAATTCAGGGGTATTC-AAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTA-CCAAAGTAC
* * *
23283420 AAATAGGGGCACGTATGTGCAATTTAAGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
*
23283461 AAACAGGGGCACGTATGTGTAATTCA
1 AAACAGGGGCACGTATGTGCAATTCA
23283487 TCATTTTTCT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 92 0.98
42 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
Found at i:23285578 original size:22 final size:22
Alignment explanation
Indices: 23285553--23285594 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
23285543 TGATTTCGAC
*
23285553 GATTCTTCGAAGACCGATCGGT
1 GATTCTTCGAAGACCAATCGGT
23285575 GATTCTTCGAAGACCAATCG
1 GATTCTTCGAAGACCAATCG
23285595 TGGTGGCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
GATTCTTCGAAGACCAATCGGT
Found at i:23288550 original size:103 final size:102
Alignment explanation
Indices: 23288371--23288666 Score: 486
Period size: 103 Copynumber: 2.9 Consensus size: 102
23288361 TAGCCGTTAT
* *
23288371 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
23288436 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
23288474 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
23288539 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * *
23288578 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
23288643 AATCAGCACATAGCAA-CCCCTTTT
65 AATCAGCACATAGCAACCCCCTTTT
23288667 ATATACAACA
Statistics
Matches: 182, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
103 93 0.51
104 88 0.48
105 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (102 bp):
TGGTGGATACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:23288633 original size:104 final size:103
Alignment explanation
Indices: 23288371--23288667 Score: 490
Period size: 104 Copynumber: 2.9 Consensus size: 103
23288361 TAGCCGTTAT
*
23288371 TGGTGGATCCCGCACTTAGCACCA-CCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCACGCACTTAGCACCACCCA-TGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
**
23288435 GAATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
*
23288474 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
23288538 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATA
* *
23288578 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
23288643 AATCAGCACATAGCAACCCCTTTTA
66 AATCAGCACATAGCAACCCCCTTTA
23288668 TATACAACAT
Statistics
Matches: 182, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
103 84 0.46
104 97 0.53
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
Found at i:23288644 original size:27 final size:27
Alignment explanation
Indices: 23288612--23288663 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
23288602 CCCATAAATC
*
23288612 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
23288639 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
23288664 TTTATATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:23289025 original size:29 final size:29
Alignment explanation
Indices: 23288992--23289055 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
23288982 TAATCCACCA
23288992 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
23289021 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
23289051 CCCAA
1 CCCAA
23289056 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:23289029 original size:30 final size:30
Alignment explanation
Indices: 23288999--23289055 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
23288989 CCACCCAACT
23288999 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
23289028 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
23289056 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:23296933 original size:13 final size:13
Alignment explanation
Indices: 23296915--23296949 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
23296905 GGGCTCACAC
23296915 GCCCGTGTGGTCT
1 GCCCGTGTGGTCT
23296928 GCCCGTGTGGTCT
1 GCCCGTGTGGTCT
23296941 GCCCGTGTG
1 GCCCGTGTG
23296950 AGCCCACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.31, G:0.40, T:0.29
Consensus pattern (13 bp):
GCCCGTGTGGTCT
Found at i:23302353 original size:14 final size:14
Alignment explanation
Indices: 23302334--23302362 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23302324 ACTAAAGATG
23302334 AAATAACTACACTA
1 AAATAACTACACTA
23302348 AAATAACTACACTA
1 AAATAACTACACTA
23302362 A
1 A
23302363 GGGCACTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAACTACACTA
Found at i:23304247 original size:277 final size:273
Alignment explanation
Indices: 23303787--23304477 Score: 1012
Period size: 277 Copynumber: 2.5 Consensus size: 273
23303777 AAGACATGGA
* **
23303787 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTATTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
* * * *
23303852 TAAATAGTTTAATTAATTAATTTCGGCCAAAATATAAAAGACATGGAATTTAATATTCTTTTGGA
66 TAAATAATTT-ATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
* * * * * *
23303917 AAGAATATAATTAATATATGAATTTGATTTATACAAAATATTAATTTTATATATTTTACCGATTT
130 AAGAATATAATTAATATATAAATTTGATTCATACAAAATATGAA--TTATATATATCACCGAATT
* *
23303982 TATTAATATAAACAGTTATATTAAATAATTTCGGTCAAAATAT-AAAAGACATGGAAATTAATAT
193 TATTAATATAAACAGTTATATTAAATAATTTCAGTCAAAATATAAAAAAACATGGAAATTAATAT
23304046 TCTTTTAGAAAGAATAT
258 T-TTTTAGAAAGAATAT
* * *
23304063 AATTAATATATGAATTTGATTCATACAAAATATTTAATTGTATACATTTTACCGAATTCATTAAT
1 AATTAATATATGAATTTGATTCATACAAAATA-TTAATTGTATATATTTTACAGAATTTATTAAT
23304128 ATAAATAATTCTATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATT-TTGTTG
65 ATAAATAATT-TATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATT-TTG
23304192 GAAAGAATATAATTAATATATAAATTTGATTCATACAAAATATGAATTATATATATCACCGAATT
128 GAAAGAATATAATTAATATATAAATTTGATTCATACAAAATATGAATTATATATATCACCGAATT
* *
23304257 TATTAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAAAATATGGAAATTAATAT
193 TATTAATATAAACAGTTATATTAAATAATTTCAGTCAAAATATAAAAAAACATGGAAATTAATAT
*
23304322 TTTTTGGAAAGAATAT
258 TTTTTAGAAAGAATAT
* * * *
23304338 AATTAATATATGAATTTGATTTATACAAATTATTAA--CTATATATATTACAGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
* * * * *
23304401 TAAACATTTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATTAATATTATTTTGAA
66 TAAATAATT-TATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
23304466 AAGAATATAATT
130 AAGAATATAATT
23304478 CGTTTTTCTA
Statistics
Matches: 378, Mismatches: 32, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
272 90 0.24
273 2 0.01
274 4 0.01
275 101 0.27
276 53 0.14
277 127 0.34
278 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (273 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
TAAATAATTTATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGAA
AGAATATAATTAATATATAAATTTGATTCATACAAAATATGAATTATATATATCACCGAATTTAT
TAATATAAACAGTTATATTAAATAATTTCAGTCAAAATATAAAAAAACATGGAAATTAATATTTT
TTAGAAAGAATAT
Found at i:23304329 original size:136 final size:137
Alignment explanation
Indices: 23303787--23304477 Score: 996
Period size: 136 Copynumber: 5.0 Consensus size: 137
23303777 AAGACATGGA
* **
23303787 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTATTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATT-TATATATTTTACCGAATTTATTAATA
* * *
23303852 TAAATAGTT-TAATTAATTAATTTCGGCCAAAATATAAAAGACATGGAATTTAATATTCTTTTGG
65 TAAACAGTTAT-ATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
23303916 AAAGAATAT
129 AAAGAATAT
* *
23303925 AATTAATATATGAATTTGATTTATACAAAATATTAATTTTATATATTTTACCGATTTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAA-TTTATATATTTTACCGAATTTATTAATA
* *
23303990 TAAACAGTTATATTAAATAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTAGA
65 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
23304055 AAGAATAT
130 AAGAATAT
* *
23304063 AATTAATATATGAATTTGATTCATACAAAATATTTAATTGTATACATTTTACCGAATTCATTAAT
1 AATTAATATATGAATTTGATTCATACAAAATA-TTAATT-TATATATTTTACCGAATTTATTAAT
* * *
23304128 ATAAATAATTCTATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATT-TTGTTG
64 ATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT-TTG
23304192 GAAAGAATAT
128 GAAAGAATAT
* * * *
23304202 AATTAATATATAAATTTGATTCATACAAAATATGAA-TTATATATATCACCGAATTTATTAATAT
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTTATATATTTTACCGAATTTATTAATAT
* * *
23304266 AAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAAAATATGGAAATTAATATT-TTTTGGA
66 AAACAGTTATATTAATTAATTTCGGTCAAAATAT-AAAAGACATGGAAATTAATATTCTTTTGGA
23304330 AAGAATAT
130 AAGAATAT
* * * * *
23304338 AATTAATATATGAATTTGATTTATACAAATTATTAA-CTATATATATTACAGAATTTATTAATAT
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTTATATATTTTACCGAATTTATTAATAT
* * * * *
23304402 AAACATTTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATTAATATTATTTTGAAA
66 AAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAA
23304467 AGAATAT
131 AGAATAT
23304474 AATT
1 AATT
23304478 CGTTTTTCTA
Statistics
Matches: 503, Mismatches: 43, Indels: 16
0.90 0.08 0.03
Matches are distributed among these distances:
135 19 0.04
136 174 0.35
137 23 0.05
138 161 0.32
139 126 0.25
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTTATATATTTTACCGAATTTATTAATAT
AAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAA
AGAATAT
Found at i:23305748 original size:23 final size:26
Alignment explanation
Indices: 23305720--23305777 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
23305710 AAAATTAATG
23305720 ATATATAA-AATATTTTAATAATTAA
1 ATATATAATAATATTTTAATAATTAA
*
23305745 ATATAATCAATAATATTTTAATAATTTA
1 ATAT-AT-AATAATATTTTAATAATTAA
23305773 ATATA
1 ATATA
23305778 ATGATACATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 4 0.14
26 2 0.07
27 3 0.10
28 20 0.69
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATATAATAATATTTTAATAATTAA
Found at i:23305825 original size:33 final size:33
Alignment explanation
Indices: 23305715--23305826 Score: 110
Period size: 33 Copynumber: 3.5 Consensus size: 33
23305705 TATGTAAAAT
*
23305715 TAATGATATATAAAATATTTTAATAA-TTAA-A
1 TAATGATACATAAAATATTTTAATAATTTAATA
* *
23305746 T-ATAAT-CA-ATAATATTTTAATAATTTAATA
1 TAATGATACATAAAATATTTTAATAATTTAATA
* *
23305776 TAATGATACATGAAATATTTTAA-ATTTTTAATA
1 TAATGATACATAAAATATTTTAATA-ATTTAATA
* *
23305809 TAATGCTATATAAAATAT
1 TAATGATACATAAAATAT
23305827 AAATTAATCT
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
28 14 0.22
29 5 0.08
30 6 0.09
31 5 0.08
32 3 0.05
33 32 0.49
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (33 bp):
TAATGATACATAAAATATTTTAATAATTTAATA
Found at i:23310435 original size:20 final size:21
Alignment explanation
Indices: 23310392--23310462 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
23310382 TTAAAAGCAC
23310392 ATAAAATATTATTTAAAAATT
1 ATAAAATATTATTTAAAAATT
23310413 ATAAAATATT-TTTCAAAAA-T
1 ATAAAATATTATTT-AAAAATT
*
23310433 ATAAAATA--ATTAAAATAATT
1 ATAAAATATTATTTAAA-AATT
23310453 ATAGAAATAT
1 ATA-AAATAT
23310463 AAATAATTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
18 3 0.07
19 4 0.09
20 16 0.37
21 20 0.47
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
ATAAAATATTATTTAAAAATT
Found at i:23311727 original size:16 final size:16
Alignment explanation
Indices: 23311706--23311740 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23311696 CTAGTATATT
23311706 TTTTATAT-TTTTAAGA
1 TTTTATATATTTTAA-A
23311722 TTTTATATATTTTAAA
1 TTTTATATATTTTAAA
23311738 TTT
1 TTT
23311741 CAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTATATATTTTAAA
Found at i:23312792 original size:16 final size:16
Alignment explanation
Indices: 23312771--23312804 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23312761 AATATAGAGA
*
23312771 TTGATTCAAGACTTAT
1 TTGATTCAAGACTGAT
23312787 TTGATTCAAGACTGAT
1 TTGATTCAAGACTGAT
23312803 TT
1 TT
23312805 CAAGACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (16 bp):
TTGATTCAAGACTGAT
Found at i:23315010 original size:50 final size:49
Alignment explanation
Indices: 23314930--23315024 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 49
23314920 TGCTATGTAA
* *
23314930 TGCTAAACTTGGTCTTTCACTATCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACAT
* * *
23314979 TGCTAGAACTTAGTCTTCCATTGTCTCCACTCTTATCACTATTTAT
1 TGCTA-AACTTAGTCTTCCACTATCTACACTCTTATCACTATTTAT
23315025 CCTTTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 5 0.12
50 35 0.88
ACGTcount: A:0.24, C:0.25, G:0.07, T:0.43
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACAT
Found at i:23315355 original size:30 final size:30
Alignment explanation
Indices: 23315314--23315378 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
23315304 ATTTCAGGGG
* *
23315314 TCACACACCCGTGTGGCCAGGCCGTGTGCC
1 TCACACACCCGTATGGCCAAGCCGTGTGCC
*
23315344 TCACACGCCCGTATGGCCAAGCCGTGTGCC
1 TCACACACCCGTATGGCCAAGCCGTGTGCC
23315374 TCACA
1 TCACA
23315379 TGGCTGAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (30 bp):
TCACACACCCGTATGGCCAAGCCGTGTGCC
Found at i:23319253 original size:23 final size:24
Alignment explanation
Indices: 23319235--23319281 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
23319225 TCCTGTACAT
23319235 GTATGCTCACACGAGCTGTGAATCA
1 GTATGCTCACACGAGCTGTGAAT-A
* *
23319260 GTATGCTCACATGAGCTATGAA
1 GTATGCTCACACGAGCTGTGAA
23319282 AATGGGCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
GTATGCTCACACGAGCTGTGAATA
Found at i:23322151 original size:4 final size:4
Alignment explanation
Indices: 23322142--23322168 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23322132 TTCTTCTCAT
23322142 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
23322169 ATTTAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:23323473 original size:136 final size:136
Alignment explanation
Indices: 23323303--23323575 Score: 528
Period size: 136 Copynumber: 2.0 Consensus size: 136
23323293 GTTTTGAACT
23323303 AATAATGGAATTCCAGTATATTGATCTTGCTCATAGGAATAATTCCAAGAAACAATCCAAGAAAT
1 AATAATGGAATTCCAGTATATTGATCTTGCTCATAGGAATAATTCCAAGAAACAATCCAAGAAAT
23323368 GAACAATTTTGAGAAAAAATAGATTGTTCTGTAAATGTGTTTTTGGTCTAGTTCATGTTGAAAAT
66 GAACAATTTTGAGAAAAAATAGATTGTTCTGTAAATGTGTTTTTGGTCTAGTTCATGTTGAAAAT
23323433 TTTCAA
131 TTTCAA
23323439 AATAATGGAATTCCAGTATATTGATCTTGCTCATAGGAATAATTCCAAGAAACAATCCAAGAAAT
1 AATAATGGAATTCCAGTATATTGATCTTGCTCATAGGAATAATTCCAAGAAACAATCCAAGAAAT
* *
23323504 GAACAATTTTGAGAAAAAATGGATTGTTCTGTAAATGTGTTTTTGGTCTAGTTCATGTTGAAATT
66 GAACAATTTTGAGAAAAAATAGATTGTTCTGTAAATGTGTTTTTGGTCTAGTTCATGTTGAAAAT
23323569 TTTCAA
131 TTTCAA
23323575 A
1 A
23323576 GAATTTGGGC
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (136 bp):
AATAATGGAATTCCAGTATATTGATCTTGCTCATAGGAATAATTCCAAGAAACAATCCAAGAAAT
GAACAATTTTGAGAAAAAATAGATTGTTCTGTAAATGTGTTTTTGGTCTAGTTCATGTTGAAAAT
TTTCAA
Found at i:23325926 original size:26 final size:26
Alignment explanation
Indices: 23325897--23325977 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
23325887 TGGAGGAAGT
*
23325897 ATACTGTTACTAGCAGCTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGTTGCG
*
23325923 ATACTGTTACTGGCAGCTTTGTTGTG
1 ATACTGTTACTGGCAGCTTTGTTGCG
* * * *
23325949 ATACTATTACTGGTAGTTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGTTGCG
23325975 ATA
1 ATA
23325978 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGTTGCG
Found at i:23334626 original size:16 final size:16
Alignment explanation
Indices: 23334605--23334635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23334595 TTCATTATTA
*
23334605 TGTCTTTTATATTTTT
1 TGTCTTTCATATTTTT
23334621 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
23334636 GCATGAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTCATATTTTT
Found at i:23335761 original size:20 final size:20
Alignment explanation
Indices: 23335736--23335773 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23335726 GAAAAATTAC
23335736 TTTT-GGAAAATCTAATTGAT
1 TTTTGGGAAAAT-TAATTGAT
23335756 TTTTGGGAAAATTAATTG
1 TTTTGGGAAAATTAATTG
23335774 TCAAGTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (20 bp):
TTTTGGGAAAATTAATTGAT
Found at i:23336204 original size:16 final size:16
Alignment explanation
Indices: 23336139--23336207 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
23336129 AAAAAAATAT
*
23336139 TATTTTAATAGATTTAA
1 TATTTTATTA-ATTTAA
*
23336156 TATTTAATTTAATTTAA
1 TATTTTA-TTAATTTAA
* *
23336173 TA-CTTATCTAA-ATAA
1 TATTTTAT-TAATTTAA
23336188 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
23336204 TATT
1 TATT
23336208 AAGTGATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
15 9 0.22
16 16 0.39
17 14 0.34
18 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:23345479 original size:14 final size:14
Alignment explanation
Indices: 23345445--23345490 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23345435 TACTTAATTA
*
23345445 ATTAAAAAT-CAAT
1 ATTAAAAATGAAAT
*
23345458 -TTATAAATGAAAT
1 ATTAAAAATGAAAT
*
23345471 ATTAAAAATGAATT
1 ATTAAAAATGAAAT
23345485 ATTAAA
1 ATTAAA
23345491 TATAACTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
14 17 0.63
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (14 bp):
ATTAAAAATGAAAT
Found at i:23352261 original size:50 final size:49
Alignment explanation
Indices: 23352179--23352355 Score: 152
Period size: 50 Copynumber: 3.5 Consensus size: 49
23352169 TTGCTATGTC
*
23352179 TGTAGTACTACGTGCAGGCTACTA--CATGTACCGGAATGATAGGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCA--TACCGG-ATGATAGGTCGCATG
* * *
23352229 AGTAGTACTATGTGCAAGCTACTATGCATACC-G--GATAGCTTCGACATGTG
1 TGTAGTACTATGTGCAGGCTACTATGCATACCGGATGATAG-GTCG-CA--TG
* *
23352279 TGTAGTACTATGTGCAGGCTACTACGTGCAT--CGGATGAAAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTA--TGCATACCGGATG-ATA-GGTCGCATG
23352330 TGTAGTACTATGTGCAGGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
23352356 TGAACCGGGT
Statistics
Matches: 105, Mismatches: 9, Indels: 27
0.74 0.06 0.19
Matches are distributed among these distances:
46 5 0.05
47 3 0.03
48 2 0.02
49 3 0.03
50 50 0.48
51 27 0.26
52 7 0.07
53 3 0.03
54 4 0.04
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTAGTACTATGTGCAGGCTACTATGCATACCGGATGATAGGTCGCATG
Found at i:23352363 original size:101 final size:100
Alignment explanation
Indices: 23352174--23352355 Score: 258
Period size: 100 Copynumber: 1.8 Consensus size: 100
23352164 TGAAGTTGCT
* * *
23352174 ATGTCTGTAGTACTACGTGCAGGCTACTACATGTACCGGAATGATAGGTCGCATGAGTAGTACTA
1 ATGTCTGTAGTACTACGTGCAGGCTACTACATGCACCGGAATGAAAGGTCACATGAGTAGTACTA
23352239 TGTGCAAGCTACTATGCATACCGGATAGCTTCGAC
66 TGTGCAAGCTACTATGCATACCGGATAGCTTCGAC
* * * * *
23352274 ATGTGTGTAGTACTATGTGCAGGCTACTACGTGCATCGG-ATGAAAATGGTCACATGTGTAGTAC
1 ATGTCTGTAGTACTACGTGCAGGCTACTACATGCACCGGAATG-AAA-GGTCACATGAGTAGTAC
*
23352338 TATGTGCAGGCTACTATG
64 TATGTGCAAGCTACTATG
23352356 TGAACCGGGT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
99 3 0.04
100 36 0.51
101 32 0.45
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
ATGTCTGTAGTACTACGTGCAGGCTACTACATGCACCGGAATGAAAGGTCACATGAGTAGTACTA
TGTGCAAGCTACTATGCATACCGGATAGCTTCGAC
Found at i:23358908 original size:13 final size:13
Alignment explanation
Indices: 23358890--23358916 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23358880 CCAATTTATT
23358890 AATGAATTATTAA
1 AATGAATTATTAA
23358903 AATGAATTATTAA
1 AATGAATTATTAA
23358916 A
1 A
23358917 TATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
AATGAATTATTAA
Found at i:23365573 original size:20 final size:20
Alignment explanation
Indices: 23365550--23365597 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23365540 GGGGCACCGT
23365550 AGTGCAAAAAAGGACACCAA
1 AGTGCAAAAAAGGACACCAA
* * * * *
23365570 AGTGTATATAGGGGCACCAA
1 AGTGCAAAAAAGGACACCAA
23365590 AGTGCAAA
1 AGTGCAAA
23365598 TCTCGTACAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (20 bp):
AGTGCAAAAAAGGACACCAA
Found at i:23370507 original size:47 final size:47
Alignment explanation
Indices: 23370406--23370516 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
23370396 TATGCAAATT
* * *
23370406 TTGGTGGCTTGACCACAACTATGTGTATTGGCAGCTTGTCTGCGATT
1 TTGGTGGCTTGTCCACAACTATGCGTATTGGCAGCTTGTCTGCGATA
* *
23370453 TTAGTGGCTTGTCCACACCTATGCGTATTGGCAGCTTGTCTGCAGA-A
1 TTGGTGGCTTGTCCACAACTATGCGTATTGGCAGCTTGTCTGC-GATA
23370500 TTGGTGGCTTGTCCACA
1 TTGGTGGCTTGTCCACA
23370517 TATATGCTGG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 55 0.96
48 2 0.04
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34
Consensus pattern (47 bp):
TTGGTGGCTTGTCCACAACTATGCGTATTGGCAGCTTGTCTGCGATA
Found at i:23378016 original size:15 final size:15
Alignment explanation
Indices: 23377998--23378029 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23377988 CATTTCACTA
23377998 TTATGTATTTTATAT
1 TTATGTATTTTATAT
*
23378013 TTATGTCTTTTATAT
1 TTATGTATTTTATAT
23378028 TT
1 TT
23378030 TTCTTGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTATTTTATAT
Found at i:23389432 original size:23 final size:23
Alignment explanation
Indices: 23389406--23389453 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23389396 GTTAATAAAA
23389406 TTAAAACATAAGTCATCATCTTC
1 TTAAAACATAAGTCATCATCTTC
23389429 TTAAAACATAAGTCATCATCTTC
1 TTAAAACATAAGTCATCATCTTC
23389452 TT
1 TT
23389454 TAACACTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (23 bp):
TTAAAACATAAGTCATCATCTTC
Found at i:23389977 original size:25 final size:25
Alignment explanation
Indices: 23389924--23390015 Score: 105
Period size: 25 Copynumber: 3.6 Consensus size: 25
23389914 TGACCCACAA
*
23389924 CTCGTGTGAGCA-AGCCCAATTTCATAG
1 CTCGTGTGAGCATA--CCAATTT-ACAG
*
23389951 CTCGTGAGAGCATACCAATTTACAG
1 CTCGTGTGAGCATACCAATTTACAG
* * *
23389976 CTCATGTGAGCATACCGATTCACAG
1 CTCGTGTGAGCATACCAATTTACAG
23390001 CTCGTGTGAGCATAC
1 CTCGTGTGAGCATAC
23390016 ATGTACATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 38 0.67
26 7 0.12
27 11 0.19
28 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
CTCGTGTGAGCATACCAATTTACAG
Found at i:23391124 original size:20 final size:20
Alignment explanation
Indices: 23391091--23391129 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23391081 GCAACATGGT
*
23391091 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATAGTATC
23391111 TTGG-TTGTGATTATAGTAT
1 TTGGCTTGTG-TTATAGTAT
23391130 TTTGAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.15, C:0.05, G:0.28, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATAGTATC
Found at i:23392393 original size:75 final size:75
Alignment explanation
Indices: 23392264--23392407 Score: 234
Period size: 75 Copynumber: 1.9 Consensus size: 75
23392254 AAGAAAAACC
**
23392264 AGGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAATTAATTATATTCATTCC
1 AGGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCATTCC
23392329 AAAAGGATAT
66 AAAAGGATAT
* ** *
23392339 AGGATTATTCCCTTATTAATAGATAAGGTAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCC
1 AGGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCATTCC
23392404 AAAA
66 AAAA
23392408 TAATATTAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.31
Consensus pattern (75 bp):
AGGATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCATTCC
AAAAGGATAT
Found at i:23392515 original size:17 final size:17
Alignment explanation
Indices: 23392482--23392516 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23392472 GGGTTTAGGG
23392482 TTTTAATTAATATAATT
1 TTTTAATTAATATAATT
23392499 TTTTATATTAATA-AATT
1 TTTTA-ATTAATATAATT
23392516 T
1 T
23392517 GGTAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAATTAATATAATT
Found at i:23392672 original size:44 final size:44
Alignment explanation
Indices: 23392605--23392693 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
23392595 ACAAGTTTGT
23392605 ACATATAATGTGTTTAATGTTTAACCATCAAATTAAAT-TAATTC
1 ACATATAATGTGTTTAATGTTTAACCATCAAATT-AATGTAATTC
* *
23392649 ACATATAATGTGTTTAATTTTTAACTATCAAATTAATGTAATTC
1 ACATATAATGTGTTTAATGTTTAACCATCAAATTAATGTAATTC
23392693 A
1 A
23392694 ATAATTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (44 bp):
ACATATAATGTGTTTAATGTTTAACCATCAAATTAATGTAATTC
Found at i:23413155 original size:21 final size:22
Alignment explanation
Indices: 23413121--23413162 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23413111 TCAATTTCTC
*
23413121 AATCCAATATATATATTTCAAT
1 AATCCAATATATATAATTCAAT
*
23413143 AATCTAATA-ATATAATTCAA
1 AATCCAATATATATAATTCAA
23413163 GTTACACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
AATCCAATATATATAATTCAAT
Found at i:23416045 original size:22 final size:21
Alignment explanation
Indices: 23416008--23416054 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
23415998 GGTGTTTCAG
*
23416008 TGGTGGTGCAAGGTGGT-GATA
1 TGGTAGTGCAAGGTGGTCG-TA
23416029 TGGTAGTGCTAAGGTGGTCGTA
1 TGGTAGTGC-AAGGTGGTCGTA
23416051 TGGT
1 TGGT
23416055 GGTTCGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 14 0.61
23 1 0.04
ACGTcount: A:0.17, C:0.06, G:0.45, T:0.32
Consensus pattern (21 bp):
TGGTAGTGCAAGGTGGTCGTA
Found at i:23417169 original size:28 final size:27
Alignment explanation
Indices: 23417151--23417252 Score: 107
Period size: 28 Copynumber: 3.7 Consensus size: 27
23417141 TCAAAGTTTG
23417151 CCACAAAGGCTATTTTTTTAAGAGTTCA
1 CCACAAAGGCTATTTTTTTAA-AGTTCA
* * *
23417179 CCATACAA-GTTATTCTTTTTAGAGTTCA
1 CCACA-AAGGCTATT-TTTTTAAAGTTCA
* * *
23417207 CCACAAAGGCTATTCTTTTCATAGTTCG
1 CCACAAAGGCTATT-TTTTTAAAGTTCA
23417235 CCACAAAGGCTATTTTTT
1 CCACAAAGGCTATTTTTT
23417253 AATGTCGTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
27 6 0.10
28 49 0.78
29 8 0.13
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (27 bp):
CCACAAAGGCTATTTTTTTAAAGTTCA
Found at i:23423327 original size:16 final size:15
Alignment explanation
Indices: 23423306--23423345 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
23423296 TTTTGTATTT
23423306 TTTTAATATTAAATAA
1 TTTTAATATTAAA-AA
*
23423322 TTTTAAGATTAAAAA
1 TTTTAATATTAAAAA
*
23423337 TATTAATAT
1 TTTTAATAT
23423346 AATCGATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTTAATATTAAAAA
Found at i:23429427 original size:9 final size:9
Alignment explanation
Indices: 23429377--23429501 Score: 58
Period size: 10 Copynumber: 13.1 Consensus size: 9
23429367 TTTTGCGACA
23429377 TTTATAATTT
1 TTTATAA-TT
*
23429387 TTTAATCATT
1 TTT-ATAATT
*
23429397 TTTAGTACTT
1 TTTA-TAATT
**
23429407 TTTATGCTTT
1 TTTAT-AATT
23429417 TTTATAATT
1 TTTATAATT
*
23429426 TTAAATAATT
1 TT-TATAATT
*
23429436 ATTTAGAATT
1 -TTTATAATT
* *
23429446 ATTTGTAA-C
1 -TTTATAATT
23429455 TTTAGTAATT
1 TTTA-TAATT
23429465 TTTATAATT
1 TTTATAATT
23429474 TGTCTAT-ATT
1 T-T-TATAATT
*
23429484 TCTATAA-T
1 TTTATAATT
23429492 TTTATAATT
1 TTTATAATT
23429501 T
1 T
23429502 ACTATAAGTT
Statistics
Matches: 87, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
8 13 0.15
9 18 0.21
10 48 0.55
11 8 0.09
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTATAATT
Found at i:23429508 original size:18 final size:18
Alignment explanation
Indices: 23429462--23429514 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
23429452 AACTTTAGTA
* *
23429462 ATTTTTATAATTTGTCTAT
1 ATTTCTATAATTT-TATAT
23429481 ATTTCTATAATTTTATA-
1 ATTTCTATAATTTTATAT
*
23429498 ATTTACTATAAGTTTAT
1 ATTT-CTATAATTTTAT
23429515 TTTTAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 14 0.47
19 12 0.40
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (18 bp):
ATTTCTATAATTTTATAT
Found at i:23431456 original size:93 final size:93
Alignment explanation
Indices: 23431297--23431482 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
23431287 CATTGAAAAC
23431297 GCTTTTGGTTGGAAGCGTTTTCTTTTTACTAGGGTTATTTTATTTTAGGGTTAGGGTTTAGATTT
1 GCTTTTGGTTGGAAGCGTTTTCTTTTTACTAGGGTTATTTTATTTTAGGGTTAGGGTTTAGATTT
23431362 TTGTTAAAGTAGGGTTATGGTTAGGTTT
66 TTGTTAAAGTAGGGTTATGGTTAGGTTT
23431390 GCTTTTGGTTGGAAGCGTTTTCTTTTTACTAGGGTTATTTTATTTTAGGGTTAGGGTTTAGATTT
1 GCTTTTGGTTGGAAGCGTTTTCTTTTTACTAGGGTTATTTTATTTTAGGGTTAGGGTTTAGATTT
23431455 TTGTTAAAGTAGGGTTATGGTTAGGTTT
66 TTGTTAAAGTAGGGTTATGGTTAGGTTT
23431483 TGTATGTTTT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (93 bp):
GCTTTTGGTTGGAAGCGTTTTCTTTTTACTAGGGTTATTTTATTTTAGGGTTAGGGTTTAGATTT
TTGTTAAAGTAGGGTTATGGTTAGGTTT
Found at i:23435325 original size:19 final size:18
Alignment explanation
Indices: 23435289--23435328 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23435279 TTTCCACTCG
*
23435289 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
23435307 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
23435326 TTT
1 TTT
23435329 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:23435421 original size:19 final size:18
Alignment explanation
Indices: 23435397--23435446 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
23435387 TCTCGCACTC
23435397 CTTTTTTTCTTTCTCCAAT
1 CTTTTTTTCTTT-TCCAAT
* *
23435416 CTTTTTCTCTTTTTCAAT
1 CTTTTTTTCTTTTCCAAT
23435434 -TTTTGTTTCTTTT
1 CTTTT-TTTCTTTT
23435447 TCAGTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.70
Consensus pattern (18 bp):
CTTTTTTTCTTTTCCAAT
Found at i:23435433 original size:18 final size:18
Alignment explanation
Indices: 23435397--23435463 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
23435387 TCTCGCACTC
* *
23435397 CTTTTTTTCTTTCTCCAAT
1 CTTTTTCTCTTT-TTCAAT
23435416 CTTTTTCTCTTTTTCAAT
1 CTTTTTCTCTTTTTCAAT
* *
23435434 -TTTTGTTTCTTTTTCAGTTT
1 CTTTT-TCTCTTTTTCA--AT
23435454 CTTTTTCTCT
1 CTTTTTCTCT
23435464 CGTCACTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.10
18 15 0.38
19 11 0.28
20 5 0.13
21 4 0.10
ACGTcount: A:0.07, C:0.21, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTTTTCTCTTTTTCAAT
Found at i:23436485 original size:15 final size:14
Alignment explanation
Indices: 23436465--23436518 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 14
23436455 ACTAGCTCTC
23436465 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
*
23436479 -TTTTTTTTCA-AT
1 TTTTTTTTTCACAA
*
23436491 TTTTTTTTGTTA-AA
1 TTTTTTTT-TCACAA
23436505 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
23436519 CTTGATATCC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 1 0.03
13 19 0.58
14 13 0.39
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:23436604 original size:12 final size:12
Alignment explanation
Indices: 23436558--23436604 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
23436548 GAAACTAGTT
23436558 TTTTTTTTCGA-
1 TTTTTTTTCGAG
* *
23436569 TTTTTTTTTGAA
1 TTTTTTTTCGAG
23436581 TTTTTTTTCGAG
1 TTTTTTTTCGAG
23436593 TTTTTTTTCGAG
1 TTTTTTTTCGAG
23436605 AAACTACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.11, C:0.06, G:0.13, T:0.70
Consensus pattern (12 bp):
TTTTTTTTCGAG
Found at i:23442371 original size:3 final size:3
Alignment explanation
Indices: 23442363--23442403 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
23442353 GTTAATTCCC
23442363 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23442404 CTGTTTGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23444057 original size:43 final size:42
Alignment explanation
Indices: 23444009--23444163 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 42
23443999 TTCCAATATT
* *
23444009 GATTTGAGATTTCGTGTAAGACCATAGCTGAGCTATTAGCACC
1 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATT-GCATC
*
23444052 GATTTGAGATTTCGTGTAAGATCATAGCTGGGCTATTGACATC
1 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTG-CATC
* *
23444095 GATTTGAGGTTTCGTGTAAGACCATAGTTGGGCTATTGGCATC
1 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATT-GCATC
** *
23444138 GATACGAGATTTCCATGTAAGACCAT
1 GATTTGAGATTT-CGTGTAAGACCAT
23444164 GTCTGGGACA
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 85 0.86
44 13 0.13
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGCATC
Found at i:23445143 original size:45 final size:45
Alignment explanation
Indices: 23445093--23445183 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
23445083 TTATTGGATA
23445093 AACCAAAAATTATAAAAATTTTATGGTAAGAAGATATGTGAGTCT
1 AACCAAAAATTATAAAAATTTTATGGTAAGAAGATATGTGAGTCT
23445138 AACCAAAAATTATAAAAATTTTATGGTAAGAAGATATGTGAGTCT
1 AACCAAAAATTATAAAAATTTTATGGTAAGAAGATATGTGAGTCT
23445183 A
1 A
23445184 GTTTTTTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (45 bp):
AACCAAAAATTATAAAAATTTTATGGTAAGAAGATATGTGAGTCT
Found at i:23445589 original size:13 final size:13
Alignment explanation
Indices: 23445571--23445606 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
23445561 ATGAGTTATT
23445571 ATGTTTTGGCCAA
1 ATGTTTTGGCCAA
23445584 ATGTTTTGGCCAA
1 ATGTTTTGGCCAA
23445597 ATGTTTTGGC
1 ATGTTTTGGC
23445607 TTGTAATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (13 bp):
ATGTTTTGGCCAA
Found at i:23446646 original size:23 final size:24
Alignment explanation
Indices: 23446619--23446669 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
23446609 CATTTTGAAT
23446619 AATTT-TCCATAATTTTATAAAAA
1 AATTTATCCATAATTTTATAAAAA
* * * *
23446642 AATTTATCCTTTATTTTTTAAAAT
1 AATTTATCCATAATTTTATAAAAA
23446666 AATT
1 AATT
23446670 ATTTGTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (24 bp):
AATTTATCCATAATTTTATAAAAA
Found at i:23450013 original size:353 final size:353
Alignment explanation
Indices: 23449367--23450065 Score: 1344
Period size: 353 Copynumber: 2.0 Consensus size: 353
23449357 AAAATGTCAG
*
23449367 TAAGTTCTTTAGGACTATGAAAAGAAAAAGGAGTCCACCAAGAGCTATCTAGATGTGAAGTATTC
1 TAAGTTCTTCAGGACTATGAAAAGAAAAAGGAGTCCACCAAGAGCTATCTAGATGTGAAGTATTC
* *
23449432 TCCAAGGTGGACATAATCAGAAAGGCCTTTAGGAAGGTAGGTCAGAGGACCACTTTATAAGTAAA
66 TCCAAGGTGGACATAATCAGAAAGGCCCTTAGGAAGGTAGGTCAAAGGACCACTTTATAAGTAAA
23449497 TGGTGGGAACAAGAAATCCAGCTTGGAGTAGGGATGAAAGAAAGGATGTTAGTAAAGGAATGGTA
131 TGGTGGGAACAAGAAATCCAGCTTGGAGTAGGGATGAAAGAAAGGATGTTAGTAAAGGAATGGTA
23449562 GAGTTCGCAAGTATGAGGAGTTAAATTGAAAGAGACCATAAGCTAATGGTATCTACTAAAAAAAT
196 GAGTTCGCAAGTATGAGGAGTTAAATTGAAAGAGACCATAAGCTAATGGTATCTACTAAAAAAAT
*
23449627 AAGGAAAAGATAGTAACTAAAATTGGATAGGGTGGAGAACCAAGTCTGGTTCGGTTGGATTAGAA
261 AAGGAAAAAATAGTAACTAAAATTGGATAGGGTGGAGAACCAAGTCTGGTTCGGTTGGATTAGAA
23449692 CCAATCGATCCCTTAGTAGGGGACAAAA
326 CCAATCGATCCCTTAGTAGGGGACAAAA
23449720 TAAGTTCTTCAGGACTATGAAAAGAAAAAGGAGTCCACCAAGAGCTATCTAGATGTGAAGTATTC
1 TAAGTTCTTCAGGACTATGAAAAGAAAAAGGAGTCCACCAAGAGCTATCTAGATGTGAAGTATTC
*
23449785 TCCAAGGTGGACATAATCAGAAAGGCCCTTAGGAGGGTAGGTCAAAGGACCACTTTATAAGTAAA
66 TCCAAGGTGGACATAATCAGAAAGGCCCTTAGGAAGGTAGGTCAAAGGACCACTTTATAAGTAAA
23449850 TGGTGGGAACAAGAAATCCAGCTTGGAGTAGGGATGAAAGAAAGGATGTTAGTAAAGGAATGGTA
131 TGGTGGGAACAAGAAATCCAGCTTGGAGTAGGGATGAAAGAAAGGATGTTAGTAAAGGAATGGTA
*
23449915 GAGTTTGCAAGTATGAGGAGTTAAATTGAAAGAGACCATAAGCTAATGGTATCTACTAAAAAAAT
196 GAGTTCGCAAGTATGAGGAGTTAAATTGAAAGAGACCATAAGCTAATGGTATCTACTAAAAAAAT
23449980 AAGGAAAAAATAGTAACTAAAATTGGATAGGGTGGAGAACCAAGTCTGGTTCGGTTGGATTAGAA
261 AAGGAAAAAATAGTAACTAAAATTGGATAGGGTGGAGAACCAAGTCTGGTTCGGTTGGATTAGAA
23450045 CCAATCGATCCCTTAGTAGGG
326 CCAATCGATCCCTTAGTAGGG
23450066 AACTCAAACC
Statistics
Matches: 340, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
353 340 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.23
Consensus pattern (353 bp):
TAAGTTCTTCAGGACTATGAAAAGAAAAAGGAGTCCACCAAGAGCTATCTAGATGTGAAGTATTC
TCCAAGGTGGACATAATCAGAAAGGCCCTTAGGAAGGTAGGTCAAAGGACCACTTTATAAGTAAA
TGGTGGGAACAAGAAATCCAGCTTGGAGTAGGGATGAAAGAAAGGATGTTAGTAAAGGAATGGTA
GAGTTCGCAAGTATGAGGAGTTAAATTGAAAGAGACCATAAGCTAATGGTATCTACTAAAAAAAT
AAGGAAAAAATAGTAACTAAAATTGGATAGGGTGGAGAACCAAGTCTGGTTCGGTTGGATTAGAA
CCAATCGATCCCTTAGTAGGGGACAAAA
Found at i:23470672 original size:27 final size:26
Alignment explanation
Indices: 23470619--23470676 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
23470609 TTCGTGACAT
* *
23470619 GCAATGTTAGTGTCGCAACATGATGA
1 GCAATGTTAGTGTCACAACAAGATGA
23470645 GGCAATGTTAGTGTCACAACACAG-TGA
1 -GCAATGTTAGTGTCACAACA-AGATGA
23470672 GCAAT
1 GCAAT
23470677 TTTTGACTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.18
27 22 0.79
28 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (26 bp):
GCAATGTTAGTGTCACAACAAGATGA
Found at i:23477900 original size:12 final size:12
Alignment explanation
Indices: 23477883--23477912 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23477873 TTAGGCTATT
23477883 ACACGGCCTAAC
1 ACACGGCCTAAC
*
23477895 ACACGGCCTGAC
1 ACACGGCCTAAC
23477907 ACACGG
1 ACACGG
23477913 GCGTGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:23478246 original size:5 final size:5
Alignment explanation
Indices: 23478236--23478261 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23478226 ATAATATGAA
23478236 TGGTT TGGTT TGGTT TGGTT TGGTT T
1 TGGTT TGGTT TGGTT TGGTT TGGTT T
23478262 TCATATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (5 bp):
TGGTT
Found at i:23493594 original size:27 final size:27
Alignment explanation
Indices: 23493303--23493587 Score: 356
Period size: 27 Copynumber: 10.6 Consensus size: 27
23493293 ATTATTTTAT
* *
23493303 CCTACGGGGGTATTTTGGTCACTT-TAC
1 CCTATGGGGGTATTTCGGTCA-TTCTAC
23493330 CCTATGGGGGTATTTCGGTCATTCTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
* *
23493357 CTTATGGGTGTATTTCGGTCATTCTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
*
23493384 CCTATGGGGGTATTTCGGTCATTTTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
*
23493411 CCTATGGGGGTATTTTGGTCATTCTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
23493438 CCTATGGGGGTATTTCGGTCATTCTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
****
23493465 CCTATAAAAGTATTTCGGTCATTCTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
* * * * *
23493492 CTTATGAGGCTGTTTCGGTCATTCTAT
1 CCTATGGGGGTATTTCGGTCATTCTAC
* * *
23493519 CCTATGAGGGTATTTTGGTCATTTTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
* **
23493546 CTTATGGGGGTCCTTCGGTCATTCTAC
1 CCTATGGGGGTATTTCGGTCATTCTAC
*
23493573 CCTGTGGGGGTATTT
1 CCTATGGGGGTATTT
23493588 TAGTCATAAC
Statistics
Matches: 220, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 218 0.99
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (27 bp):
CCTATGGGGGTATTTCGGTCATTCTAC
Found at i:23494226 original size:12 final size:12
Alignment explanation
Indices: 23494209--23494250 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
23494199 ATCCCAATAT
23494209 TCTCTCCTCAAA
1 TCTCTCCTCAAA
23494221 TCTCT-C-CAAA
1 TCTCTCCTCAAA
23494231 TCTCCCTCCTCAAA
1 TCT--CTCCTCAAA
23494245 TCTCTC
1 TCTCTC
23494251 TATGACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 7 0.27
11 1 0.04
12 10 0.38
13 1 0.04
14 7 0.27
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:23496678 original size:27 final size:27
Alignment explanation
Indices: 23496640--23496712 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
23496630 ACACGATAGC
*
23496640 AATGAATAGCCTTTGTGGCGTACTCTG
1 AATGAATAGCCTTTGTGGCGTACTATG
* *
23496667 AATGAATAGCCTTTATGGCGTTCTATG
1 AATGAATAGCCTTTGTGGCGTACTATG
*
23496694 AATGAATAACCTTTGTGGC
1 AATGAATAGCCTTTGTGGC
23496713 ATATTTTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (27 bp):
AATGAATAGCCTTTGTGGCGTACTATG
Found at i:23496892 original size:14 final size:14
Alignment explanation
Indices: 23496873--23496900 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23496863 GAATTTCTAG
23496873 TAAGTGTTAAATCT
1 TAAGTGTTAAATCT
23496887 TAAGTGTTAAATCT
1 TAAGTGTTAAATCT
23496901 AAAAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TAAGTGTTAAATCT
Found at i:23511102 original size:27 final size:27
Alignment explanation
Indices: 23511064--23511117 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
23511054 ATATTGCTTG
*
23511064 AACAATCATGAATCAAACACAGAACAA
1 AACAATCATGAATCAAAAACAGAACAA
*
23511091 AACAATCATGAATCAAAAATAGAACAA
1 AACAATCATGAATCAAAAACAGAACAA
23511118 GAAACAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.19, G:0.07, T:0.13
Consensus pattern (27 bp):
AACAATCATGAATCAAAAACAGAACAA
Found at i:23513260 original size:20 final size:22
Alignment explanation
Indices: 23513222--23513261 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23513212 AATAATAAAC
*
23513222 AAATATAATTATTTCTTGATTG
1 AAATATAATTATATCTTGATTG
23513244 AAATA-AATTATAT-TTGAT
1 AAATATAATTATATCTTGAT
23513262 ACCAACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (22 bp):
AAATATAATTATATCTTGATTG
Found at i:23520464 original size:18 final size:18
Alignment explanation
Indices: 23520443--23520485 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23520433 ACCCAATCCA
* *
23520443 AACCCTAGTATTCAACCC
1 AACCCAAGTACTCAACCC
*
23520461 AACCCAATTACTCAACCC
1 AACCCAAGTACTCAACCC
23520479 AACCCAA
1 AACCCAA
23520486 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.42, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAAGTACTCAACCC
Found at i:23520607 original size:9 final size:9
Alignment explanation
Indices: 23520593--23520655 Score: 90
Period size: 9 Copynumber: 7.0 Consensus size: 9
23520583 TGATTCAATC
23520593 CGGTTAATT
1 CGGTTAATT
23520602 CGGTTAATT
1 CGGTTAATT
*
23520611 CGGGTAATT
1 CGGTTAATT
23520620 CGGTTAATT
1 CGGTTAATT
* * *
23520629 TGGGTAATC
1 CGGTTAATT
23520638 CGGTTAATT
1 CGGTTAATT
23520647 CGGTTAATT
1 CGGTTAATT
23520656 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.41
Consensus pattern (9 bp):
CGGTTAATT
Found at i:23521116 original size:37 final size:38
Alignment explanation
Indices: 23521042--23521117 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
23521032 CCACCAAATT
* *
23521042 TTTTTTTCCCTTATATGAAATAATGGGTGACCTCCAAA
1 TTTTTTTCCCTTATATGAAATAACGGGTGACCGCCAAA
23521080 TTTTTTTCCCTTATATGAAATAACGGGTGA-CGCCAAA
1 TTTTTTTCCCTTATATGAAATAACGGGTGACCGCCAAA
23521117 T
1 T
23521118 ACATTGGTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 7 0.19
38 29 0.81
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (38 bp):
TTTTTTTCCCTTATATGAAATAACGGGTGACCGCCAAA
Found at i:23523186 original size:132 final size:132
Alignment explanation
Indices: 23522949--23523346 Score: 706
Period size: 132 Copynumber: 3.0 Consensus size: 132
23522939 AAAGAATTAG
*
23522949 ACCACAATTTGACAAAGACTAGTAAAGGTTGGGTTTGGGCAATGGGCCCAATTTTTGATATTTTA
1 ACCACAATTTGACAAAGACTTGTAAAGGTTGGGTTTGGGCAATGGGCCCAATTTTTGATATTTTA
*
23523014 ATAGGGGTAAAGAGCCTGTATTGACCCCATTTTCTCCCATTACCAGTCGACTATTGAACTGCGAA
66 ATAGGGGTAAAGAGCCTGTATCGACCCCATTTTCTCCCATTACCAGTCGACTATTGAACTGCGAA
23523079 GA
131 GA
23523081 ACCACAATTTGACAAAGACTTGTAAAGGTTGGGTTTGGGCAATGGGCCCAATTTTTGATATTTTA
1 ACCACAATTTGACAAAGACTTGTAAAGGTTGGGTTTGGGCAATGGGCCCAATTTTTGATATTTTA
* *
23523146 ATAGGGGTAAAGAGCCCGTATCGACCCCATTTTCTCCCATTACCAGTTGACTATTGAACTGCGAA
66 ATAGGGGTAAAGAGCCTGTATCGACCCCATTTTCTCCCATTACCAGTCGACTATTGAACTGCGAA
23523211 GA
131 GA
* * * *
23523213 ATCATAATTTGACAAAGACTTGTAAAGGTTGGGTTTGCGCAATGGGCCCAATTTTTGATCTTTTA
1 ACCACAATTTGACAAAGACTTGTAAAGGTTGGGTTTGGGCAATGGGCCCAATTTTTGATATTTTA
* *
23523278 ATAGGGGTAAAGAGCCTGTATCGACTCCATTTTCTCCCATTACCAGTCGATTATTGAACTGCGAA
66 ATAGGGGTAAAGAGCCTGTATCGACCCCATTTTCTCCCATTACCAGTCGACTATTGAACTGCGAA
23523343 GA
131 GA
23523345 AC
1 AC
23523347 TTTCTCCATT
Statistics
Matches: 253, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 253 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (132 bp):
ACCACAATTTGACAAAGACTTGTAAAGGTTGGGTTTGGGCAATGGGCCCAATTTTTGATATTTTA
ATAGGGGTAAAGAGCCTGTATCGACCCCATTTTCTCCCATTACCAGTCGACTATTGAACTGCGAA
GA
Found at i:23524064 original size:12 final size:12
Alignment explanation
Indices: 23524047--23524071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23524037 AGAGTTGTTT
23524047 TATGTTGAAAAA
1 TATGTTGAAAAA
23524059 TATGTTGAAAAA
1 TATGTTGAAAAA
23524071 T
1 T
23524072 GTTAAAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (12 bp):
TATGTTGAAAAA
Found at i:23525064 original size:18 final size:18
Alignment explanation
Indices: 23525041--23525079 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
23525031 ATGGCCATGT
23525041 CCCAACCCGTGTCCGTGC
1 CCCAACCCGTGTCCGTGC
*
23525059 CCCAACCCGTGTTCGTGC
1 CCCAACCCGTGTCCGTGC
23525077 CCC
1 CCC
23525080 TGTAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.51, G:0.21, T:0.18
Consensus pattern (18 bp):
CCCAACCCGTGTCCGTGC
Found at i:23530179 original size:50 final size:50
Alignment explanation
Indices: 23530104--23530272 Score: 241
Period size: 50 Copynumber: 3.4 Consensus size: 50
23530094 CATTTGGGTA
*
23530104 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGATGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGATGGCACCGAGAT
* *
23530154 AAGAGGTTCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGATGGCACCGAGAT
* * *
23530204 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-ATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGAT-GGCACCGAGAT
* **
23530254 GAGAACTCCCATGTAAGAC
1 AAGAGGTCCCATGTAAGAC
23530273 TATATCTGGG
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 1 0.01
50 106 0.99
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGATGGCACCGAGAT
Found at i:23530281 original size:50 final size:50
Alignment explanation
Indices: 23530110--23530338 Score: 198
Period size: 50 Copynumber: 4.6 Consensus size: 50
23530100 GGTAAAGAGG
* ** **
23530110 TCCCATGTAAGACCATGTTTGGGACATGGCGAT-GGCACTGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGC-ATGGGCACCAAGATAAGAAC
* * * * * **
23530160 TTCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATAAGAAC
* *
23530210 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATAAGAAC
* * * * * * *
23530260 TCCCATGTAAGACTATATCTGGGATATGACATTGGCTGTA-CAGGA-AA-CA-
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TGG--GCACCAAGATAAGAAC
23530309 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
23530339 TTTGGCATGT
Statistics
Matches: 150, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
49 27 0.18
50 114 0.76
51 4 0.03
52 3 0.02
53 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATAAGAAC
Found at i:23530283 original size:100 final size:99
Alignment explanation
Indices: 23530103--23530338 Score: 255
Period size: 100 Copynumber: 2.4 Consensus size: 99
23530093 ACATTTGGGT
* ** ** *
23530103 AAAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGATGGCACTGAGATAAGAGGTTCCATGT
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGATGGCACCAAGATAAGAACTCCCATGT
* * * * *
23530168 AAGACCATGTTTGGGACATGGCGTTGGC-ACCGAG
66 AAGACCATATCTGGGACATGACATTGGCTACAG-G
* *
23530202 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-ATGGGCACCAATATGAGAACTCCCAT
1 A-AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGAT-GGCACCAAGATAAGAACTCCCAT
* *
23530266 GTAAGACTATATCTGGGATATGACATTGGCTGTACAGG
64 GTAAGACCATATCTGGGACATGACATTGGC--TACAGG
*
23530304 AAACA--TCCCATGTAAGACCATGTCTGGGACATGGC
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
23530339 TTTGGCATGT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
99 33 0.28
100 75 0.65
101 3 0.03
102 2 0.02
103 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (99 bp):
AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGATGGCACCAAGATAAGAACTCCCATGT
AAGACCATATCTGGGACATGACATTGGCTACAGG
Found at i:23537798 original size:50 final size:50
Alignment explanation
Indices: 23537687--23537872 Score: 187
Period size: 50 Copynumber: 3.7 Consensus size: 50
23537677 GGTAAAGAGG
* * * * **
23537687 TCCCATGTAAGACCATGTCTGGGACAGGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
*** * *
23537737 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
* * * ** *
23537787 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
*
23537835 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23537873 TGTTATTATC
Statistics
Matches: 110, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 3 0.03
49 37 0.34
50 70 0.64
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAAC
Found at i:23545170 original size:9 final size:9
Alignment explanation
Indices: 23545156--23545183 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23545146 AACTAGGTAT
23545156 CAAAAGTAC
1 CAAAAGTAC
23545165 CAAAAGTAC
1 CAAAAGTAC
23545174 CAAAAGTAC
1 CAAAAGTAC
23545183 C
1 C
23545184 TCAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.25, G:0.11, T:0.11
Consensus pattern (9 bp):
CAAAAGTAC
Found at i:23551590 original size:23 final size:23
Alignment explanation
Indices: 23551529--23551590 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 23
23551519 TTTAAGGAGG
*
23551529 TATAATGCTCTCCATTTTAATTGATA
1 TATAATGCTCT-C--TTTAAATGATA
23551555 TA-ACA-GCTC-CTTTAAATGATA
1 TATA-ATGCTCTCTTTAAATGATA
23551576 TATAATGCTCTCTTT
1 TATAATGCTCTCTTT
23551591 GTATGTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
21 13 0.42
22 5 0.16
23 5 0.16
25 5 0.16
26 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (23 bp):
TATAATGCTCTCTTTAAATGATA
Found at i:23555869 original size:26 final size:26
Alignment explanation
Indices: 23555787--23555876 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 26
23555777 TTTTAATTCT
* *
23555787 ATTAATTATGTC-CTATTTCGTACAA
1 ATTAATTATGTCTCAATTTCATACAA
* * * * *
23555812 CATTAATACATGTCTTAAGTT-AGACAT
1 -ATTAAT-TATGTCTCAATTTCATACAA
*
23555839 TTTAATTATGTCTCAATTTCATACAA
1 ATTAATTATGTCTCAATTTCATACAA
23555865 ATTAAATTATGT
1 ATT-AATTATGT
23555877 TTTAGTTTGT
Statistics
Matches: 46, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
25 10 0.22
26 17 0.37
27 16 0.35
28 3 0.07
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (26 bp):
ATTAATTATGTCTCAATTTCATACAA
Found at i:23560364 original size:24 final size:24
Alignment explanation
Indices: 23560293--23560364 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
23560283 ACAAGCTGCA
* * *
23560293 CGTTGGGGTCAAGCTACTGAATAA
1 CGTTGTGGTCAAGCCACTGAATAT
23560317 CGTTGTGGTCAAGCCACTGAATAT
1 CGTTGTGGTCAAGCCACTGAATAT
23560341 CGTTGTGGTCAAGCCACTGAATAT
1 CGTTGTGGTCAAGCCACTGAATAT
23560365 TGCAGTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (24 bp):
CGTTGTGGTCAAGCCACTGAATAT
Found at i:23561030 original size:20 final size:20
Alignment explanation
Indices: 23561005--23561044 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23560995 CGAAAAATGA
23561005 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
23561025 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
23561045 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:23567482 original size:40 final size:40
Alignment explanation
Indices: 23567419--23567510 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
23567409 GAAGTGCCCA
* *
23567419 TGTTTGTACTTCGGTACCCTTGAATGCACATCTATG-CCTC
1 TGTTTGTACTTCGATACACTTGAATGCACATCTATGACC-C
* *
23567459 TGTTTGTACTTCGATACATTTGAATGCACATCTGTGACCC
1 TGTTTGTACTTCGATACACTTGAATGCACATCTATGACCC
*
23567499 TATTTGTACTTC
1 TGTTTGTACTTC
23567511 AGTACCCCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (40 bp):
TGTTTGTACTTCGATACACTTGAATGCACATCTATGACCC
Found at i:23567526 original size:40 final size:39
Alignment explanation
Indices: 23567421--23567534 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 39
23567411 AGTGCCCATG
* *
23567421 TTTGTACTTCGGTACCCTTGAATGCACATCTATGCCTCTG
1 TTTGTACTTC-GTACCCTTGAATGCACATCTGTGCCTCTA
**
23567461 TTTGTACTTCGATACATTTGAATGCACATCTGTGACC-CTA
1 TTTGTACTTCG-TACCCTTGAATGCACATCTGTG-CCTCTA
* * *
23567501 TTTGTACTTCAGTACCCCTGTATGCACATATGTG
1 TTTGTACTTC-GTACCCTTGAATGCACATCTGTG
23567535 TCCTTGTTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 58 0.94
41 3 0.05
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (39 bp):
TTTGTACTTCGTACCCTTGAATGCACATCTGTGCCTCTA
Found at i:23567586 original size:40 final size:40
Alignment explanation
Indices: 23567515--23567609 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 40
23567505 TACTTCAGTA
* * * * * *
23567515 CCCCTGTATGCACATATGTGTCCTTGTTTGCAATTCGGTT
1 CCCCTGAATGCACATATGTGCCCCTGGTTGCAATTAGGTG
* * *
23567555 CCCCTGAATGCAGATTTGTGCCCCTGGTTGCACTTAGGTG
1 CCCCTGAATGCACATATGTGCCCCTGGTTGCAATTAGGTG
23567595 CCCCTG-ATCGCACAT
1 CCCCTGAAT-GCACAT
23567610 TCGTGCTTCT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
39 2 0.05
40 42 0.95
ACGTcount: A:0.16, C:0.29, G:0.22, T:0.33
Consensus pattern (40 bp):
CCCCTGAATGCACATATGTGCCCCTGGTTGCAATTAGGTG
Found at i:23567615 original size:20 final size:20
Alignment explanation
Indices: 23567572--23567637 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
23567562 ATGCAGATTT
* * *
23567572 GTGCCCCTGGTTGCACTTAG
1 GTGCCCCTGATCGCACTTCG
23567592 GTGCCCCTGATCGCACATTC-
1 GTGCCCCTGATCGCAC-TTCG
** *
23567612 GTGCTTCTGATTGCACTTCG
1 GTGCCCCTGATCGCACTTCG
23567632 GTGCCC
1 GTGCCC
23567638 TTGTTATGCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.08
20 31 0.86
21 2 0.06
ACGTcount: A:0.11, C:0.33, G:0.26, T:0.30
Consensus pattern (20 bp):
GTGCCCCTGATCGCACTTCG
Found at i:23582423 original size:28 final size:27
Alignment explanation
Indices: 23582353--23582451 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
23582343 CATGACAGCT
* *
23582353 AAGAATAGCCTTTGTGCCAAACTCTGA
1 AAGAATAACCTTTGTGGCAAACTCTGA
*
23582380 AAGAATAGA-CTTTGTGGCAAAGTCTGA
1 AAGAATA-ACCTTTGTGGCAAACTCTGA
* *
23582407 AAGAAATAACCTTTGTGGCTAACTCTAA
1 AAG-AATAACCTTTGTGGCAAACTCTGA
*
23582435 AAGGAAT-GCCTTTGTGG
1 AA-GAATAACCTTTGTGG
23582452 AAAATTTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 36 0.59
28 24 0.39
29 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
AAGAATAACCTTTGTGGCAAACTCTGA
Found at i:23583958 original size:18 final size:18
Alignment explanation
Indices: 23583910--23583949 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
23583900 CTTTCTCTTA
23583910 AACTCACTAAGTTCTTTG
1 AACTCACTAAGTTCTTTG
*
23583928 AACTCACTAAGTTCTTTT
1 AACTCACTAAGTTCTTTG
23583946 AACT
1 AACT
23583950 TACTTAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (18 bp):
AACTCACTAAGTTCTTTG
Found at i:23585219 original size:21 final size:21
Alignment explanation
Indices: 23585195--23585234 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23585185 TTTGCCTAAG
* *
23585195 ATGTGAATTGGATTGAATTGA
1 ATGTAAATTGGATTCAATTGA
*
23585216 ATGTAAATTGTATTCAATT
1 ATGTAAATTGGATTCAATT
23585235 CATGTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGTAAATTGGATTCAATTGA
Found at i:23587684 original size:21 final size:21
Alignment explanation
Indices: 23587660--23587708 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
23587650 TGAAGACGGT
23587660 CTAGAAAGGGCTGAATTCTAG
1 CTAGAAAGGGCTGAATTCTAG
23587681 CTAGAAAGGGCTGAATTCTAG
1 CTAGAAAGGGCTGAATTCTAG
23587702 CTAGAAA
1 CTAGAAA
23587709 ATACTATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (21 bp):
CTAGAAAGGGCTGAATTCTAG
Found at i:23603189 original size:277 final size:279
Alignment explanation
Indices: 23602695--23603251 Score: 1028
Period size: 277 Copynumber: 2.0 Consensus size: 279
23602685 AAGATAGTGA
*
23602695 GATTAATAAGTTGATTGATGATCTCACCAAATCAGATGATGACAAAGATGAGGTGCCAACCAATT
1 GATTAATAAGCTGATTGATGATCTCACCAAATCAGATGATGACAAAGATGAGGTGCCAACCAATT
* *
23602760 CCTTGAAACAGAAGCAGCGTTACAAGCATGCTACTCGCAAAACTACTTGCCCAAACTGAAGTAAC
66 CCTTGAAACAAAAGCAGCATTACAAGCATGCTACTCGCAAAACTACTTGCCCAAACTGAAGTAAC
* *
23602825 ATCACTTTCTTTGCAAGCTTTCATTTTTAATTTCATTTCATCATGCAATCATAAATGTTGTCTGT
131 ATCACTTTCTTTGCAAGCTTTCATTTTTAATTTCATTTCATCATGCAATCATAAATGTTATCTAT
* *
23602890 ACATTTTCTTTCTATATATGCCTTTG-CAAAAAAAAA-ATATGTCTGTTCATACATTGGGGACAA
196 ACATTTTCTTTCTATATATGCCTTTGTAAAAAAAAAATATATGTCTATTCATACATTGGGGACAA
23602953 TGCATCCCCTAGGTTTGGG
261 TGCATCCCCTAGGTTTGGG
23602972 GATTAATAAGCTGATTGATGATCTCACCAAATCAGATGATGACAAAGATGAGGTGCCAACCAATT
1 GATTAATAAGCTGATTGATGATCTCACCAAATCAGATGATGACAAAGATGAGGTGCCAACCAATT
23603037 CCTTGAAACAAAAGCAGCATTACAAGCATGCTACTCGCAAAACTACTTGCCCAAACTGAAGTAAC
66 CCTTGAAACAAAAGCAGCATTACAAGCATGCTACTCGCAAAACTACTTGCCCAAACTGAAGTAAC
23603102 ATCACTTTCTTTGCAAGCTTTCATTTTTAATTTCATTTCATCATGCAATCATAAATGTTATCTAT
131 ATCACTTTCTTTGCAAGCTTTCATTTTTAATTTCATTTCATCATGCAATCATAAATGTTATCTAT
*
23603167 ACATTTTCTTTCTATATATGCCTTTGTAAAAAAAAAATATATGTCTATTCATGCATTGGGGACAA
196 ACATTTTCTTTCTATATATGCCTTTGTAAAAAAAAAATATATGTCTATTCATACATTGGGGACAA
23603232 TGCATCCCCTAGGTTTGGG
261 TGCATCCCCTAGGTTTGGG
23603251 G
1 G
23603252 TGTGTTGAGC
Statistics
Matches: 270, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
277 216 0.80
278 9 0.03
279 45 0.17
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (279 bp):
GATTAATAAGCTGATTGATGATCTCACCAAATCAGATGATGACAAAGATGAGGTGCCAACCAATT
CCTTGAAACAAAAGCAGCATTACAAGCATGCTACTCGCAAAACTACTTGCCCAAACTGAAGTAAC
ATCACTTTCTTTGCAAGCTTTCATTTTTAATTTCATTTCATCATGCAATCATAAATGTTATCTAT
ACATTTTCTTTCTATATATGCCTTTGTAAAAAAAAAATATATGTCTATTCATACATTGGGGACAA
TGCATCCCCTAGGTTTGGG
Found at i:23606551 original size:20 final size:20
Alignment explanation
Indices: 23606526--23606576 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
23606516 AGCTTATGCT
23606526 AAGTAAATGGAATGGAAAGA
1 AAGTAAATGGAATGGAAAGA
* * *
23606546 AAGTAAATGAAATGTAAAGT
1 AAGTAAATGGAATGGAAAGA
23606566 AAGTAAATGGA
1 AAGTAAATGGA
23606577 GTAGTTCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (20 bp):
AAGTAAATGGAATGGAAAGA
Found at i:23606844 original size:17 final size:17
Alignment explanation
Indices: 23606822--23606868 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
23606812 TCAGATTATC
*
23606822 GGAAGCTCGA-CTGGTTT
1 GGAAGCTCGATC-AGTTT
23606839 GGAAGCTCGATCAGTTT
1 GGAAGCTCGATCAGTTT
23606856 GGAAGCTCG-TCAG
1 GGAAGCTCGATCAG
23606869 AGATCTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 4 0.14
17 23 0.82
18 1 0.04
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (17 bp):
GGAAGCTCGATCAGTTT
Found at i:23612766 original size:130 final size:131
Alignment explanation
Indices: 23612545--23612933 Score: 473
Period size: 130 Copynumber: 3.0 Consensus size: 131
23612535 CACTGCAACT
* *
23612545 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGACTCGTCA
1 TCAGGGAGATAAGACTGGTGGCTTAAATCTGCTT-CCTACTACCTCGGGAAGATAAGATTCGTCA
* * * * *
23612610 TCTTTGATCTGC-TCTATTATTTCTTAGGGAGACTGGATATACAAACTTCAACCTACTCCACTAC
65 TC-TTGATCTGCTTCCACTATTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTAC
23612674 TGC
129 TGC
* * * *
23612677 TCAGGGGGATACGACTGGTGGCTTAAATCTGCTTCCT-CTATCTCGGGAAGATAAGATTTGTCAT
1 TCAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCGTCAT
* * * **
23612741 CTTCGATCT-CTTCCACTACTGCTTAGGAAGACAGGATGTACAATCTTCAACCTACTCCACTGTT
66 CTT-GATCTGCTTCCACTATTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACT
23612805 GC
130 GC
* * * * * *
23612807 TCACGGAGATAGGACTGCTGTCTTAAATTTGCTTCCTTACTACCTTGGGAAGATAAGATTCGTCG
1 TCAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCC-TACTACCTCGGGAAGATAAGATTCGTC-
* *
23612872 TATC-TGATCTGCTT-CACAATTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
64 -ATCTTGATCTGCTTCCACTATTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACT
23612934 GCAAACTCAG
Statistics
Matches: 221, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
129 3 0.01
130 105 0.48
131 4 0.02
132 102 0.46
133 4 0.02
134 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (131 bp):
TCAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCGTCAT
CTTGATCTGCTTCCACTATTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACTG
C
Found at i:23613116 original size:89 final size:87
Alignment explanation
Indices: 23612927--23613203 Score: 367
Period size: 89 Copynumber: 3.1 Consensus size: 87
23612917 CTTCAACCTA
* * * * * *
23612927 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCGGTCTGCTTCACTACCAGTACGGAAGA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATAAGGAAGA
*
23612992 CAAGATTTGCTATTTTCAGTCTG
66 CAAGATCTGCTA-TTTCAGTCTG
* * * *
23613015 CTCCACTACAAACTCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGCCAATATAAGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATA-AGGAAG
*
23613080 ATAAGATCTGCTATCTTCAGTCTG
65 ACAAGATCTGCTAT-TTCAGTCTG
* *
23613104 CTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTAC-ATCTGCTTCACTGCTAATACAGGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTT-CGATCTGCTTCACTGCCAATA-AGGAA
23613168 GACAAGATCTGCTATTATCAGTCTG
64 GACAAGATCTGCTATT-TCAGTCTG
23613193 CTCCACTGCAA
1 CTCCACTGCAA
23613204 CTTCAAGGAG
Statistics
Matches: 164, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
88 52 0.32
89 111 0.68
90 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (87 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATAAGGAAGA
CAAGATCTGCTATTTCAGTCTG
Found at i:23613236 original size:89 final size:88
Alignment explanation
Indices: 23612927--23613245 Score: 326
Period size: 89 Copynumber: 3.6 Consensus size: 88
23612917 CTTCAACCTA
* * * * ** * *
23612927 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCGGTCTGCTTCACTACCAGTAC-GGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGTTAGTGTCTTCAATCTGCTTCACTGCCAATACAGGAAG
*
23612991 ACAAGATTTGCTATTTTCAGTCTG
66 ACAAGATCTGCTA-TTTCAGTCTG
* * * * * *
23613015 CTCCACTACAAACTCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGCCAATATAAGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGTTAGTGTCTTCAATCTGCTTCACTGCCAATACAGGAAG
*
23613080 ATAAGATCTGCTATCTTCAGTCTG
66 ACAAGATCTGCTAT-TTCAGTCTG
* * * *
23613104 CTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTT-ACATCTGCTTCACTGCTAATACAGGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGTTAGTGTCTTCA-ATCTGCTTCACTGCCAATACAGGAA
23613168 GACAAGATCTGCTATTATCAGTCTG
65 GACAAGATCTGCTATT-TCAGTCTG
* *
23613193 CTCCACTGC-AACTTCAAGGA-G-ATAGGATTAGTAG-CTTCAATCTGCTCCACTGC
1 CTCCACTGCAAAC-TCAGGGAGGCA-AGG-TTAGT-GTCTTCAATCTGCTTCACTGC
23613246 AACTTCAGGG
Statistics
Matches: 196, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
87 1 0.01
88 59 0.30
89 134 0.68
90 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGTTAGTGTCTTCAATCTGCTTCACTGCCAATACAGGAAG
ACAAGATCTGCTATTTCAGTCTG
Found at i:23613239 original size:44 final size:44
Alignment explanation
Indices: 23613189--23614602 Score: 530
Period size: 44 Copynumber: 31.8 Consensus size: 44
23613179 CTATTATCAG
*
23613189 TCTGCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
23613233 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
**
23613277 TCCACTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
** * * * ** *
23613321 TCCACTCCACTGCAACTTCAGGGGGATAAGATTGGTATTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * *
23613365 CCTACTCCACTGCAACTTCAGGGAGATAAGG-TT--T-GATGT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTAGTAGCT-TCAA
* * * * **
23613406 TCTGCTCTACTGCAACTTTAGAGAGATAAGGTCTTATGATTTATAGCTTTGA
1 TCTGCTCCACTGCAACTTCAGGGAGAT-AGG-ATTA-G-----TAGCTTCAA
* ** * * * * * * *
23613458 TATATTCTACTACCATCTTCAGGGAGA-CGAGATTTGCTATCTTCAG
1 TCTGCTCCACT-GCAACTTCAGGGAGATAG-GATTAG-TAGCTTCAA
* * *
23613504 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTT--CA-CTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAA
* * * * * * * *
23613546 TCAGCTCTACTTCAACTTCAAGGATATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * * *
23613590 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT--CAT-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * * * * * *
23613631 TCTACTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTA-TAGTTTTAA
1 TCTGCTCCACTGCAACTTCAG-G-G---AGAT-AG-GA-TTAGTAGCTTCAA
* * * * * * * * * *
23613682 TTTGTTTCACTAG-AGCTTCAAGAAAAT-GAGATTCGCTATCTTCAG
1 TCTGCTCCACT-GCAACTTCAGGGAGATAG-GATTAG-TAGCTTCAA
* * * * * *
23613727 TCTGCCCCACTACAACTTTAGCGGA-ATAAGACTT-GTAACTTTAA
1 TCTGCTCCACTGCAACTTCAG-GGAGATAGGA-TTAGTAGCTTCAA
* * * * * *
23613771 TCCGCTCCACTTCAACCTCAGGGAGATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * * * * * *
23613815 TATGCTCCAGTACAACTTCAGGGAGATAGGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAA
* * * ** *
23613860 TTTG-TCCCACTGCAACTTCAGGGGGATAAGACTT-GCTTTCTTCAG
1 TCTGCT-CCACTGCAACTTCAGGGAGATAGGA-TTAG-TAGCTTCAA
* * * * *
23613905 TCTACTCCACTACAACTTCAGGGAGATAAGACTT-GTAACTT-TA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAA
* * * * *
23613948 TTTCGCTCCACTGCAATTTCAGGGAGATAGGATTTGTAACTTTAA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * * * *
23613993 TCTTCTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * * * * * * *
23614037 TATGCTCTAGTACAACTTCAGGGAGATAGGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAA
* * * ** *
23614082 TTTG-TCCCACTGCAACTTCAGGGGGATAAGACTT-GCTTTCTTCAG
1 TCTGCT-CCACTGCAACTTCAGGGAGATAGGA-TTAG-TAGCTTCAA
* * * * *
23614127 TCTACTCCACTACAACTTCAGGGAGATAAGACTT-GTAACTT-TA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAA
* * * * * *
23614170 TTTCGCTCCACTGCAATTTTAGGGAGATAGGATTTGTAACTTTAA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * * * * *
23614215 TCTTCTCCACTGCAACTTCAAGGAGATAGAATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* ** * * * *
23614259 TCTGTTCCACTGCAACTTCAGGGAGATAATATTCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAA
* * * * * * ** *
23614304 TCTTCCCCACTGTAACATCAGGGGGATAAGACTT-GTTTTCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAG-TAGCTTCAA
* * * * *
23614349 TCTGCTCCAATACAACTTTAGGGAGATA-GACTT-GTAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAA
* * * * *
23614392 TCCGCTCCACTGCAAGTTCAGGGAGATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * * * * * *
23614436 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAA
* * * * ** * *
23614481 TATGCCCCACTACAACTTCAGGG-GAATAAGACTT-GCTTTCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAG-ATAGGA-TTAG-TAGCTTCAA
* * ** * * * *
23614526 TCTACTCCAGTAAAACTTCAGGGAGATAGGACTGGTAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
* * *
23614570 TCCGTTCCACTGCAACCTCAGGGAGATAGGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATT
23614603 TGTGGTTTCA
Statistics
Matches: 1026, Mismatches: 280, Indels: 128
0.72 0.20 0.09
Matches are distributed among these distances:
41 49 0.05
42 34 0.03
43 49 0.05
44 516 0.50
45 294 0.29
46 36 0.04
48 3 0.00
49 2 0.00
50 3 0.00
51 17 0.02
52 12 0.01
53 11 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAA
Found at i:23613600 original size:225 final size:224
Alignment explanation
Indices: 23613360--23613850 Score: 605
Period size: 225 Copynumber: 2.2 Consensus size: 224
23613350 GATTGGTATT
* * * * *
23613360 TTTAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTG-ATGTAATCTGCTCTACTGCAACTT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCATG--ATCTACTCTACTACAACTT
* * * * * *
23613424 TAGAGAGATAAGGTCTTATGATTTATAGCTTTGATATA-TTCTACTACCATCTTCAGGGAGACGA
64 TAGAGAGATAAGATC-TATGATTTATAGCTTTAATATATTTC-ACTA-CAGCTTCAAGAAAACGA
* * * *
23613488 GATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAG-GGAGATAAGAC-T-TCACTTCAATCAG
126 GATTCGCTATCTTCAGTCTGCCCCACTACAACTTTAGCGGA-ATAAGACTTGTAACTTCAATCAG
* * *
23613550 CTCTACTTCAACTTCAAGGATATAGGATTATTGGC
190 CTCCACTTCAACCTCAAGGAGATAGGATTATTGGC
23613585 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATGATCTACTCTACTACAACTTT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CATGATCTACTCTACTACAACTTT
* * * * * *
23613650 AGAGAGATAAGATCTGTGATTTATAGTTTTAATTTGTTTCACTAGAGCTTCAAGAAAATGAGATT
65 AGAGAGATAAGATCTATGATTTATAGCTTTAATATATTTCACTACAGCTTCAAGAAAACGAGATT
* *
23613715 CGCTATCTTCAGTCTGCCCCACTACAACTTTAGCGGAATAAGACTTGTAACTTTAATCCGCTCCA
130 CGCTATCTTCAGTCTGCCCCACTACAACTTTAGCGGAATAAGACTTGTAACTTCAATCAGCTCCA
*
23613780 CTTCAACCTCAGGGAGATAGGATTATTGGC
195 CTTCAACCTCAAGGAGATAGGATTATTGGC
* * * *
23613810 TTTAATATGCTCCAGTACAACTTCAGGGAGATAGGATTTGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
23613851 CATCTTCAGT
Statistics
Matches: 229, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
223 52 0.23
224 26 0.11
225 148 0.65
227 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (224 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCATGATCTACTCTACTACAACTTTA
GAGAGATAAGATCTATGATTTATAGCTTTAATATATTTCACTACAGCTTCAAGAAAACGAGATTC
GCTATCTTCAGTCTGCCCCACTACAACTTTAGCGGAATAAGACTTGTAACTTCAATCAGCTCCAC
TTCAACCTCAAGGAGATAGGATTATTGGC
Found at i:23614026 original size:222 final size:222
Alignment explanation
Indices: 23613759--23614468 Score: 1102
Period size: 222 Copynumber: 3.2 Consensus size: 222
23613749 GGAATAAGAC
* *
23613759 TTGTAACTTTAATCCGCTCCACTTCAACCTCAGGGAGATAGGATTATTGGCTTTAATATGCTCCA
1 TTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATATGCTCCA
23613824 GTACAACTTCAGGGAGATAGGATTTGCCATCTTCAGTTTGTCCCACTGCAACTTCAGGGGGATAA
66 GTACAACTTCAGGGAGATAGGATTTGCCATCTTCAGTTTGTCCCACTGCAACTTCAGGGGGATAA
23613889 GACTTGCTTTCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTATTTCGC
131 GACTTGCTTTCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTATTTCGC
23613954 TCCACTGCAATTTCAGGGAGATAGGAT
196 TCCACTGCAATTTCAGGGAGATAGGAT
* *
23613981 TTGTAACTTTAATCTTCTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATATGCTCTA
1 TTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATATGCTCCA
23614046 GTACAACTTCAGGGAGATAGGATTTGCCATCTTCAGTTTGTCCCACTGCAACTTCAGGGGGATAA
66 GTACAACTTCAGGGAGATAGGATTTGCCATCTTCAGTTTGTCCCACTGCAACTTCAGGGGGATAA
23614111 GACTTGCTTTCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTATTTCGC
131 GACTTGCTTTCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTATTTCGC
*
23614176 TCCACTGCAATTTTAGGGAGATAGGAT
196 TCCACTGCAATTTCAGGGAGATAGGAT
* * * * * *
23614203 TTGTAACTTTAATCTTCTCCACTGCAACTTCAAGGAGATAGAATTATTGGCTTTAATCTGTTCCA
1 TTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATATGCTCCA
* * ** * * * *
23614268 CTGCAACTTCAGGGAGATAATATTCGCCATCTTCAGTCTT-CCCCACTGTAACATCAGGGGGATA
66 GTACAACTTCAGGGAGATAGGATTTGCCATCTTCAGT-TTGTCCCACTGCAACTTCAGGGGGATA
* * * * * *
23614332 AGACTTGTTTTCTTCAGTCTGCTCCAATACAACTTTAGGGAGAT-AGACTTGTAACTTTAATCCG
130 AGACTTGCTTTCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTATTTCG
*
23614396 CTCCACTGCAAGTTCAGGGAGATAGGAT
195 CTCCACTGCAATTTCAGGGAGATAGGAT
** * * *
23614424 TAT-TGGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
1 T-TGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAGATAGGATT
23614469 TGCCATCTTT
Statistics
Matches: 452, Mismatches: 34, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
221 80 0.18
222 370 0.82
223 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (222 bp):
TTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATATGCTCCA
GTACAACTTCAGGGAGATAGGATTTGCCATCTTCAGTTTGTCCCACTGCAACTTCAGGGGGATAA
GACTTGCTTTCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTATTTCGC
TCCACTGCAATTTCAGGGAGATAGGAT
Found at i:23614386 original size:177 final size:176
Alignment explanation
Indices: 23614088--23614598 Score: 623
Period size: 177 Copynumber: 2.9 Consensus size: 176
23614078 TCAGTTTGTC
* ** * *
23614088 CCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTACTCCACTACAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGAGATAAGA-TTGCCATCTTCAGTCTACCCCACTACAACTTCAGGGGGA
** * * * * *
23614153 TAAGACTTGTAACTTTA-TTTCGCTCCACTGCAATTTTAGGGAGATAGGATTTGTAACTTTAATC
65 TAAGACTTGTTTCTTTAGTCT-GCTCCAATACAACTTTAGGGAGATAGGACTTGTAACTTTAATC
* * *
23614217 TTCTCCACTGCAACTTCAAGGAGATAGAATTATTGGCTTTAATCTGTT
129 CTCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCT
* * ** *
23614265 CCACTGCAACTTCAGGGAGATAATATTCGCCATCTTCAGTCTTCCCCACTGTAACATCAGGGGGA
1 CCACTGCAACTTCAGGGAGATAAGATT-GCCATCTTCAGTCTACCCCACTACAACTTCAGGGGGA
*
23614330 TAAGACTTGTTTTCTTCAGTCTGCTCCAATACAACTTTAGGGAGATA-GACTTGTAACTTTAATC
65 TAAGACTTG-TTTCTTTAGTCTGCTCCAATACAACTTTAGGGAGATAGGACTTGTAACTTTAATC
* * *
23614394 CGCTCCACTGCAAGTTCAGGGAGATAGGATTATTGGCTTTAATCTGCT
129 CTCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCT
* * * * *
23614442 CTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTATGCCCCACTACAACTTCAGGGGAA
1 CCACTGCAACTTCAGGGAGATAAGA-TTGCCATCTTCAGTCTACCCCACTACAACTTCAGGGGGA
* * * * *
23614507 TAAGACTTGCTTTCTTTAGTCTACTCCAGTAAAACTTCAGGGAGATAGGACTGGTAACTTTAATC
65 TAAGACTTG-TTTCTTTAGTCTGCTCCAATACAACTTTAGGGAGATAGGACTTGTAACTTTAATC
*
23614572 CGT-TCCACTGCAACCTCAGGGAGATAG
129 C-TCTCCACTGCAACTTCAGGGAGATAG
23614599 GATTTGTGGT
Statistics
Matches: 285, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
176 2 0.01
177 213 0.75
178 68 0.24
179 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (176 bp):
CCACTGCAACTTCAGGGAGATAAGATTGCCATCTTCAGTCTACCCCACTACAACTTCAGGGGGAT
AAGACTTGTTTCTTTAGTCTGCTCCAATACAACTTTAGGGAGATAGGACTTGTAACTTTAATCCT
CTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCT
Found at i:23614915 original size:24 final size:24
Alignment explanation
Indices: 23614879--23614934 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
23614869 CAGATTGCCC
23614879 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
23614903 CCATTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
23614927 CCACTGTA
1 CCACTGTA
23614935 CTTTTGGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:23624677 original size:18 final size:18
Alignment explanation
Indices: 23624656--23624691 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23624646 ATATTAAGAA
23624656 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
23624674 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
23624692 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:23624808 original size:15 final size:15
Alignment explanation
Indices: 23624788--23624939 Score: 61
Period size: 15 Copynumber: 10.1 Consensus size: 15
23624778 TTATTAAATT
23624788 ATATATTTAATTATA
1 ATATATTTAATTATA
*
23624803 ATATATTTAATAATA
1 ATATATTTAATTATA
23624818 AT-TATGTTAATT-T-
1 ATATAT-TTAATTATA
* *
23624831 ATAT-TTTATAGTATC
1 ATATATTTA-ATTATA
*
23624846 ATATATTATGATT-TGA
1 ATATATT-TAATTAT-A
* *
23624862 GTA-AATTAA-TATA
1 ATATATTTAATTATA
* *
23624875 AGA-ATATTGATTATTA
1 ATATAT-TTAATTA-TA
* *
23624891 ATA-ATTTTATTAAATT
1 ATATATTTAATT--ATA
23624907 ATATATTTTAATTATA
1 ATATA-TTTAATTATA
*
23624923 ATATATTTAATAATA
1 ATATATTTAATTATA
23624938 AT
1 AT
23624940 TATGTTTAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
12 3 0.03
13 9 0.09
14 12 0.12
15 46 0.45
16 23 0.23
17 3 0.03
18 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:23624848 original size:119 final size:119
Alignment explanation
Indices: 23624624--23624950 Score: 548
Period size: 119 Copynumber: 2.7 Consensus size: 119
23624614 GGTATTTTAT
* * * * *
23624624 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTA-AATTAT
1 TAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATA-TATTTAATTATAA-TAT
23624688 ATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
64 ATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
23624744 TAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTAATTATAATATAT
1 TAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTAATTATAATATAT
*
23624809 TTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
*
23624863 TAAATTAATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATA-TTTAATTATAATATA
23624928 TTTAATAATAATTATGTTTAAAT
65 TTTAATAATAATTATG-TTAAAT
23624951 ATGATTAAAT
Statistics
Matches: 196, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
119 114 0.58
120 77 0.39
121 5 0.03
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (119 bp):
TAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATTTAATTATAATATAT
TTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:23624928 original size:16 final size:16
Alignment explanation
Indices: 23624889--23624948 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
23624879 TATTGATTAT
*
23624889 TAATA-ATTTTATTAAA
1 TAATATATTTTAAT-AA
* *
23624905 TTATATATTTTAATTA
1 TAATATATTTTAATAA
23624921 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
23624936 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
23624949 ATATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 16 0.44
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:23625117 original size:39 final size:43
Alignment explanation
Indices: 23625074--23625182 Score: 136
Period size: 45 Copynumber: 2.6 Consensus size: 43
23625064 TTTTCCATTA
*
23625074 TGCTATTACACCTCTATTCCATT-CAACCAA-AAACAA-GA-T
1 TGCTATTACGCCTCTATTCCATTACAACCAACAAACAATGATT
* **
23625113 TGCTATTACGCCTTTATTCCATTACATTCAACCAAACAATTGATT
1 TGCTATTACGCCTCTATTCCATTACAACCAA-CAAACAA-TGATT
23625158 TGCTATTACGCCTCTATTCCATTAC
1 TGCTATTACGCCTCTATTCCATTAC
23625183 GCCTCTATTC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 21 0.36
40 5 0.08
42 6 0.10
44 2 0.03
45 25 0.42
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (43 bp):
TGCTATTACGCCTCTATTCCATTACAACCAACAAACAATGATT
Found at i:23625183 original size:16 final size:16
Alignment explanation
Indices: 23625162--23625194 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23625152 TTGATTTGCT
23625162 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
23625178 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
23625194 A
1 A
23625195 ATACAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23627220 original size:51 final size:50
Alignment explanation
Indices: 23627158--23627348 Score: 222
Period size: 51 Copynumber: 3.8 Consensus size: 50
23627148 ATGTTCGGTT
*
23627158 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATA
* * * * * * *
23627209 CACGTAGTAGCCTCCACATAGTACTACATACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGATA
* * * *
23627260 CACATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATA
* *
23627310 CATATAGTAGCCTGCAGATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
23627349 CACTTTCAAT
Statistics
Matches: 113, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 70 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATA
Found at i:23627343 original size:101 final size:101
Alignment explanation
Indices: 23627153--23627344 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 101
23627143 CAATGATGTT
* * *
23627153 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTA
*
23627218 GCCTCCACATAGTACTACATACGTGATCGAAACTATC
65 GCCTCCACATAGTACTACACACGTGATCGAAACTATC
* * *
23627255 CGGTACACATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGATACATATAGTA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTA
* *
23627319 GCCTGCAGATAGTACTACACACGTGA
65 GCCTCCACATAGTACTACACACGTGA
23627345 CCATCACTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.46
102 39 0.49
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAG
CCTCCACATAGTACTACACACGTGATCGAAACTATC
Found at i:23627368 original size:101 final size:101
Alignment explanation
Indices: 23627158--23627344 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 101
23627148 ATGTTCGGTT
* *
23627158 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTC
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTAGCCTC
* * **
23627223 CACATAGTACTACATACGTGATCGAAACTATCCGGTA
65 CACATAGTACTACACACGTGATCCAAACTATCAAGTA
* * * *
23627260 CACATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGATACATATAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTAGCCTC
*
23627324 CAGATAGTACTACACACGTGA
65 CACATAGTACTACACACGTGA
23627345 CCATCACTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 35 0.46
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAGCCTCC
ACATAGTACTACACACGTGATCCAAACTATCAAGTA
Found at i:23634687 original size:29 final size:30
Alignment explanation
Indices: 23634634--23634697 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
23634624 GAAAAACTGC
* *
23634634 TCTCTAATTCCTCTCTCCCTAAAATCCTCA
1 TCTCCAATTCCTCTCACCCTAAAATCCTCA
*
23634664 TCTCCAATTCTTCTCACCC-AAAATCCTCA
1 TCTCCAATTCCTCTCACCCTAAAATCCTCA
23634693 TCTCC
1 TCTCC
23634698 TTACATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.34
Consensus pattern (30 bp):
TCTCCAATTCCTCTCACCCTAAAATCCTCA
Found at i:23639329 original size:323 final size:323
Alignment explanation
Indices: 23638741--23639389 Score: 1226
Period size: 323 Copynumber: 2.0 Consensus size: 323
23638731 AATCTTTCTT
*
23638741 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCGGAA
1 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
23638806 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
66 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
*
23638871 CATCTAGCCACAAAATCTGTAACTTTTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
131 CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
23638936 TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
196 TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
* *
23639001 ACTGCCTCAATTCTGAATCATTGGGCACACATATCCTGCCTCAGAAACACAACACACCCTCAG
261 ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACACCCTCAG
23639064 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
1 AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
*
23639129 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAGG
66 TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
*
23639194 CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGTAGATC
131 CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
*
23639259 TCAATACATCTTATTTCCGGCAGGGTGCATAGGATAAAGGCTACTATGCGCCTCTCTTAAAATAG
196 TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
*
23639324 ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACATCCTCAG
261 ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACACCCTCAG
23639387 AGT
1 AGT
23639390 TCAACCCAAA
Statistics
Matches: 318, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
323 318 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (323 bp):
AGTGGGTGTTAAAGGCAACCTACTAACGAAATCCATCGTTACTCGCTCCCACTTCCATAGCAGAA
TCTTAACCGGCTGCAGCAATCCCAAAGACAACTGATGCTCGGCCTTAACCTACTTGCAAGTCAAG
CATCTAGCCACAAAATCTGTAACTTCTCGCTTCAACCCTGGCCACCAATACAACTCTCGAAGATC
TCAATACATCTTATTTCCGGCAGGGTGCATAGCATAAAGGCTACTATGCGCCTCTCTTAAAATAG
ACTGCCTCAAGTCTGAATCATTGGGCACACATATCCTACCTCAGAAACACAACACACCCTCAG
Found at i:23642612 original size:26 final size:26
Alignment explanation
Indices: 23642583--23642644 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
23642573 TACCTACAGT
**
23642583 AGTTTCAAAATATCCTAACATATATC
1 AGTTTCAAAATATAATAACATATATC
* * * *
23642609 AGTTTTAGAATATAATAACTTGTATC
1 AGTTTCAAAATATAATAACATATATC
23642635 AGTTTCAAAA
1 AGTTTCAAAA
23642645 CACTTACAGA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (26 bp):
AGTTTCAAAATATAATAACATATATC
Found at i:23654766 original size:48 final size:48
Alignment explanation
Indices: 23654656--23654878 Score: 214
Period size: 48 Copynumber: 4.8 Consensus size: 48
23654646 TCACCCACCA
* *
23654656 AACACAACC-AATTTACCCTCGAAACACAACCA-AT-T-T-ACCATCCG
1 AACACAACCAAATATACCCTCCAAACACAACCATATATATAACC-TCCG
*
23654700 AACACAACCAAATGTACCCTCCAAACACAACCATATATATAACCTCCG
1 AACACAACCAAATATACCCTCCAAACACAACCATATATATAACCTCCG
* * ** * *
23654748 AACAGAACCAAGTATACCCTTTAAACACAAACA-AT-T-TACCCTCCG
1 AACACAACCAAATATACCCTCCAAACACAACCATATATATAACCTCCG
* * * * * *
23654793 AACATAACCAAATGTA-CCTGCAAAACACCATCATATATATAACCTCTG
1 AACACAACCAAATATACCCT-CCAAACACAACCATATATATAACCTCCG
*
23654841 AACACAACCAAGTATACCCTCCAAACACAACCAT-TATA
1 AACACAACCAAATATACCCTCCAAACACAACCATATATA
23654879 CCATTTAACA
Statistics
Matches: 145, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.08
45 51 0.35
46 5 0.03
47 8 0.06
48 63 0.43
49 6 0.04
ACGTcount: A:0.43, C:0.33, G:0.05, T:0.19
Consensus pattern (48 bp):
AACACAACCAAATATACCCTCCAAACACAACCATATATATAACCTCCG
Found at i:23654783 original size:93 final size:93
Alignment explanation
Indices: 23654656--23654870 Score: 299
Period size: 93 Copynumber: 2.3 Consensus size: 93
23654646 TCACCCACCA
* * *
23654656 AACACAACCAA-TTTACCCTCGAAACACAACCAATTTACCATCCGAACACAACCAAATGTACCCT
1 AACACAACCAAGTATACCCTCCAAACACAAACAATTTACCATCCGAACACAACCAAATGTA-CCT
*
23654720 -CCAAACACAACCATATATATAACCTCCG
65 GCAAAACACAACCATATATATAACCTCCG
* ** * *
23654748 AACAGAACCAAGTATACCCTTTAAACACAAACAATTTACCCTCCGAACATAACCAAATGTACCTG
1 AACACAACCAAGTATACCCTCCAAACACAAACAATTTACCATCCGAACACAACCAAATGTACCTG
* * *
23654813 CAAAACACCATCATATATATAACCTCTG
66 CAAAACACAACCATATATATAACCTCCG
23654841 AACACAACCAAGTATACCCTCCAAACACAA
1 AACACAACCAAGTATACCCTCCAAACACAA
23654871 CCATTATACC
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
92 13 0.12
93 94 0.88
ACGTcount: A:0.44, C:0.33, G:0.05, T:0.18
Consensus pattern (93 bp):
AACACAACCAAGTATACCCTCCAAACACAAACAATTTACCATCCGAACACAACCAAATGTACCTG
CAAAACACAACCATATATATAACCTCCG
Found at i:23654856 original size:23 final size:23
Alignment explanation
Indices: 23654829--23654873 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
23654819 ACCATCATAT
* *
23654829 ATATAACCTCTGAACACAACCAA
1 ATATACCCTCCGAACACAACCAA
* *
23654852 GTATACCCTCCAAACACAACCA
1 ATATACCCTCCGAACACAACCA
23654874 TTATACCATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.36, G:0.04, T:0.16
Consensus pattern (23 bp):
ATATACCCTCCGAACACAACCAA
Found at i:23659941 original size:41 final size:40
Alignment explanation
Indices: 23659887--23660154 Score: 260
Period size: 41 Copynumber: 6.7 Consensus size: 40
23659877 TGACCTTTCG
*
23659887 GGGCTTTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
23659927 GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGG-CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* **
23659968 GGGGCTTTAGCGGTGTTTTTGAATTAGCG--GC--AT-CT-
1 -GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
** ** * * *
23660003 TTGAATTAGCGGCGTTTTTGGAAAGGCGCCGCTGATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * * *
23660043 AGGGCTTTAGTGGCGTTTTTGAAAAGGCACCACTGATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * **
23660084 AAGGCTTTAGCGGCGTTTTTGAAAAGGCATCGCTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
23660125 GGGACTTTAGCGGCGTTATTGAAAAAGCGC
1 GGG-CTTTAGCGGCGTTTTTGAAAAAGCGC
23660155 TGCAAAAATA
Statistics
Matches: 187, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
34 19 0.10
36 4 0.02
37 2 0.01
38 2 0.01
39 4 0.02
40 5 0.03
41 148 0.79
42 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:23659996 original size:17 final size:17
Alignment explanation
Indices: 23659974--23660022 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
23659964 GCTCGGGGCT
*
23659974 TTAGCGGTGTTTTTGAA
1 TTAGCGGCGTTTTTGAA
* *
23659991 TTAGCGGCATCTTTGAA
1 TTAGCGGCGTTTTTGAA
23660008 TTAGCGGCGTTTTTG
1 TTAGCGGCGTTTTTG
23660023 GAAAGGCGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.16, C:0.12, G:0.29, T:0.43
Consensus pattern (17 bp):
TTAGCGGCGTTTTTGAA
Found at i:23660032 original size:116 final size:116
Alignment explanation
Indices: 23659892--23660106 Score: 306
Period size: 116 Copynumber: 1.9 Consensus size: 116
23659882 TTTCGGGGCT
*
23659892 TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTC-GGGTCTTTAGCGGCGTTTTTGAAAAAGCG
1 TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTCAGGG-CTTTAGCGGCGTTTTTGAAAAAGCA
* ** *
23659956 CCGCTAATGCTCGGGGCTTTAGCGGTGTTTTTGAATTAGCGGCATCTTTGAA
65 CCACTAATGCTCAAGGCTTTAGCGGCGTTTTTGAATTAGCGGCATCTTTGAA
* * * * * *
23660008 TTAGCGGCGTTTTTGGAAAGGCGCCGCTGATGCTCAGGGCTTTAGTGGCGTTTTTGAAAAGGCAC
1 TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCAC
*
23660073 CACTGATGCTCAAGGCTTTAGCGGCGTTTTTGAA
66 CACTAATGCTCAAGGCTTTAGCGGCGTTTTTGAA
23660107 AAGGCATCGC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
116 83 0.97
117 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (116 bp):
TTAGCGGCGATTTTGAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCAC
CACTAATGCTCAAGGCTTTAGCGGCGTTTTTGAATTAGCGGCATCTTTGAA
Done.