Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 231 of 290
Found at i:75290409 original size:237 final size:237
Alignment explanation
Indices: 75290030--75290456 Score: 604
Period size: 237 Copynumber: 1.8 Consensus size: 237
75290020 AAAATTCTCA
* * ** * * *
75290030 TGTTTACTGTCTCAGTGGACTAACCTAGTTGTTATAGTCCAACCATGTTCTTACACAGTATATTC
1 TGTTTACTGTCCCAGTGAACTAACCTAGTTGCCATAGTCCAACCATGGTATTACACAGTAAATTC
* * * * ** * *
75290095 CCCGTGTTTACTGTCCTGGCAGACTATTTTGGTTGTCATAGTCTAACCATGGTCTTACACCGTAT
66 CCCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTCTTACACCGTAT
* *
75290160 ATTCCTTGTGTTTACTGTCCCGGTGAACTATCAT-GATTGCCATAGTCCAACCATGGTCTTTCCT
131 ATTCCCTGTGTTTACTGTCCCGATGAACTATCATAG-TTGCCATAGTCCAACCATGGTCTTTCCT
75290224 AGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCG
195 AGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCG
* * * * *
75290267 TGTTTACTGTCCCGGTGAACTATCCTAGTTGCCATAGTCCAACCCTGGTATTATACTGTAAATTC
1 TGTTTACTGTCCCAGTGAACTAACCTAGTTGCCATAGTCCAACCATGGTATTACACAGTAAATTC
* *
75290332 CTCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTTTTACACCGTAT
66 CCCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTCTTACACCGTAT
* *
75290397 ATTCCCTGTGTTTACTGTCTCGATGAACTATCCTAGTTGCCATAGTCCAACCATGGTCTT
131 ATTCCCTGTGTTTACTGTCCCGATGAACTATCATAGTTGCCATAGTCCAACCATGGTCTT
75290457 ACACCGTATA
Statistics
Matches: 163, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
237 162 0.99
238 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (237 bp):
TGTTTACTGTCCCAGTGAACTAACCTAGTTGCCATAGTCCAACCATGGTATTACACAGTAAATTC
CCCATGTTTACTATCATAGCAGACTATCCTGGTTGCCATAGTCCAACCATGGTCTTACACCGTAT
ATTCCCTGTGTTTACTGTCCCGATGAACTATCATAGTTGCCATAGTCCAACCATGGTCTTTCCTA
GTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCG
Found at i:75290478 original size:138 final size:138
Alignment explanation
Indices: 75290220--75290481 Score: 373
Period size: 138 Copynumber: 1.9 Consensus size: 138
75290210 CCATGGTCTT
*
75290220 TCCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGGTGA
1 TCCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGATGA
* * * *
75290285 ACTATCCTAGTTGCCATAGTCCAACCCTGGTATTATACTGTAAATTCCTCATGTTTACTATCATA
66 ACTATCCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCCCATGTTTACTATCATA
75290350 GCAGACTA
131 GCAGACTA
* ** * * * *
75290358 TCCTGGTTGCCATAGTCCAACCATGGTTTTACACCGTATATTC-CCTGTGTTTACTGTCTCGATG
1 TCCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATC-GTGTTTACTGTCCCGATG
* * *
75290422 AACTATCCTAGTTGCCATAGTCCAACCATGGTCTTACACCGTATATTCCCCGTGTTTACT
65 AACTATCCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCCCATGTTTACT
75290482 CGGAGCTTCG
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
137 1 0.01
138 107 0.99
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (138 bp):
TCCTAGTTGCCATAGTCCAACCATAATCTTACACAGTATATTCATCGTGTTTACTGTCCCGATGA
ACTATCCTAGTTGCCATAGTCCAACCATGGTATTACACCGTAAATTCCCCATGTTTACTATCATA
GCAGACTA
Found at i:75290951 original size:96 final size:96
Alignment explanation
Indices: 75290786--75290977 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
75290776 GATTCATAGT
75290786 CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
1 CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
*
75290851 AGAAACTCACCTGACACTTCTTTGCCTCCTC
66 AGAAACTCACCTGACACTTATTTGCCTCCTC
* *
75290882 CAATTTATGCATATTGAACTAGAGTGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGT
1 CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
75290947 AGAAACTCACCTGACACTTATTTGCCTCCTC
66 AGAAACTCACCTGACACTTATTTGCCTCCTC
75290978 ATTCGCTTAA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (96 bp):
CAATTTATGCATATTGAACTAGAATGGCAGATTCTCATATACTTATTATCTCAGGGGTGGAGTGC
AGAAACTCACCTGACACTTATTTGCCTCCTC
Found at i:75293021 original size:30 final size:30
Alignment explanation
Indices: 75292941--75293010 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
75292931 TAAAGTCAGT
*
75292941 TACATAATATAAATAGTAATAAACATGACA
1 TACATAATATAAATAGTAATAAACATAACA
* *
75292971 TAAATAATATAAACAGTAATAAACATAACA
1 TACATAATATAAATAGTAATAAACATAACA
75293001 TACATAATAT
1 TACATAATAT
75293011 CTATACTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.27
Consensus pattern (30 bp):
TACATAATATAAATAGTAATAAACATAACA
Found at i:75293045 original size:13 final size:13
Alignment explanation
Indices: 75292998--75293081 Score: 73
Period size: 13 Copynumber: 6.3 Consensus size: 13
75292988 AATAAACATA
75292998 ACATACATAATAT
1 ACATACATAATAT
75293011 -CTATAC-TAATAT
1 AC-ATACATAATAT
**
75293023 ACATGTATAATAT
1 ACATACATAATAT
*
75293036 ACATACATAAACATT
1 ACATACAT-AATA-T
*
75293051 AATATACATAATAT
1 -ACATACATAATAT
*
75293065 ACATACATAATAG
1 ACATACATAATAT
75293078 ACAT
1 ACAT
75293082 CCTAGTATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
12 9 0.16
13 32 0.57
14 4 0.07
15 4 0.07
16 7 0.12
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.32
Consensus pattern (13 bp):
ACATACATAATAT
Found at i:75293081 original size:9 final size:9
Alignment explanation
Indices: 75293029--75293069 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
75293019 ATATACATGT
75293029 ATAATATAC
1 ATAATATAC
*
75293038 ATACATAAAC
1 ATA-ATATAC
75293048 ATTAATATAC
1 A-TAATATAC
75293058 ATAATATAC
1 ATAATATAC
75293067 ATA
1 ATA
75293070 CATAATAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 14 0.50
10 12 0.43
11 2 0.07
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (9 bp):
ATAATATAC
Found at i:75295349 original size:16 final size:16
Alignment explanation
Indices: 75295316--75295349 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
75295306 TGTTTTTGTT
* *
75295316 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
75295332 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
75295348 AA
1 AA
75295350 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:75298173 original size:21 final size:21
Alignment explanation
Indices: 75298147--75298187 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75298137 AGACGAGCAA
* *
75298147 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
75298168 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
75298188 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:75301550 original size:19 final size:19
Alignment explanation
Indices: 75301515--75301552 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
75301505 AGTTCTTTTT
75301515 TATTATTTTTTTCAATTTA
1 TATTATTTTTTTCAATTTA
*
75301534 TATT-TTTTATTTTAATTTA
1 TATTATTTT-TTTCAATTTA
75301553 ATTGTCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTATTTTTTTCAATTTA
Found at i:75303386 original size:86 final size:86
Alignment explanation
Indices: 75303234--75303398 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 86
75303224 CTCTCTCTTT
** *
75303234 TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAATTCTTAAACTTCTTC
1 TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTCTTC
75303299 AAAAAAAGCAATTAAACTCCTA
66 AAAAAAA-CAATTAAACTCCTA
* * * * * * *
75303321 TTTTTTT-CACTCAATTGAGTATTTGAATTTTCAAAATGCATAAGAAAGACCCTCAAATTTTTTC
1 TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTCTTC
*
75303385 AATAAAACAATTAA
66 AAAAAAACAATTAA
75303399 GCCCATGCTC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 7 0.10
86 53 0.79
87 7 0.10
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (86 bp):
TTTTTTTACACTCAATTGAGCATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTCTTC
AAAAAAACAATTAAACTCCTA
Found at i:75303827 original size:47 final size:47
Alignment explanation
Indices: 75303729--75303829 Score: 109
Period size: 47 Copynumber: 2.1 Consensus size: 47
75303719 TTTATAAATT
* * *
75303729 ATTTTTATGAAATTTATATTTCTTTACATTTTGTATAATTTTTTATT
1 ATTTTTATAAAATTTATATTTCTTTACATTTTGTATAATTTTTAATA
* *
75303776 ATTTTTATAAAATTT-TATATT-TTTACGCTTTTTTAT-ATTTTTAATAA
1 ATTTTTATAAAATTTATAT-TTCTTTAC-ATTTTGTATAATTTTTAAT-A
75303823 ATTTTTA
1 ATTTTTA
75303830 ATATTTGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
46 16 0.35
47 30 0.65
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (47 bp):
ATTTTTATAAAATTTATATTTCTTTACATTTTGTATAATTTTTAATA
Found at i:75305211 original size:11 final size:11
Alignment explanation
Indices: 75305186--75305219 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
75305176 ATTATTATTA
75305186 TTTCTTTTCTTT
1 TTTCTTTT-TTT
75305198 TTTCTTTTTTT
1 TTTCTTTTTTT
*
75305209 TTTATTTTTTT
1 TTTCTTTTTTT
75305220 GGACGTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:75307395 original size:29 final size:30
Alignment explanation
Indices: 75307304--75307385 Score: 157
Period size: 30 Copynumber: 2.8 Consensus size: 30
75307294 ACTTATTTTA
75307304 TTGTTAATTTTGTTATTATTTTAAAAATAT
1 TTGTTAATTTTGTTATTATTTTAAAAATAT
75307334 TTGTTAATTTTGTTATTATTTTAAAAATAT
1 TTGTTAATTTTGTTATTATTTTAAAAATAT
75307364 TTGTTAA-TTTGTTATTATTTTA
1 TTGTTAATTTTGTTATTATTTTA
75307386 GAGGAATTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 15 0.29
30 37 0.71
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAATAT
Found at i:75308889 original size:13 final size:13
Alignment explanation
Indices: 75308848--75308891 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
75308838 AAGATTTAGT
75308848 ATTTATTAGTATA
1 ATTTATTAGTATA
* *
75308861 ATATATT--TAAA
1 ATTTATTAGTATA
75308872 ATTTATTAGTATA
1 ATTTATTAGTATA
75308885 ATTTATT
1 ATTTATT
75308892 TGACCTAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:75309882 original size:19 final size:19
Alignment explanation
Indices: 75309858--75309895 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
75309848 GTTCACCACT
75309858 AATTAAATGTGATGGACGG
1 AATTAAATGTGATGGACGG
75309877 AATTAAATGTGATGGACGG
1 AATTAAATGTGATGGACGG
75309896 TGGTGGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (19 bp):
AATTAAATGTGATGGACGG
Found at i:75310269 original size:5 final size:5
Alignment explanation
Indices: 75310259--75310287 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
75310249 TCTGTGTATT
75310259 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
75310288 TCACAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:75315282 original size:46 final size:48
Alignment explanation
Indices: 75315207--75315403 Score: 211
Period size: 52 Copynumber: 4.0 Consensus size: 48
75315197 TGCACATAGT
* * *
75315207 CACATATCACATAC-CGAGGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATATCACAT-CTCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
* * * * *
75315255 CACATATTACA-CT-GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATCTCGAAGCCATAGCCCAGCTATGGTCTTATAC-GGAG
75315302 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAG
1 CACATATCACA--TCT-CGAAGCCATAGCCCAGCTATGGTCTTATACGG-AG
*
75315354 CACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
1 CACATATCACA--TCT-CGAAGCCATAGCCCAGCTATGGTCTTATACGGA
75315404 AATCACATTT
Statistics
Matches: 128, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
46 26 0.20
47 12 0.09
48 10 0.08
50 2 0.02
51 2 0.02
52 76 0.59
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
CACATATCACATCTCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
Found at i:75315401 original size:52 final size:52
Alignment explanation
Indices: 75315271--75315404 Score: 223
Period size: 52 Copynumber: 2.6 Consensus size: 52
75315261 TTACACTGAT
* * * * *
75315271 GCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCTCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
75315323 GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
75315375 GCCATAGCCCAGCTATGGTCTTATACGGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAA
75315405 ATCACATTTC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (52 bp):
GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
Found at i:75317863 original size:14 final size:14
Alignment explanation
Indices: 75317844--75317870 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75317834 AATCTATGTG
75317844 TTTTATTTTATTTA
1 TTTTATTTTATTTA
75317858 TTTTATTTTATTT
1 TTTTATTTTATTT
75317871 TTCACAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:75321528 original size:26 final size:26
Alignment explanation
Indices: 75321492--75321543 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
75321482 AATTGGGTAG
75321492 TTTACCCTATTTATATTTTTTTATAA
1 TTTACCCTATTTATATTTTTTTATAA
75321518 TTTACCCTATTTATATTTTTTTATAA
1 TTTACCCTATTTATATTTTTTTATAA
75321544 AAGTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTACCCTATTTATATTTTTTTATAA
Found at i:75321554 original size:26 final size:26
Alignment explanation
Indices: 75321499--75321561 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
75321489 TAGTTTACCC
** **
75321499 TATTTATATTTTTTTATAATTTACCC
1 TATTTATATTTTTTTATAAAGTACAA
75321525 TATTTATATTTTTTTATAAAAGTA-AA
1 TATTTATATTTTTTTAT-AAAGTACAA
75321551 TA-TTAT-TTTTT
1 TATTTATATTTTT
75321562 AAAAGATGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.16
25 4 0.12
26 19 0.59
27 4 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTATATTTTTTTATAAAGTACAA
Found at i:75331790 original size:16 final size:16
Alignment explanation
Indices: 75331769--75331816 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
75331759 TAATCACTTC
75331769 AATATTAAATTAATAT
1 AATATTAAATTAATAT
* *
75331785 AATATTTAATAAATAT
1 AATATTAAATTAATAT
* *
75331801 TATATTAATTTAATAT
1 AATATTAAATTAATAT
75331817 TAAACCTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATTAAATTAATAT
Found at i:75331907 original size:20 final size:18
Alignment explanation
Indices: 75331860--75331967 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 18
75331850 CAAGATAAAC
75331860 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
75331877 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
75331897 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
* *
75331916 ATTAAGATAAATA-TTAAA
1 ATTAA-ATTAATATTTAAT
* *
75331934 ATTAAATTTAATAATAAACT
1 ATTAAA-TTAATATTTAA-T
*
75331954 ATTAAAATAATATT
1 ATTAAATTAATATT
75331968 ATTTTTAGAA
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
17 9 0.13
18 13 0.19
19 20 0.29
20 27 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:75331932 original size:12 final size:12
Alignment explanation
Indices: 75331915--75331968 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
75331905 AATAAAATAC
*
75331915 TATTAAGATAAA
1 TATTAAAATAAA
75331927 TATTAAAATTAAA
1 TATTAAAA-TAAA
75331940 T-TTAATAATAAA
1 TATTAA-AATAAA
75331952 CTATTAAAAT-AA
1 -TATTAAAATAAA
75331964 TATTA
1 TATTA
75331969 TTTTTAGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 5 0.14
12 17 0.46
13 11 0.30
14 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (12 bp):
TATTAAAATAAA
Found at i:75331938 original size:37 final size:37
Alignment explanation
Indices: 75331892--75331968 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
75331882 GATAATCACT
* *
75331892 TTAATATTAAA-TTAATAA-AATACTATTAAGATAAATA
1 TTAAAATTAAATTTAATAATAA-ACTATTAAAAT-AATA
75331929 TTAAAATTAAATTTAATAATAAACTATTAAAATAATA
1 TTAAAATTAAATTTAATAATAAACTATTAAAATAATA
75331966 TTA
1 TTA
75331969 TTTTTAGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 17 0.47
38 17 0.47
39 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (37 bp):
TTAAAATTAAATTTAATAATAAACTATTAAAATAATA
Found at i:75332357 original size:27 final size:27
Alignment explanation
Indices: 75332319--75332373 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
75332309 AAGTTCAATT
75332319 ACCCATTAGGCCAATTGTCTGACTTGA
1 ACCCATTAGGCCAATTGTCTGACTTGA
* *
75332346 ACCCATTGGGCCAATTGTTTGACTTGA
1 ACCCATTAGGCCAATTGTCTGACTTGA
75332373 A
1 A
75332374 AATTAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (27 bp):
ACCCATTAGGCCAATTGTCTGACTTGA
Found at i:75340808 original size:20 final size:21
Alignment explanation
Indices: 75340783--75340832 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
75340773 TATATATTTC
75340783 TGGAAAAATTA-ATTTTTACG
1 TGGAAAAATTAGATTTTTACG
*
75340803 TGGAAAAATTAGTTTTTTACG
1 TGGAAAAATTAGATTTTTACG
*
75340824 TTGAAAAAT
1 TGGAAAAAT
75340833 GCTGAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (21 bp):
TGGAAAAATTAGATTTTTACG
Found at i:75341843 original size:28 final size:29
Alignment explanation
Indices: 75341812--75341889 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
75341802 TATTATTATT
*
75341812 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
75341840 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
75341868 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
75341890 AATAAAGAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:75341889 original size:31 final size:28
Alignment explanation
Indices: 75341823--75341890 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
75341813 ATATAAATAT
**
75341823 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
75341851 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
75341882 ATAAATTAA
1 ATAAATTAA
75341891 ATAAAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:75342726 original size:18 final size:18
Alignment explanation
Indices: 75342703--75342745 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
75342693 ATGTGAGGTA
75342703 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
75342721 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
75342739 ATTATTA
1 AGTATTA
75342746 TTATGAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:75342731 original size:3 final size:3
Alignment explanation
Indices: 75342705--75342749 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
75342695 GTGAGGTAAG
* * * *
75342705 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
75342750 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:75342944 original size:24 final size:24
Alignment explanation
Indices: 75342890--75342961 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
75342880 TGTGTGAAGT
*
75342890 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
75342913 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
75342938 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
75342962 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:75343164 original size:37 final size:39
Alignment explanation
Indices: 75343105--75343200 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
75343095 CGGATAGATT
* * * *
75343105 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
75343142 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
75343181 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
75343201 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:75344810 original size:16 final size:17
Alignment explanation
Indices: 75344780--75344813 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
75344770 TAATTAATTT
75344780 TAATTAATAAATTTTTA
1 TAATTAATAAATTTTTA
*
75344797 TAATTAATAATTTTTTA
1 TAATTAATAAATTTTTA
75344814 AACTCGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTAATAAATTTTTA
Found at i:75346850 original size:38 final size:38
Alignment explanation
Indices: 75346798--75346876 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
75346788 AAGCTTTATT
** * *
75346798 ACACCGGCAATAAGCCTGTTAGGTACTAAACCTGGATA
1 ACACCGGCAATAAGCCTACTAGGCACTAAACCTGAATA
* *
75346836 ACACCGGCACTAAGCCTACTAGGCACTAAGCCTGAATA
1 ACACCGGCAATAAGCCTACTAGGCACTAAACCTGAATA
75346874 ACA
1 ACA
75346877 ATACGGTTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (38 bp):
ACACCGGCAATAAGCCTACTAGGCACTAAACCTGAATA
Found at i:75349484 original size:15 final size:15
Alignment explanation
Indices: 75349454--75349492 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
75349444 TTGATTGATC
75349454 CAAATTTTCATTAAAAA
1 CAAATTTT--TTAAAAA
*
75349471 CTAATTTTTTAAAAA
1 CAAATTTTTTAAAAA
75349486 CAAATTT
1 CAAATTT
75349493 ATCAATAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
17 7 0.35
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
CAAATTTTTTAAAAA
Found at i:75349917 original size:34 final size:34
Alignment explanation
Indices: 75349874--75349941 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
75349864 GTATGTAGTA
75349874 GTATATTGTACTATGGTTCACCAAAAAATGAATT
1 GTATATTGTACTATGGTTCACCAAAAAATGAATT
75349908 GTATATTGTACTATGGTTCACCAAAAAATGAATT
1 GTATATTGTACTATGGTTCACCAAAAAATGAATT
75349942 AAGGGGAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (34 bp):
GTATATTGTACTATGGTTCACCAAAAAATGAATT
Found at i:75350188 original size:20 final size:20
Alignment explanation
Indices: 75350165--75350206 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
75350155 ATGATTGATG
75350165 AATGATGTATTACTCAAATC
1 AATGATGTATTACTCAAATC
75350185 AATGATGTATTACTCAAATC
1 AATGATGTATTACTCAAATC
75350205 AA
1 AA
75350207 ATTTGGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (20 bp):
AATGATGTATTACTCAAATC
Found at i:75359357 original size:83 final size:80
Alignment explanation
Indices: 75359205--75359365 Score: 225
Period size: 83 Copynumber: 2.0 Consensus size: 80
75359195 TGCAAGGTGC
* * *
75359205 TGGATCTTGACTCTGCTTTGTTTTCTATCAGTAGAATGATTATTTTCTGATAATGGACGAATAAT
1 TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATTATTTTCTGATAATGGACGAATAAT
75359270 AAAATGAACGGTTGT
66 AAAATGAACGGTTGT
* *
75359285 TGGATCTTGACTCTCTGCTTTGGTTTCTATCAGTACAATCA-TAGTTTTTGTGATAATTGACGAA
1 TGGATCTTGA--CTCTGCTTTGGTTTCTATCAGTACAATCATTA--TTTTCTGATAATGGACGAA
*
75359349 TAATAAAATGAATGGTT
62 TAATAAAATGAACGGTT
75359366 CCATTTGGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
80 10 0.14
81 2 0.03
82 26 0.37
83 33 0.46
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (80 bp):
TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATTATTTTCTGATAATGGACGAATAAT
AAAATGAACGGTTGT
Found at i:75359681 original size:6 final size:6
Alignment explanation
Indices: 75359663--75359714 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
75359653 AAGTGGTGGC
*
75359663 GGGGCT GGAGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT
1 GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT
75359711 GGGG
1 GGGG
75359715 GAGATTTGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.02, C:0.15, G:0.67, T:0.15
Consensus pattern (6 bp):
GGGGCT
Found at i:75369639 original size:25 final size:23
Alignment explanation
Indices: 75369591--75369641 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
75369581 CTAAATCTCC
*
75369591 TCTTTTACACCATTGATTTCCAT
1 TCTTTTACACCATTGATATCCAT
75369614 TCTTTTCACCACCACTTGATAT-CAT
1 TCTTTT-A-CACCA-TTGATATCCAT
75369639 TCT
1 TCT
75369642 CTACCACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 11 0.46
26 6 0.25
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (23 bp):
TCTTTTACACCATTGATATCCAT
Found at i:75370858 original size:21 final size:23
Alignment explanation
Indices: 75370832--75370875 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
75370822 GGTAGGAATG
75370832 TTTTTG-AAAAACT-TGCATTGA
1 TTTTTGAAAAAACTCTGCATTGA
75370853 TTTTTGAAAAAACTCTGCATTGA
1 TTTTTGAAAAAACTCTGCATTGA
75370876 CATTCTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 7 0.33
23 8 0.38
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (23 bp):
TTTTTGAAAAAACTCTGCATTGA
Found at i:75372221 original size:16 final size:17
Alignment explanation
Indices: 75372157--75372267 Score: 79
Period size: 17 Copynumber: 6.3 Consensus size: 17
75372147 TCCAAAAATA
*
75372157 ATATTATTTTAATAGATTT
1 ATATTAATTTAAT--ATTT
75372176 AATATTAAATTTAATATTT
1 -ATATT-AATTTAATATTT
*
75372195 ATCTTAA--TAATATTT
1 ATATTAATTTAATATTT
*
75372210 -TATTAATTTAATATTAA
1 ATATTAATTTAATATT-T
75372227 AGTGATT-ATCTTAATATTT
1 A-T-ATTAAT-TTAATATTT
75372246 A-ATTTAATTTAATATTT
1 ATA-TTAATTTAATATTT
75372263 ATATT
1 ATATT
75372268 GTAGATAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 25
0.71 0.05 0.24
Matches are distributed among these distances:
14 5 0.07
15 8 0.11
16 8 0.11
17 16 0.21
18 7 0.09
19 8 0.11
20 16 0.21
21 7 0.09
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (17 bp):
ATATTAATTTAATATTT
Found at i:75372224 original size:11 final size:11
Alignment explanation
Indices: 75372155--75372226 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 11
75372145 ATTCCAAAAA
*
75372155 TAATATTATTT
1 TAATATTAATT
*
75372166 TAATA--GATT
1 TAATATTAATT
75372175 TAATATTAAATT
1 TAATATT-AATT
*
75372187 TAATATTTATCT
1 TAATATTAAT-T
*
75372199 TAATAAT-ATT
1 TAATATTAATT
75372209 T--TATTAATT
1 TAATATTAATT
75372218 TAATATTAA
1 TAATATTAA
75372227 AGTGATTATC
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
8 3 0.06
9 11 0.23
10 2 0.04
11 15 0.31
12 17 0.35
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:75372303 original size:61 final size:58
Alignment explanation
Indices: 75372237--75372352 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 58
75372227 AGTGATTATC
** * * *
75372237 TTAATATTTAATTTAATTTAATATTTATATTGTAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATGAAATTTAATCTAATATTTAT-CT-T-GATAAATATTATATTAATTTAATAGAT
* *
75372298 TTAATATGAAATTTAATCTAATATTTCTCTTGATAAGTATTATATTAATTTAATA
1 TTAATATGAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
75372353 TTAAAATGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 22 0.46
59 1 0.02
60 1 0.02
61 24 0.50
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (58 bp):
TTAATATGAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:75374347 original size:49 final size:49
Alignment explanation
Indices: 75374237--75374362 Score: 121
Period size: 49 Copynumber: 2.6 Consensus size: 49
75374227 CTTACACAGT
* * * *
75374237 CTACCTGATTTG-CTAGTGTAATCGCACACACCCATGTACCCTACACGTC
1 CTACCTGATTTGCCCA-TGCAATCGCACACACCCATGTACCCCACACGGC
* * ** *
75374286 CTCCCTGATTTGCCTATGCAATCGCACACACCTGTGTGCCCCACACGGC
1 CTACCTGATTTGCCCATGCAATCGCACACACCCATGTACCCCACACGGC
* *
75374335 CTACCT-ATTTTGCCCGTGTAATCGCACA
1 CTACCTGA-TTTGCCCATGCAATCGCACA
75374363 TGCTCGTGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 60 0.94
50 3 0.05
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.26
Consensus pattern (49 bp):
CTACCTGATTTGCCCATGCAATCGCACACACCCATGTACCCCACACGGC
Found at i:75375055 original size:14 final size:14
Alignment explanation
Indices: 75375036--75375070 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
75375026 GGAATAATAG
*
75375036 AAAAAAATGAAGAA
1 AAAAAAAAGAAGAA
75375050 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
*
75375064 AAGAAAA
1 AAAAAAA
75375071 CTGTGAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:75382060 original size:21 final size:20
Alignment explanation
Indices: 75382028--75382076 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
75382018 TTTTCAAACG
* *
75382028 GGCGTGTGCCTTGGACACAC
1 GGCGTGTCCCTTAGACACAC
*
75382048 GGCGATGTCCCTTAGCCACAC
1 GGCG-TGTCCCTTAGACACAC
75382069 GGACGTGT
1 GG-CGTGT
75382077 GAGATCTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 18 0.75
22 2 0.08
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.20
Consensus pattern (20 bp):
GGCGTGTCCCTTAGACACAC
Found at i:75387373 original size:33 final size:33
Alignment explanation
Indices: 75387303--75387376 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
75387293 CATATGGCCT
** * *
75387303 GCCCGTGTAGCCCACACGCCCAAATTGGCTTTG
1 GCCCGTGTAGCCCACACGCCCAAATCAGCTCTA
*
75387336 GCCCGTGTGGCCCACACGGCCCAAATCAG-TCTA
1 GCCCGTGTAGCCCACAC-GCCCAAATCAGCTCTA
75387369 GCCCGTGT
1 GCCCGTGT
75387377 CTCATACACG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.18, C:0.38, G:0.26, T:0.19
Consensus pattern (33 bp):
GCCCGTGTAGCCCACACGCCCAAATCAGCTCTA
Found at i:75389504 original size:26 final size:27
Alignment explanation
Indices: 75389462--75389522 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
75389452 TATGTATTTG
* *
75389462 AAATTTAGT-TT-TTTTTTTGTTTTTAA
1 AAATTTAGTCTTATTTTTTCGATTTT-A
75389488 AAATTTAGTCTTATTTTTTCGATTTTA
1 AAATTTAGTCTTATTTTTTCGATTTTA
75389515 AAATTTAG
1 AAATTTAG
75389523 ATTTAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 9 0.29
27 11 0.35
28 11 0.35
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (27 bp):
AAATTTAGTCTTATTTTTTCGATTTTA
Found at i:75390141 original size:21 final size:21
Alignment explanation
Indices: 75390096--75390155 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 21
75390086 TTTTAAAAAA
75390096 TTAAAAAATTATTTTTTTTACT
1 TTAAAAAATTATTTTTTTTA-T
75390118 TTAAAAAATATTATTTTATTTTTAT
1 TT-AAAAA-ATTA-TTT-TTTTTAT
*
75390143 TTAATAAATTATT
1 TTAAAAAATTATT
75390156 CTCATCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 4 0.12
23 9 0.27
24 8 0.24
25 6 0.18
26 6 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAAAAATTATTTTTTTTAT
Found at i:75393527 original size:16 final size:16
Alignment explanation
Indices: 75393494--75393528 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
75393484 AAGTTTGGTT
**
75393494 AGAAAAAAAAAATGAG
1 AGAAAAAAAAAAAAAG
75393510 AGAAAAAAAAAAAAAG
1 AGAAAAAAAAAAAAAG
75393526 AGA
1 AGA
75393529 TTATCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AGAAAAAAAAAAAAAG
Found at i:75396195 original size:29 final size:29
Alignment explanation
Indices: 75396163--75396222 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
75396153 TAAAAGATAA
75396163 AACTTTGAAACAATTTTAAAATTAAGTGC
1 AACTTTGAAACAATTTTAAAATTAAGTGC
75396192 AACTTTGAAACAATTTTAAAATTAAGTGC
1 AACTTTGAAACAATTTTAAAATTAAGTGC
75396221 AA
1 AA
75396223 ATGATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (29 bp):
AACTTTGAAACAATTTTAAAATTAAGTGC
Found at i:75396244 original size:20 final size:20
Alignment explanation
Indices: 75396221--75396272 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
75396211 AATTAAGTGC
75396221 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
* * * *
75396241 AAATGATTTCAATCATGTTA
1 AAATGATTTTAACCAAGTCA
*
75396261 AAATCATTTTAA
1 AAATGATTTTAA
75396273 ATGTTTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:75397621 original size:58 final size:58
Alignment explanation
Indices: 75397531--75397648 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
75397521 AAAGCATGCA
*
75397531 TTGGAAGTGGTTCATGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
1 TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
75397589 TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
1 TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
75397647 TT
1 TT
75397649 TTGCATAAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (58 bp):
TTGGAAGTGGTTCAGGACTAAACCGATAACTTAGGAAATTTTTCAACACTTAGAAAAT
Found at i:75399129 original size:41 final size:40
Alignment explanation
Indices: 75399069--75399146 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
75399059 GCCAATGTAT
*
75399069 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCA
1 ATATATAACCGAAGCTATCTCAATCTCGCACAC-AAGTGCA
* *
75399110 ATATATAACCGAAGTTATCTCAATTTCGCACACAAGT
1 ATATATAACCGAAGCTATCTCAATCTCGCACACAAGT
75399147 ACCCATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (40 bp):
ATATATAACCGAAGCTATCTCAATCTCGCACACAAGTGCA
Found at i:75399163 original size:41 final size:41
Alignment explanation
Indices: 75399069--75399163 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
75399059 GCCAATGTAT
*
75399069 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCA
1 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTCCA
* * * *
75399110 ATATATAACCGAAGTTATCTCAATTTCGCACAC-AAGTACCC
1 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGT-CCA
75399151 ATA-ATTAGCCGAA
1 ATATA-TAGCCGAA
75399164 TCATTTTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 5 0.11
41 41 0.89
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (41 bp):
ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTCCA
Found at i:75405817 original size:45 final size:45
Alignment explanation
Indices: 75405753--75405842 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
75405743 GTAAGTTGTG
75405753 GTAGCAAGTATAATGAATTGAAATGCTCGGATGGTGAGATTCTCC
1 GTAGCAAGTATAATGAATTGAAATGCTCGGATGGTGAGATTCTCC
75405798 GTAGCAAGTATAATGAATTGAAATGCTCGGATGGTGAGATTCTCC
1 GTAGCAAGTATAATGAATTGAAATGCTCGGATGGTGAGATTCTCC
75405843 AGATTAATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (45 bp):
GTAGCAAGTATAATGAATTGAAATGCTCGGATGGTGAGATTCTCC
Found at i:75411784 original size:56 final size:57
Alignment explanation
Indices: 75411717--75411824 Score: 200
Period size: 56 Copynumber: 1.9 Consensus size: 57
75411707 TTAGTCCTGG
75411717 ACCATTCTTAATGCATGTTTTGGGTCTCGTAGG-CCATAATAGGGACACTATCACGA
1 ACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGACACTATCACGA
*
75411773 ACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGATACTAT
1 ACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGACACTAT
75411825 GGCGTTGCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 33 0.66
57 17 0.34
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (57 bp):
ACCATTCTTAATGCATGTTTTGGGTCTCGTAGGCCCATAATAGGGACACTATCACGA
Found at i:75419420 original size:29 final size:28
Alignment explanation
Indices: 75419388--75419466 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
75419378 TAGAAATTCA
75419388 AAAAATTATAAAATTATTTTTAAACTATT
1 AAAAATTATAAAATTATTTTTAAACTA-T
* *
75419417 AAAAATTACTAAAATTA-TTTAAAAGTAT
1 AAAAATTA-TAAAATTATTTTTAAACTAT
* *
75419445 AAAAACTATAAAAAATATTTTT
1 AAAAATTAT-AAAATTATTTTT
75419467 TAATTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
27 1 0.02
28 14 0.33
29 19 0.45
30 8 0.19
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
AAAAATTATAAAATTATTTTTAAACTAT
Found at i:75420567 original size:12 final size:13
Alignment explanation
Indices: 75420543--75420585 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
75420533 AAGTTTTGGA
75420543 TTTAATATTTGTT
1 TTTAATATTTGTT
75420556 TTTAAT-TTTGTTAT
1 TTTAATATTTG-T-T
*
75420570 TTTAATATTAGTT
1 TTTAATATTTGTT
75420583 TTT
1 TTT
75420586 GTATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 4 0.15
13 11 0.42
14 8 0.31
15 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTAATATTTGTT
Found at i:75423262 original size:26 final size:24
Alignment explanation
Indices: 75423230--75423279 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
75423220 TAAATAAAAA
*
75423230 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
75423256 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
75423280 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:75423299 original size:21 final size:21
Alignment explanation
Indices: 75423250--75423308 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
75423240 ATAATAAATC
*
75423250 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
75423270 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
75423292 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
75423309 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:75429811 original size:69 final size:68
Alignment explanation
Indices: 75429730--75429882 Score: 175
Period size: 68 Copynumber: 2.2 Consensus size: 68
75429720 TTTTTCCAAC
* *
75429730 ATATAACTTTTTGTATGCCATAG-AGACTTGTCACTTTGTGTATGTGTAAATG-GATGTGGTGGT
1 ATATAACTTTTTGTATGCAATAGTAG-CTTGTCACTTT-TGTATGTGTAAATGAG-TGCGGTGGT
75429793 GAACTA
63 GAACTA
* * * * * *
75429799 ATATAATTTTTTGTATGTAATTGTAGGTTGTCACTTTTGTATGTTTAAATGAGTGCGGTGGTGGA
1 ATATAACTTTTTGTATGCAATAGTAGCTTGTCACTTTTGTATGTGTAAATGAGTGCGGTGGTGAA
*
75429864 GTA
66 CTA
*
75429867 ATATAAGTTTTTGTAT
1 ATATAACTTTTTGTAT
75429883 ATAATTGCAG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
68 40 0.56
69 30 0.42
70 2 0.03
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (68 bp):
ATATAACTTTTTGTATGCAATAGTAGCTTGTCACTTTTGTATGTGTAAATGAGTGCGGTGGTGAA
CTA
Found at i:75429859 original size:68 final size:69
Alignment explanation
Indices: 75429757--75429889 Score: 189
Period size: 68 Copynumber: 1.9 Consensus size: 69
75429747 CCATAGAGAC
* * *
75429757 TTGTCACTTTGTGTATGTGTAAATGGATGTGGTGGTGAACTAATATAATTTTTTGTATGTAATTG
1 TTGTCACTTTGTGTATGTGTAAATGGATGCGGTGGTGAACTAATATAAGTTTTTGTATATAATTG
75429822 TAGG
66 TAGG
* * *
75429826 TTGTCACTTT-TGTATGTTTAAAT-GAGTGCGGTGGTGGAGTAATATAAGTTTTTGTATATAATT
1 TTGTCACTTTGTGTATGTGTAAATGGA-TGCGGTGGTGAACTAATATAAGTTTTTGTATATAATT
75429889 G
65 G
75429890 CAGGATGATA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 2 0.04
68 45 0.79
69 10 0.18
ACGTcount: A:0.25, C:0.05, G:0.26, T:0.45
Consensus pattern (69 bp):
TTGTCACTTTGTGTATGTGTAAATGGATGCGGTGGTGAACTAATATAAGTTTTTGTATATAATTG
TAGG
Found at i:75431101 original size:20 final size:21
Alignment explanation
Indices: 75431073--75431115 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
75431063 TTAATTCATT
75431073 TTTATTTTATATAAATATTTG
1 TTTATTTTATATAAATATTTG
**
75431094 TTTA-TTTATATTTATATTTG
1 TTTATTTTATATAAATATTTG
75431114 TT
1 TT
75431116 CGCTAACGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTATTTTATATAAATATTTG
Found at i:75431402 original size:86 final size:87
Alignment explanation
Indices: 75431228--75431412 Score: 232
Period size: 86 Copynumber: 2.1 Consensus size: 87
75431218 AATAAAAATA
* * * * * *
75431228 AAAATTGAAT-AAATCTGTTTCGGGATTTATTTCCGCCGTTCAACAAATTTTATTCTATTTTTTT
1 AAAATTAAATAAAATCTGTTTCGAGATTTATTTCCGCCATTCAACAAATTTTATTCTAATATTTG
* *
75431292 ATTTTGTTTCCAAACAATTATT
66 ACTTTGTTTCCAAACAAGTATT
* * *
75431314 AAAATTAAATAAAATCTGTTTCGAGATTTA-TTCTCGCCATTTAATAGATTTTATT-TAATATTT
1 AAAATTAAATAAAATCTGTTTCGAGATTTATTTC-CGCCATTCAACAAATTTTATTCTAATATTT
*
75431377 GACTTTGTTTCCAAACGAGTATT
65 GACTTTGTTTCCAAACAAGTATT
75431400 AAAATTAAATAAA
1 AAAATTAAATAAA
75431413 TTCATTTTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 50 0.59
87 35 0.41
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (87 bp):
AAAATTAAATAAAATCTGTTTCGAGATTTATTTCCGCCATTCAACAAATTTTATTCTAATATTTG
ACTTTGTTTCCAAACAAGTATT
Found at i:75431421 original size:55 final size:55
Alignment explanation
Indices: 75431361--75431467 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
75431351 CATTTAATAG
*
75431361 ATTTTATTTAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAATTC
1 ATTTTATTCAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAATTC
* * * *
75431416 ATTTTATTCCATTTTTTATTTTGTTTCCAAACGAGTATTAAAATTAAATAAA
1 ATTTTATTCAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAA
75431468 ATCTGTTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (55 bp):
ATTTTATTCAATATTTGACTTTGTTTCCAAACGAGTATTAAAATTAAATAAATTC
Found at i:75431516 original size:86 final size:86
Alignment explanation
Indices: 75431416--75431661 Score: 284
Period size: 87 Copynumber: 2.9 Consensus size: 86
75431406 AAATAAATTC
* * ** *
75431416 ATTTTATTCCATTTTTTATTTTGTTTCCAAACGAGTATTAAAATTAAATAAAATCTGTTTTGGGA
1 ATTTTATTCTATTTTTTATTTTGTTTACAAATAAGAATTAAAATTAAATAAAATCTGTTTTGGGA
*
75431481 TTTATTCCCACCGTTCAACAG
66 TTTATTCCCGCCGTTCAACAG
* * * *
75431502 ATTTTATTTTATTTTTTATTTTGATGAGAAATAAGAAATTAAAATTAAATAAAATCTGTTTTGGG
1 ATTTTATTCTATTTTTTATTTTGTTTACAAATAAG-AATTAAAATTAAATAAAATCTGTTTTGGG
* *
75431567 ATTTATTCCCGTCGTTGAACAG
65 ATTTATTCCCGCCGTTCAACAG
* * * * * * *
75431589 ATTTTATTCGA-TTTTAATTTTGTTTTCAAATTAGAATT-AAATTGAAT--AATCTATTTCGGGA
1 ATTTTATTCTATTTTTTATTTTGTTTACAAATAAGAATTAAAATTAAATAAAATCTGTTTTGGGA
75431650 TTTATTCCCGCC
66 TTTATTCCCGCC
75431662 ATTTAACATA
Statistics
Matches: 135, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
82 23 0.17
84 8 0.06
85 4 0.03
86 44 0.33
87 56 0.41
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (86 bp):
ATTTTATTCTATTTTTTATTTTGTTTACAAATAAGAATTAAAATTAAATAAAATCTGTTTTGGGA
TTTATTCCCGCCGTTCAACAG
Found at i:75435664 original size:26 final size:28
Alignment explanation
Indices: 75435617--75435674 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
75435607 GATATTTTAA
75435617 ATATAAATTATTTAATTCATTT-TATTTT
1 ATATAAATTATTTAATTCATTTATA-TTT
* *
75435645 ATATAAA-TATTT-GTTTATTTATATTT
1 ATATAAATTATTTAATTCATTTATATTT
75435671 ATAT
1 ATAT
75435675 TTGTTCACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 13 0.48
27 7 0.26
28 7 0.26
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
ATATAAATTATTTAATTCATTTATATTT
Found at i:75435667 original size:20 final size:21
Alignment explanation
Indices: 75435637--75435679 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
75435627 TTTAATTCAT
75435637 TTTATTTTATATAAATATTTG
1 TTTATTTTATATAAATATTTG
**
75435658 TTTA-TTTATATTTATATTTG
1 TTTATTTTATATAAATATTTG
75435678 TT
1 TT
75435680 CACTAATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTATTTTATATAAATATTTG
Found at i:75435991 original size:20 final size:20
Alignment explanation
Indices: 75435968--75436311 Score: 231
Period size: 20 Copynumber: 17.1 Consensus size: 20
75435958 ACCCTTCAAC
*
75435968 AATTTTGAATCAAGTGAAAA
1 AATTTTAAATCAAGTGAAAA
*
75435988 AATTTTAAATCGAGT-AAAA
1 AATTTTAAATCAAGTGAAAA
*
75436007 CCATTTTAAATCAAGTGAAAA
1 -AATTTTAAATCAAGTGAAAA
* *
75436028 ACATTTTAAATCAAGTGACAC
1 A-ATTTTAAATCAAGTGAAAA
* *
75436049 AGTTTTAAATCAAGGGAAAA
1 AATTTTAAATCAAGTGAAAA
** * * *
75436069 TTTTTTAATTCGAGTGAAAT
1 AATTTTAAATCAAGTGAAAA
*
75436089 AGTTTTAAATCAAGTGAAAA
1 AATTTTAAATCAAGTGAAAA
* * *
75436109 ACTTTTAAATCGAGTGAAAT
1 AATTTTAAATCAAGTGAAAA
** * *
75436129 TTTTTTGACTCAAGTGAAAA
1 AATTTTAAATCAAGTGAAAA
* ** * *
75436149 TCATTTTAAATTGAGTTAAAT
1 -AATTTTAAATCAAGTGAAAA
*
75436170 AGTTTTAAATCAAGTGAAAA
1 AATTTTAAATCAAGTGAAAA
** *
75436190 TTTTTTAAATCAAGTGAAAC
1 AATTTTAAATCAAGTGAAAA
*
75436210 AATTTTAAATCAGGTGAAAA
1 AATTTTAAATCAAGTGAAAA
** * **
75436230 TTTTTTGACCCAAGTGAAAA
1 AATTTTAAATCAAGTGAAAA
* * **
75436250 TGATTTTAAATCGAGTGAATT
1 -AATTTTAAATCAAGTGAAAA
** * *
75436271 TTTTTTGACTCAAGTGAAAA
1 AATTTTAAATCAAGTGAAAA
** *
75436291 ACGTTTAACTCAAGTGAAAA
1 AATTTTAAATCAAGTGAAAA
75436311 A
1 A
75436312 CTGCTCCCTA
Statistics
Matches: 242, Mismatches: 77, Indels: 10
0.74 0.23 0.03
Matches are distributed among these distances:
19 4 0.02
20 192 0.79
21 46 0.19
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.35
Consensus pattern (20 bp):
AATTTTAAATCAAGTGAAAA
Found at i:75436110 original size:81 final size:80
Alignment explanation
Indices: 75435965--75436235 Score: 296
Period size: 81 Copynumber: 3.4 Consensus size: 80
75435955 TAAACCCTTC
* * ** * *
75435965 AACAATTTTGAATCAAGTGAAAAAATTTTAAATCGAGTAAAACCA-TTTTAAATCAAGTGAAAAA
1 AACAATTTTAAATCAAGGGAAAATTTTTTAATTCGAGTAAAA-TAGTTTTAAATCAAGTGAAAAA
75436029 CATTTTAAATCAAGTGA
65 C-TTTTAAATCAAGTGA
* * *
75436046 CACAGTTTTAAATCAAGGGAAAATTTTTTAATTCGAGTGAAATAGTTTTAAATCAAGTGAAAAAC
1 AACAATTTTAAATCAAGGGAAAATTTTTTAATTCGAGTAAAATAGTTTTAAATCAAGTGAAAAAC
*
75436111 TTTTAAATCGAGTGA
66 TTTTAAATCAAGTGA
*** * * * * *
75436126 AATTTTTTTGACTCAAGTGAAAATCATTTTAAATT-GAGTTAAATAGTTTTAAATCAAGTGAAAA
1 AACAATTTTAAATCAAGGGAAAAT--TTTTTAATTCGAGTAAAATAGTTTTAAATCAAGTGAAAA
**
75436190 TTTTTTAAATCAAGTGA
64 ACTTTTAAATCAAGTGA
75436207 AACAATTTTAAATC-AGGTGAAAATTTTTT
1 AACAATTTTAAATCAAGG-GAAAATTTTTT
75436236 GACCCAAGTG
Statistics
Matches: 157, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
79 4 0.03
80 34 0.22
81 111 0.71
82 8 0.05
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (80 bp):
AACAATTTTAAATCAAGGGAAAATTTTTTAATTCGAGTAAAATAGTTTTAAATCAAGTGAAAAAC
TTTTAAATCAAGTGA
Found at i:75436156 original size:101 final size:101
Alignment explanation
Indices: 75435970--75436313 Score: 290
Period size: 101 Copynumber: 3.4 Consensus size: 101
75435960 CCTTCAACAA
* ** * * * **
75435970 TTTTGAATCAAGTGAAAAAATTTTAAATCGAGT-AAAACCATTTTAAATCAAGTGAAAAACATTT
1 TTTTAAATCAAGTGAAAACGTTTTAAATCAAGTGAAAAAC-TTTTAAATCAGGTG-AAAATTTTT
* ** * *
75436034 TAAATCAAGTG-ACA-CAGTTTTAAATCAAGGGAAAATT
64 TGACCCAAGTGAAAATCA-TTTTAAATCGAGGGAAAATT
* * *
75436071 TTTTAATTCGAGTGAAATA-GTTTTAAATCAAGTGAAAAACTTTTAAATC-GAGTGAAATTTTTT
1 TTTTAAATCAAGTGAAA-ACGTTTTAAATCAAGTGAAAAACTTTTAAATCAG-GTGAAAATTTTT
* * ** *
75436134 TGACTCAAGTGAAAATCATTTTAAATTGA-GTTAAATAG
64 TGACCCAAGTGAAAATCATTTTAAATCGAGGGAAAAT-T
**
75436172 TTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGAAACAA-TTTTAAATCAGGTGAAAATTTTTT
1 TTTTAAATCAAGTGAAAACGTTTTAAATCAAGTGAAA-AACTTTTAAATCAGGTGAAAATTTTTT
* * **
75436236 GACCCAAGTGAAAATGATTTTAAATCGAGTGAATTTT
65 GACCCAAGTGAAAATCATTTTAAATCGAGGGAAAATT
* * *
75436273 TTTTGACTCAAGTGAAAAACG-TTTAACTCAAGTGAAAAACT
1 TTTTAAATCAAGTG-AAAACGTTTTAAATCAAGTGAAAAACT
75436314 GCTCCCTAAC
Statistics
Matches: 195, Mismatches: 36, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
100 23 0.12
101 155 0.79
102 17 0.09
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (101 bp):
TTTTAAATCAAGTGAAAACGTTTTAAATCAAGTGAAAAACTTTTAAATCAGGTGAAAATTTTTTG
ACCCAAGTGAAAATCATTTTAAATCGAGGGAAAATT
Found at i:75436230 original size:40 final size:40
Alignment explanation
Indices: 75435965--75436310 Score: 273
Period size: 40 Copynumber: 8.6 Consensus size: 40
75435955 TAAACCCTTC
* ** * *
75435965 AACAATTTTGAATCAAGTGAAAAAATTTTAAATCGAGTAA
1 AACAATTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
* **
75436005 AACCATTTTAAATCAAGTGAAAAACATTTTAAATCAAGTGA
1 AACAATTTTAAATCAAGTG-AAAATTTTTTAAATCAAGTGA
* * * * *
75436046 CACAGTTTTAAATCAAGGGAAAATTTTTTAATTCGAGTGA
1 AACAATTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
* * ** *
75436086 AATAGTTTTAAATCAAGTGAAAAACTTTTAAATCGAGTGA
1 AACAATTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
*** * * * ** *
75436126 AATTTTTTTGACTCAAGTGAAAATCATTTTAAATTGAGTTA
1 AACAATTTTAAATCAAGTGAAAAT-TTTTTAAATCAAGTGA
* *
75436167 AATAGTTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
1 AACAATTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
* * **
75436207 AACAATTTTAAATCAGGTGAAAATTTTTTGACCCAAGTGA
1 AACAATTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
* ** * *
75436247 AA-ATGATTTTAAATCGAGTGAATTTTTTTTGACTCAAGTGA
1 AACA--ATTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
* *
75436288 AA-AACGTTTAACTCAAGTGAAAA
1 AACAA-TTTTAAATCAAGTGAAAA
75436311 ACTGCTCCCT
Statistics
Matches: 250, Mismatches: 51, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
39 2 0.01
40 148 0.59
41 100 0.40
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (40 bp):
AACAATTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
Found at i:75436246 original size:121 final size:121
Alignment explanation
Indices: 75435965--75436248 Score: 316
Period size: 121 Copynumber: 2.3 Consensus size: 121
75435955 TAAACCCTTC
* * * * * *** * *
75435965 AACAATTTTGAATCAAGTGAAAAAATTTTAAATCGAGTAAAACCATTTTAAATCAAGTGAAAAAC
1 AACAATTTTAAATCAAGTGAAAAACTTTTAAACCAAGTGAAATTTTTTTGACTCAAGTGAAAAAC
* * *
75436030 ATTTTAAATCAAGTGACACAGTTTTAAATCAAGGGAAAATTTTTTAATTCGAGTGA
66 ATTTTAAATCAAGTGAAACAGTTTTAAATCAAGGGAAAATTTTTTAAATCAAGTGA
* * * * *
75436086 AATAGTTTTAAATCAAGTGAAAAACTTTTAAATCGAGTGAAATTTTTTTGACTCAAGTGAAAATC
1 AACAATTTTAAATCAAGTGAAAAACTTTTAAACCAAGTGAAATTTTTTTGACTCAAGTGAAAAAC
** * * *
75436151 ATTTTAAATTGAGTTAAATAGTTTTAAATCAAGTGAAAATTTTTTAAATCAAGTGA
66 ATTTTAAATCAAGTGAAACAGTTTTAAATCAAGGGAAAATTTTTTAAATCAAGTGA
* ** * *
75436207 AACAATTTTAAATCAGGTGAAAATTTTTTGACCCAAGTGAAA
1 AACAATTTTAAATCAAGTGAAAAACTTTTAAACCAAGTGAAA
75436249 ATGATTTTAA
Statistics
Matches: 135, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
121 135 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (121 bp):
AACAATTTTAAATCAAGTGAAAAACTTTTAAACCAAGTGAAATTTTTTTGACTCAAGTGAAAAAC
ATTTTAAATCAAGTGAAACAGTTTTAAATCAAGGGAAAATTTTTTAAATCAAGTGA
Found at i:75436257 original size:81 final size:80
Alignment explanation
Indices: 75435965--75436289 Score: 287
Period size: 81 Copynumber: 4.0 Consensus size: 80
75435955 TAAACCCTTC
* * ** * *
75435965 AACAATTTTGAATCAAGTGAAAAAATTTTAAATCGAGTAAAACCA-TTTTAAATCAAGTGAAAAA
1 AACAATTTTAAATCAGGTGAAAATTTTTTAAATCGAGTGAAA-TAGTTTTAAATCAAGTG-AAAA
**
75436029 CATTTTAAATCAAGTGA
64 TTTTTTAAATCAAGTGA
* * * *
75436046 CACAGTTTTAAATCAAGG-GAAAATTTTTTAATTCGAGTGAAATAGTTTTAAATCAAGTGAAAAA
1 AACAATTTTAAATC-AGGTGAAAATTTTTTAAATCGAGTGAAATAGTTTTAAATCAAGTGAAAAT
* *
75436110 CTTTTAAATCGAGTGA
65 TTTTTAAATCAAGTGA
*** * * * * * *
75436126 AATTTTTTTGACTCAAGTGAAAATCATTTTAAATTGAGTTAAATAGTTTTAAATCAAGTGAAAAT
1 AACAATTTTAAATCAGGTGAAAAT-TTTTTAAATCGAGTGAAATAGTTTTAAATCAAGTGAAAAT
75436191 TTTTTAAATCAAGTGA
65 TTTTTAAATCAAGTGA
* ** * * **
75436207 AACAATTTTAAATCAGGTGAAAATTTTTTGACCCAAGTGAAA-ATGATTTTAAATCGAGTGAATT
1 AACAATTTTAAATCAGGTGAAAATTTTTTAAATCGAGTGAAATA-G-TTTTAAATCAAGTGAAAA
* *
75436271 TTTTTTGACTCAAGTGA
64 TTTTTTAAATCAAGTGA
75436288 AA
1 AA
75436290 AACGTTTAAC
Statistics
Matches: 194, Mismatches: 44, Indels: 12
0.78 0.18 0.05
Matches are distributed among these distances:
79 3 0.02
80 45 0.23
81 144 0.74
82 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (80 bp):
AACAATTTTAAATCAGGTGAAAATTTTTTAAATCGAGTGAAATAGTTTTAAATCAAGTGAAAATT
TTTTAAATCAAGTGA
Found at i:75440046 original size:17 final size:17
Alignment explanation
Indices: 75440021--75440103 Score: 58
Period size: 17 Copynumber: 4.6 Consensus size: 17
75440011 GGGTTAGTAG
* *
75440021 AAGAGAAGAGAAGAAAA
1 AAGAAAAGAAAAGAAAA
75440038 AAGAAAAGAAAAGAAAA
1 AAGAAAAGAAAAGAAAA
***
75440055 AAGGATAAAGATGGGAAAAA
1 AA-GA-AAAGAAAAG-AAAA
* *
75440075 AAGAAAATAAAGGAAATA
1 AAGAAAAGAAAAGAAA-A
*
75440093 AAGAAAGGAAA
1 AAGAAAAGAAA
75440104 CTAGAAAGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
17 20 0.38
18 18 0.35
19 8 0.15
20 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (17 bp):
AAGAAAAGAAAAGAAAA
Found at i:75440089 original size:18 final size:18
Alignment explanation
Indices: 75440034--75440103 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
75440024 AGAAGAGAAG
*
75440034 AAAAAAGAAAAGAAAAGA
1 AAAAAAGAAAAGAAAGGA
* **
75440052 AAAAAGGATAAAGATGGGA
1 AAAAAAGA-AAAGAAAGGA
*
75440071 AAAAAAGAAAATAAAGGA
1 AAAAAAGAAAAGAAAGGA
* *
75440089 AATAAAGAAAGGAAA
1 AAAAAAGAAAAGAAA
75440104 CTAGAAAGAA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
18 26 0.65
19 14 0.35
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAGGA
Found at i:75443995 original size:26 final size:27
Alignment explanation
Indices: 75443944--75443995 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
75443934 TAAATTATCT
* *
75443944 TTGAGTTTTTCTTTTCAAGAATTTTTC
1 TTGAGTTTTTCTTTTAAAGAAGTTTTC
75443971 TTGAG-TTTTCTTTTAAA-AGAGTTTT
1 TTGAGTTTTTCTTTTAAAGA-AGTTTT
75443996 AATAATCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 1 0.05
26 16 0.73
27 5 0.23
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (27 bp):
TTGAGTTTTTCTTTTAAAGAAGTTTTC
Found at i:75447387 original size:24 final size:24
Alignment explanation
Indices: 75447305--75447390 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
75447295 AAGAAATTTC
* **
75447305 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
75447329 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
75447354 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
75447378 AGCACTATGTGTG
1 AGCACTATGTGTG
75447391 TGAGGAAACA
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 31 0.65
25 17 0.35
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:75458724 original size:19 final size:19
Alignment explanation
Indices: 75458700--75458736 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75458690 ATTCCAAAAA
**
75458700 TAATATTATTTTAATAGTT
1 TAATATTAAATTAATAGTT
75458719 TAATATTAAATTAATAGT
1 TAATATTAAATTAATAGT
75458737 ATTTTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATATTAAATTAATAGTT
Found at i:75458734 original size:30 final size:30
Alignment explanation
Indices: 75458700--75458758 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
75458690 ATTCCAAAAA
* *
75458700 TAATATTATTTTAATAGTTTAATATTAAAT
1 TAATAGTATTTTAATAATTTAATATTAAAT
*
75458730 TAATAGTATTTTATTAATTTAATATTAAA
1 TAATAGTATTTTAATAATTTAATATTAAA
75458759 GTGATTATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
TAATAGTATTTTAATAATTTAATATTAAAT
Found at i:75458746 original size:25 final size:25
Alignment explanation
Indices: 75458718--75458780 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
75458708 TTTTAATAGT
*
75458718 TTAATATTAAATTAATAGT-ATTTTA
1 TTAATATTAAATTAA-AGTGATTATA
*
75458743 TTAAT-TTAATATTAAAGTGATTATC
1 TTAATATTAA-ATTAAAGTGATTATA
75458768 TTAATATTAAATT
1 TTAATATTAAATT
75458781 TAATTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 7 0.21
25 22 0.67
26 4 0.12
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (25 bp):
TTAATATTAAATTAAAGTGATTATA
Found at i:75458875 original size:58 final size:60
Alignment explanation
Indices: 75458767--75458882 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 60
75458757 AAGTGATTAT
* * * * *
75458767 CTTAATATTAAATTTAATTTAATTTTTATGTTGTACATAAATATTCTATTATTTTAATGAGA
1 CTTAATATTAAATTTAATCTAATATGTATGTTG-A-ATAAATATTATATTAATTTAATGAGA
75458829 CTTAATATTAAATTTAATCTAATATGTAT-TTG-ATAAATATTATATTAATTTAAT
1 CTTAATATTAAATTTAATCTAATATGTATGTTGAATAAATATTATATTAATTTAAT
75458883 TTTAAAGTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 20 0.41
61 3 0.06
62 26 0.53
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (60 bp):
CTTAATATTAAATTTAATCTAATATGTATGTTGAATAAATATTATATTAATTTAATGAGA
Found at i:75463126 original size:24 final size:24
Alignment explanation
Indices: 75463099--75463147 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
75463089 TCACCATTTC
75463099 ATTTA-ACATAAAACTCA-CTGTTTT
1 ATTTAGAC-TAAAACTCATC-GTTTT
75463123 ATTTAGACTAAAACTCATCGTTTT
1 ATTTAGACTAAAACTCATCGTTTT
75463147 A
1 A
75463148 ATAATAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (24 bp):
ATTTAGACTAAAACTCATCGTTTT
Found at i:75467045 original size:29 final size:30
Alignment explanation
Indices: 75467012--75467076 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
75467002 AAGAAATTTC
*
75467012 AAATTAGGGGGTTAAAT-TGAGAAA-AATGA
1 AAATTACGGGG-TAAATGTGAGAAATAATGA
* *
75467041 AAATTACGTGGTAAATGTGTGAAATAATGA
1 AAATTACGGGGTAAATGTGAGAAATAATGA
75467071 AAATTA
1 AAATTA
75467077 TGGGTTGTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.16
29 15 0.48
30 11 0.35
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.28
Consensus pattern (30 bp):
AAATTACGGGGTAAATGTGAGAAATAATGA
Found at i:75472449 original size:15 final size:15
Alignment explanation
Indices: 75472429--75472464 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
75472419 CTTGTATGAA
75472429 CTTGACACAACATAC
1 CTTGACACAACATAC
75472444 CTTGACACAACATAC
1 CTTGACACAACATAC
75472459 CTTGAC
1 CTTGAC
75472465 TTTAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.08, T:0.22
Consensus pattern (15 bp):
CTTGACACAACATAC
Found at i:75473634 original size:31 final size:31
Alignment explanation
Indices: 75473501--75473646 Score: 129
Period size: 31 Copynumber: 4.8 Consensus size: 31
75473491 TATGACGACC
* * * *
75473501 AACACCAATATATAGTACATGATAAGATATA
1 AACACCGATACATAGTACCTGATAATATATA
* *
75473532 AACACCGACACATAGTTCCTGATACA-ATATA
1 AACACCGATACATAGTACCTGATA-ATATATA
* * *
75473563 AACACCGATACAAAGTACCTAATAATATAGTC
1 AACACCGATACATAGTACCTGATAATATA-TA
*
75473595 ATCA--G-TACATAGTACCTGATAATATATA
1 AACACCGATACATAGTACCTGATAATATATA
* * *
75473623 ATCAGCGGTACATAGTACCTGATA
1 AACACCGATACATAGTACCTGATA
75473647 CTTTAAAACC
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
28 5 0.05
29 19 0.20
30 3 0.03
31 63 0.66
32 5 0.05
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (31 bp):
AACACCGATACATAGTACCTGATAATATATA
Found at i:75476766 original size:20 final size:20
Alignment explanation
Indices: 75476741--75476781 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
75476731 ATTTCTAAAC
*
75476741 TTCAAAATATACAATTAACA
1 TTCAAAAGATACAATTAACA
* *
75476761 TTCAAAAGCTTCAATTAACA
1 TTCAAAAGATACAATTAACA
75476781 T
1 T
75476782 CAATAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (20 bp):
TTCAAAAGATACAATTAACA
Found at i:75477303 original size:46 final size:45
Alignment explanation
Indices: 75477253--75477391 Score: 104
Period size: 46 Copynumber: 3.0 Consensus size: 45
75477243 ATTGCCTCAC
75477253 TGTTTTGCTGCTGGTTGTTTTTAGTTTAAACTGCTAATTGTTGTAT
1 TGTTTTG-TGCTGGTTGTTTTTAGTTTAAACTGCTAATTGTTGTAT
* * * ** * * *
75477299 TGTTTCAGTACT-GTTATTTTCGGCTTAAAATTGCTGAA-TGTTAG-AA
1 TGTTT-TGTGCTGGTTGTTTTTAG-TTTAAACTGCT-AATTGTT-GTAT
* **
75477345 TGTTTTGTTGCTGATTGTTTTTAGTTTAAACTGCCGATTGTTGTAT
1 TGTTTTG-TGCTGGTTGTTTTTAGTTTAAACTGCTAATTGTTGTAT
75477391 T
1 T
75477392 ATTTCATTAC
Statistics
Matches: 66, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
45 11 0.17
46 44 0.67
47 11 0.17
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.51
Consensus pattern (45 bp):
TGTTTTGTGCTGGTTGTTTTTAGTTTAAACTGCTAATTGTTGTAT
Found at i:75477357 original size:92 final size:92
Alignment explanation
Indices: 75477253--75477449 Score: 304
Period size: 92 Copynumber: 2.1 Consensus size: 92
75477243 ATTGCCTCAC
* * *
75477253 TGTTTTGCTGCTGGTTGTTTTTAGTTTAAACTGCTAATTGTTGTATTGTTTCAGTACTGTTATTT
1 TGTTTTGCTGCTGATTGTTTTTAGTTTAAACTGCCAATTGTTGTATTATTTCAGTACTGTTATTT
*
75477318 TCGGCTTAAAATTGCTGAATGTTAGAA
66 TCGGCTTAAAATAGCTGAATGTTAGAA
* * *
75477345 TGTTTTGTTGCTGATTGTTTTTAGTTTAAACTGCCGATTGTTGTATTATTTCATTACTGTTATTT
1 TGTTTTGCTGCTGATTGTTTTTAGTTTAAACTGCCAATTGTTGTATTATTTCAGTACTGTTATTT
**
75477410 TCGGCTTAAAATAGCTGAATGTTAGGC
66 TCGGCTTAAAATAGCTGAATGTTAGAA
*
75477437 TATTTTGCTGCTG
1 TGTTTTGCTGCTG
75477450 TTAATTTTAC
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (92 bp):
TGTTTTGCTGCTGATTGTTTTTAGTTTAAACTGCCAATTGTTGTATTATTTCAGTACTGTTATTT
TCGGCTTAAAATAGCTGAATGTTAGAA
Found at i:75478736 original size:46 final size:46
Alignment explanation
Indices: 75478589--75478809 Score: 154
Period size: 46 Copynumber: 4.8 Consensus size: 46
75478579 ATAGGGTAGG
* *
75478589 ATGCCGATGCCATGTCCCGGACATGGTCTTACACTAG--CTCAACTC-
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTCATCTCA
* * * * * *
75478634 GTAGTCGATGCATGTCCTAGACATGTCTTACACTGGCTT-ACATCTCG
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAG-TTCTCATCTCA
* *
75478681 A-GACTGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTCTCA
1 ATG-CCGATGCATGTCCCAGACATGTCTTACACTAGTTCTCATCTCA
* *
75478727 ATGCCGATGCCATGTCCCATACATGGTCTTACACT-G-GCTC-TCGT-A
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTCATC-TCA
**
75478772 ATGTGGCTAATGCATGTCCCAGACATGTCTTACACTAG
1 A--T-GCCGATGCATGTCCCAGACATGTCTTACACTAG
75478810 CTCACAATAA
Statistics
Matches: 140, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
44 11 0.08
45 20 0.14
46 64 0.46
47 30 0.21
48 15 0.11
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGTTCTCATCTCA
Found at i:75478765 original size:94 final size:92
Alignment explanation
Indices: 75478639--75478809 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
75478629 AACTCGTAGT
* * *
75478639 CGATGCATGTCCTAGACATGTCTTACACTGGCT-TACAT-CTCGAGACTGATGCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGACTAATGCATGTCCCAGAC
75478702 ATGTCTTACACTAGTTCTCGTCTCAATGC
64 ATGTCTTACACTAGTTCTCGTCTCAATGC
* * * *
75478731 CGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCGTAATGTGGCTAATGCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGACTAATGCATGTCCCAGAC
75478796 ATGTCTTACACTAG
64 ATGTCTTACACTAG
75478810 CTCACAATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 5 0.07
93 12 0.18
94 49 0.72
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGACTAATGCATGTCCCAGACAT
GTCTTACACTAGTTCTCGTCTCAATGC
Found at i:75479477 original size:23 final size:22
Alignment explanation
Indices: 75479451--75479509 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
75479441 TTTTTAAATT
75479451 TTTAAATTTTGAATTAATTCAAA
1 TTTAAATTTTGAATT-ATTCAAA
*
75479474 TTT-AATGTTTGAATTATTTAAA
1 TTTAAAT-TTTGAATTATTCAAA
*
75479496 TTTAAA-ATTGAATT
1 TTTAAATTTTGAATT
75479510 CAATCGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 7 0.22
22 12 0.38
23 13 0.41
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTAAATTTTGAATTATTCAAA
Found at i:75479499 original size:22 final size:23
Alignment explanation
Indices: 75479458--75479500 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
75479448 ATTTTTAAAT
75479458 TTTGAATTAATTCAAATTTAATG
1 TTTGAATTAATTCAAATTTAATG
*
75479481 TTTGAATT-ATTTAAATTTAA
1 TTTGAATTAATTCAAATTTAA
75479501 AATTGAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (23 bp):
TTTGAATTAATTCAAATTTAATG
Found at i:75482800 original size:5 final size:5
Alignment explanation
Indices: 75482790--75482819 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
75482780 ATCCTAAATT
*
75482790 AATAA AATAA AATAA AATAA AACAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA
75482820 TATCTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:75483664 original size:5 final size:5
Alignment explanation
Indices: 75483654--75483683 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
75483644 ATCCTAAATT
*
75483654 AATAA AATAA AATAA AATAA AACAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA
75483684 TATCTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:75483986 original size:864 final size:864
Alignment explanation
Indices: 75482318--75484048 Score: 3435
Period size: 864 Copynumber: 2.0 Consensus size: 864
75482308 CTTTGACTTG
75482318 AAATCGAATTTAACTTTAAGGGATGATTGGTCTATCCCGATACTTAGGAAAAAAATGAATACCGA
1 AAATCGAATTTAACTTTAAGGGATGATTGGTCTATCCCGATACTTAGGAAAAAAATGAATACCGA
75482383 TGGGACGAATTTTTTTAACACAAATTTGTATCTCACGATTTCTGACCGGAAAGAACACCGGGCTA
66 TGGGACGAATTTTTTTAACACAAATTTGTATCTCACGATTTCTGACCGGAAAGAACACCGGGCTA
75482448 AAGCTAAGAAGAAATTTAGTTAAGCATGAAATTGTTCATGCTTTGTGAGCTTGGAAAGGAGATTG
131 AAGCTAAGAAGAAATTTAGTTAAGCATGAAATTGTTCATGCTTTGTGAGCTTGGAAAGGAGATTG
75482513 ATGATTATGGTGAAGCAATGAATGGAAAAGACTTGGAGAGCAATTAACCCAATTATGGAAAACAA
196 ATGATTATGGTGAAGCAATGAATGGAAAAGACTTGGAGAGCAATTAACCCAATTATGGAAAACAA
75482578 ACAAAAATTAGAGACAATGCTACAAAATGTAACGTAAAATTGAAGGGAAAAAAATGATATTCCAA
261 ACAAAAATTAGAGACAATGCTACAAAATGTAACGTAAAATTGAAGGGAAAAAAATGATATTCCAA
75482643 TTCCAAATTGGAGAAGGAAATACAAGAGAGAGAGTAATTCAATTACCAATTGAAATAGGAACGTA
326 TTCCAAATTGGAGAAGGAAATACAAGAGAGAGAGTAATTCAATTACCAATTGAAATAGGAACGTA
75482708 AAGACAAAGGATGATCTTTCTAAGAACTAAAAGCCCTTATTTATATACACGGGGTTTACTAAAAA
391 AAGACAAAGGATGATCTTTCTAAGAACTAAAAGCCCTTATTTATATACACGGGGTTTACTAAAAA
75482773 TAGCATAATCCTAAATTAATAAAATAAAATAAAATAAAACAAAATAATATCTTCTATTTTTAGCT
456 TAGCATAATCCTAAATTAATAAAATAAAATAAAATAAAACAAAATAATATCTTCTATTTTTAGCT
75482838 TTTTACAAAGTCAAAATTTATGTTAAATCCTTGGCCTTCCCCATTTTTTTGATTTGGCCCTAACT
521 TTTTACAAAGTCAAAATTTATGTTAAATCCTTGGCCTTCCCCATTTTTTTGATTTGGCCCTAACT
75482903 CAACGATTTGTCTTTCAATTTGGCCCCCTTTTGCTCGTTTTTGACCAATTGCATCCTTGACAAGA
586 CAACGATTTGTCTTTCAATTTGGCCCCCTTTTGCTCGTTTTTGACCAATTGCATCCTTGACAAGA
75482968 TTAAATCATAAAAACACCAATTAAGCAGGGATTAATTCAGAAATAAACCAAATTAAACACAAGAA
651 TTAAATCATAAAAACACCAATTAAGCAGGGATTAATTCAGAAATAAACCAAATTAAACACAAGAA
75483033 TTATGTAAATTAATATGTTTATCAACTCCTCTCTACTTAGCTCATGCTTGCCCTCAAGCATGTTG
716 TTATGTAAATTAATATGTTTATCAACTCCTCTCTACTTAGCTCATGCTTGCCCTCAAGCATGTTG
75483098 TTCTTTCAAACATTAAATTTATTGTACAATTTTTAAAATCGAGCCTCTTTTCGCATACATAATCA
781 TTCTTTCAAACATTAAATTTATTGTACAATTTTTAAAATCGAGCCTCTTTTCGCATACATAATCA
75483163 ATGTAAACAACTTAGGCAA
846 ATGTAAACAACTTAGGCAA
75483182 AAATCGAATTTAACTTTAAGGGATGATTGGTCTATCCCGATACTTAGGAAAAAAATGAATACCGA
1 AAATCGAATTTAACTTTAAGGGATGATTGGTCTATCCCGATACTTAGGAAAAAAATGAATACCGA
75483247 TGGGACGAATTTTTTTAACACAAATTTGTATCTCACGATTTCTGACCGGAAAGAACACCGGGCTA
66 TGGGACGAATTTTTTTAACACAAATTTGTATCTCACGATTTCTGACCGGAAAGAACACCGGGCTA
75483312 AAGCTAAGAAGAAATTTAGTTAAGCATGAAATTGTTCATGCTTTGTGAGCTTGGAAAGGAGATTG
131 AAGCTAAGAAGAAATTTAGTTAAGCATGAAATTGTTCATGCTTTGTGAGCTTGGAAAGGAGATTG
75483377 ATGATTATGGTGAAGCAATGAATGGAAAAGACTTGGAGAGCAATTAACCCAATTATGGAAAACAA
196 ATGATTATGGTGAAGCAATGAATGGAAAAGACTTGGAGAGCAATTAACCCAATTATGGAAAACAA
75483442 ACAAAAATTAGAGACAATGCTACAAAATGTAACGTAAAATTGAAGGGAAAAAAATGATATTCCAA
261 ACAAAAATTAGAGACAATGCTACAAAATGTAACGTAAAATTGAAGGGAAAAAAATGATATTCCAA
* *
75483507 TTCCAAATTGGAGAAGGAAATACAAGAGAGAGAGTAATTTAATTCCCAATTGAAATAGGAACGTA
326 TTCCAAATTGGAGAAGGAAATACAAGAGAGAGAGTAATTCAATTACCAATTGAAATAGGAACGTA
75483572 AAGACAAAGGATGATCTTTCTAAGAACTAAAAGCCCTTATTTATATACACGGGGTTTACTAAAAA
391 AAGACAAAGGATGATCTTTCTAAGAACTAAAAGCCCTTATTTATATACACGGGGTTTACTAAAAA
75483637 TAGCATAATCCTAAATTAATAAAATAAAATAAAATAAAACAAAATAATATCTTCTATTTTTAGCT
456 TAGCATAATCCTAAATTAATAAAATAAAATAAAATAAAACAAAATAATATCTTCTATTTTTAGCT
75483702 TTTTACAAAGTCAAAATTTATGTTAAATCCTTGGCCTTCCCCATTTTTTTGATTTGGCCCTAACT
521 TTTTACAAAGTCAAAATTTATGTTAAATCCTTGGCCTTCCCCATTTTTTTGATTTGGCCCTAACT
*
75483767 CAACGATTTGTCTTTCAATTTGGCCCCTTTTTGCTCGTTTTTGACCAATTGCATCCTTGACAAGA
586 CAACGATTTGTCTTTCAATTTGGCCCCCTTTTGCTCGTTTTTGACCAATTGCATCCTTGACAAGA
75483832 TTAAATCATAAAAACACCAATTAAGCAGGGATTAATTCAGAAATAAACCAAATTAAACACAAGAA
651 TTAAATCATAAAAACACCAATTAAGCAGGGATTAATTCAGAAATAAACCAAATTAAACACAAGAA
75483897 TTATGTAAATTAATATGTTTATCAACTCCTCTCTACTTAGCTCATGCTTGCCCTCAAGCATGTTG
716 TTATGTAAATTAATATGTTTATCAACTCCTCTCTACTTAGCTCATGCTTGCCCTCAAGCATGTTG
75483962 TTCTTTCAAACATTAAATTTATTGTACAATTTTTAAAATCGAGCCTCTTTTCGCATACATAATCA
781 TTCTTTCAAACATTAAATTTATTGTACAATTTTTAAAATCGAGCCTCTTTTCGCATACATAATCA
75484027 ATGTAAACAACTTAGGCAA
846 ATGTAAACAACTTAGGCAA
75484046 AAA
1 AAA
75484049 ATAAATAAAT
Statistics
Matches: 864, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
864 864 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (864 bp):
AAATCGAATTTAACTTTAAGGGATGATTGGTCTATCCCGATACTTAGGAAAAAAATGAATACCGA
TGGGACGAATTTTTTTAACACAAATTTGTATCTCACGATTTCTGACCGGAAAGAACACCGGGCTA
AAGCTAAGAAGAAATTTAGTTAAGCATGAAATTGTTCATGCTTTGTGAGCTTGGAAAGGAGATTG
ATGATTATGGTGAAGCAATGAATGGAAAAGACTTGGAGAGCAATTAACCCAATTATGGAAAACAA
ACAAAAATTAGAGACAATGCTACAAAATGTAACGTAAAATTGAAGGGAAAAAAATGATATTCCAA
TTCCAAATTGGAGAAGGAAATACAAGAGAGAGAGTAATTCAATTACCAATTGAAATAGGAACGTA
AAGACAAAGGATGATCTTTCTAAGAACTAAAAGCCCTTATTTATATACACGGGGTTTACTAAAAA
TAGCATAATCCTAAATTAATAAAATAAAATAAAATAAAACAAAATAATATCTTCTATTTTTAGCT
TTTTACAAAGTCAAAATTTATGTTAAATCCTTGGCCTTCCCCATTTTTTTGATTTGGCCCTAACT
CAACGATTTGTCTTTCAATTTGGCCCCCTTTTGCTCGTTTTTGACCAATTGCATCCTTGACAAGA
TTAAATCATAAAAACACCAATTAAGCAGGGATTAATTCAGAAATAAACCAAATTAAACACAAGAA
TTATGTAAATTAATATGTTTATCAACTCCTCTCTACTTAGCTCATGCTTGCCCTCAAGCATGTTG
TTCTTTCAAACATTAAATTTATTGTACAATTTTTAAAATCGAGCCTCTTTTCGCATACATAATCA
ATGTAAACAACTTAGGCAA
Found at i:75485894 original size:10 final size:10
Alignment explanation
Indices: 75485874--75485918 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
75485864 GCCTAATCCT
75485874 AAATT-AATA
1 AAATTAAATA
75485883 AAATTAAATA
1 AAATTAAATA
75485893 AAATTAAATAATA
1 AAATT--A-AATA
75485906 AAATTAAATA
1 AAATTAAATA
75485916 AAA
1 AAA
75485919 CAAAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.16
10 16 0.50
11 1 0.03
12 1 0.03
13 9 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATTAAATA
Found at i:75485907 original size:13 final size:13
Alignment explanation
Indices: 75485873--75485916 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
75485863 AGCCTAATCC
75485873 TAAATTAATAAAAT
1 TAAA-TAATAAAAT
75485887 T--A-AATAAAAT
1 TAAATAATAAAAT
75485897 TAAATAATAAAAT
1 TAAATAATAAAAT
75485910 TAAATAA
1 TAAATAA
75485917 AACAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.33
12 2 0.07
13 15 0.56
14 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATAATAAAAT
Found at i:75485908 original size:23 final size:23
Alignment explanation
Indices: 75485872--75485928 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
75485862 TAGCCTAATC
75485872 CTAAATTAATAAAATTAAATAAAA
1 CTAAA-TAATAAAATTAAATAAAA
*
75485896 TTAAATAATAAAATTAAATAAAA
1 CTAAATAATAAAATTAAATAAAA
*
75485919 CAAAATAATA
1 CTAAATAATA
75485929 TCTTCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
CTAAATAATAAAATTAAATAAAA
Found at i:75488781 original size:15 final size:15
Alignment explanation
Indices: 75488755--75488794 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
75488745 TGTTTAATTT
75488755 TCTTTTTCTTTTTCTC
1 TCTTTTT-TTTTTCTC
75488771 TCTTTTTTTTTTCTC
1 TCTTTTTTTTTTCTC
75488786 T-TTTTTTTT
1 TCTTTTTTTT
75488795 CTTTGGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.33
15 9 0.38
16 7 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TCTTTTTTTTTTCTC
Found at i:75488785 original size:13 final size:13
Alignment explanation
Indices: 75488752--75488794 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
75488742 GGGTGTTTAA
75488752 TTTTCT-TTTTCTT
1 TTTTCTCTTTT-TT
75488765 TTTCTCTCTTTTTT
1 TTT-TCTCTTTTTT
75488779 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
75488792 TTT
1 TTT
75488795 CTTTGGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 16 0.57
14 8 0.29
15 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTCTTTTTT
Found at i:75493175 original size:18 final size:18
Alignment explanation
Indices: 75493152--75493198 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
75493142 TCCCTATCTT
**
75493152 GACTAGTGTCATGGGTGC
1 GACTAGTGTCATGGCCGC
*
75493170 GACTAGTGTCGTGGCCGC
1 GACTAGTGTCATGGCCGC
*
75493188 GACTTGTGTCA
1 GACTAGTGTCA
75493199 AGTACGGGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.36, T:0.28
Consensus pattern (18 bp):
GACTAGTGTCATGGCCGC
Found at i:75495804 original size:5 final size:5
Alignment explanation
Indices: 75495794--75495823 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
75495784 ATCCTAAATT
*
75495794 AATAA AATAA AATAA AATAA AACAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA
75495824 TATCTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:75496369 original size:25 final size:26
Alignment explanation
Indices: 75496337--75496398 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
75496327 ATTAGCCCTC
*
75496337 TCAG-GCTTCTCGA-TATATGGCTC-T
1 TCAGAGCTTCTCGATTA-AGGGCTCTT
75496361 TCAGAGCTTCTCGATTAAGGGCTCTT
1 TCAGAGCTTCTCGATTAAGGGCTCTT
75496387 TCATGAGCTTCT
1 TCA-GAGCTTCT
75496399 TGTTAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 4 0.12
25 15 0.45
26 6 0.18
27 8 0.24
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
TCAGAGCTTCTCGATTAAGGGCTCTT
Found at i:75496511 original size:24 final size:24
Alignment explanation
Indices: 75496477--75496536 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
75496467 AGTTCCTGTT
* *
75496477 ATATGGCTCTTTGTGAGCTTTCTG
1 ATATGGCTCTTTGTGAACTTCCTG
*
75496501 ATATGGTTCTTTGTGAACTTCCTG
1 ATATGGCTCTTTGTGAACTTCCTG
75496525 ATTATGGCTCTT
1 A-TATGGCTCTT
75496537 ATGAGTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 22 0.71
25 9 0.29
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.47
Consensus pattern (24 bp):
ATATGGCTCTTTGTGAACTTCCTG
Found at i:75505788 original size:30 final size:30
Alignment explanation
Indices: 75505754--75505821 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
75505744 TGGGAGGGAA
75505754 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
75505784 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
75505814 CCGTGTGT
1 CCGTGTGT
75505822 TCAACCATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.16
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACACGC
Found at i:75506461 original size:23 final size:23
Alignment explanation
Indices: 75506435--75506487 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
75506425 AATTAGCAAA
*
75506435 CATCCATACTTATTTCATGAAAT
1 CATCCATACTTATTTCAAGAAAT
75506458 CATCCATACTTATTTCAAGAAAT
1 CATCCATACTTATTTCAAGAAAT
75506481 CATCCAT
1 CATCCAT
75506488 TATGAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (23 bp):
CATCCATACTTATTTCAAGAAAT
Found at i:75511886 original size:21 final size:22
Alignment explanation
Indices: 75511862--75511909 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
75511852 AAAATAATTT
75511862 TTTAAAT-ACTA-ATTATAAATA
1 TTTAAATGACTATATT-TAAATA
*
75511883 TTT-AATGGCTATATTTAAATA
1 TTTAAATGACTATATTTAAATA
75511904 TTTAAA
1 TTTAAA
75511910 ATATAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (22 bp):
TTTAAATGACTATATTTAAATA
Found at i:75512557 original size:11 final size:11
Alignment explanation
Indices: 75512541--75512583 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
75512531 TAGAATATAC
75512541 CCCATACCTTG
1 CCCATACCTTG
*
75512552 CCCATACCTTT
1 CCCATACCTTG
*
75512563 CCCATACC-TA
1 CCCATACCTTG
75512573 CCCATACCTTG
1 CCCATACCTTG
75512584 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:75512578 original size:21 final size:22
Alignment explanation
Indices: 75512541--75512582 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
75512531 TAGAATATAC
*
75512541 CCCATACCTTGCCCATACCTTT
1 CCCATACCTTACCCATACCTTT
75512563 CCCATACC-TACCCATACCTT
1 CCCATACCTTACCCATACCTT
75512583 GGAAAGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (22 bp):
CCCATACCTTACCCATACCTTT
Found at i:75513141 original size:18 final size:18
Alignment explanation
Indices: 75513115--75513189 Score: 107
Period size: 18 Copynumber: 4.2 Consensus size: 18
75513105 TACGACCGTT
* *
75513115 TACGGTACTATTCACATA
1 TACGATACTATTCACGTA
75513133 TACGATACTATTCACGTA
1 TACGATACTATTCACGTA
75513151 TACAGA-ACTATTCACGTA
1 TAC-GATACTATTCACGTA
*
75513169 TACGGTACTATTCACGTA
1 TACGATACTATTCACGTA
75513187 TAC
1 TAC
75513190 AGTAGTTGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
17 1 0.02
18 49 0.94
19 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (18 bp):
TACGATACTATTCACGTA
Found at i:75513171 original size:36 final size:36
Alignment explanation
Indices: 75513121--75513191 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
75513111 CGTTTACGGT
75513121 ACTATTCACATATACGATACTATTCACGTATACAGA
1 ACTATTCACATATACGATACTATTCACGTATACAGA
* *
75513157 ACTATTCACGTATACGGTACTATTCACGTATACAG
1 ACTATTCACATATACGATACTATTCACGTATACAG
75513192 TAGTTGGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (36 bp):
ACTATTCACATATACGATACTATTCACGTATACAGA
Found at i:75520988 original size:40 final size:40
Alignment explanation
Indices: 75520883--75521028 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
75520873 GCTACTCGTT
*
75520883 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
75520923 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
75520963 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
75521004 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
75521029 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.03
40 75 0.82
41 13 0.14
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:75524078 original size:12 final size:12
Alignment explanation
Indices: 75524047--75524071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75524037 AATTTCTCCT
75524047 TCTTTTTCTTTC
1 TCTTTTTCTTTC
75524059 TCTTTTTCTTTC
1 TCTTTTTCTTTC
75524071 T
1 T
75524072 TTCTTTCCTT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:75524169 original size:5 final size:5
Alignment explanation
Indices: 75524161--75524185 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
75524151 TTATTAAACA
75524161 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
75524186 TATTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:75524330 original size:5 final size:5
Alignment explanation
Indices: 75524315--75524348 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
75524305 ATTTTATATT
75524315 TATAA TAATAA TATAA TATAA TAT-A TATAA TATA
1 TATAA T-ATAA TATAA TATAA TATAA TATAA TATA
75524349 TTTACTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:75524336 original size:16 final size:14
Alignment explanation
Indices: 75524319--75524348 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
75524309 TATATTTATA
75524319 ATAATA-ATATAAT
1 ATAATATATATAAT
75524332 ATAATATATATAAT
1 ATAATATATATAAT
75524346 ATA
1 ATA
75524349 TTTACTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATATATATAAT
Done.