Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 123 of 226
Found at i:38083547 original size:89 final size:89
Alignment explanation
Indices: 38083396--38083575 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 89
38083386 TACTCAATGC
*
38083396 AGAAGATTTTTTGTACATGGATATCCGACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
1 AGAAGATTTTTTGTACATGGATATCCAACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
38083461 AACTGTAGCAAAAACCAGTAGTTT
66 AACTGTAGCAAAAACCAGTAGTTT
38083485 AGAAGATTTTTTGTACATGGATATCCAACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
1 AGAAGATTTTTTGTACATGGATATCCAACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
38083550 AACTGTAGCAAAAACCAGTAGTTT
66 AACTGTAGCAAAAACCAGTAGTTT
38083574 AG
1 AG
38083576 TCTTTGTGTT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (89 bp):
AGAAGATTTTTTGTACATGGATATCCAACAAATGCGAATCACTGAGTCCCATAAATGAAACATTT
AACTGTAGCAAAAACCAGTAGTTT
Found at i:38088236 original size:4 final size:4
Alignment explanation
Indices: 38088227--38088260 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
38088217 AGGATGTACT
* *
38088227 TGGA TGGA TGGA TGGA TGGG TGGA TGGA AGGA TG
1 TGGA TGGA TGGA TGGA TGGA TGGA TGGA TGGA TG
38088261 AAAAGAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.53, T:0.24
Consensus pattern (4 bp):
TGGA
Found at i:38091324 original size:16 final size:16
Alignment explanation
Indices: 38091291--38091324 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38091281 TTTAGTTGTT
* *
38091291 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
38091307 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
38091323 AA
1 AA
38091325 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:38094150 original size:21 final size:21
Alignment explanation
Indices: 38094124--38094164 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38094114 AGACGAGCAA
* *
38094124 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
38094145 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
38094165 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:38096102 original size:16 final size:16
Alignment explanation
Indices: 38096069--38096102 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38096059 GGAGATTGTT
* *
38096069 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
38096085 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
38096101 AA
1 AA
38096103 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:38097044 original size:18 final size:18
Alignment explanation
Indices: 38097021--38097063 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
38097011 TGTTTGACTA
*
38097021 CCCTTCTTCTCCCCTTTC
1 CCCTTCCTCTCCCCTTTC
*
38097039 CCCTTCCTCTTCCCTTTC
1 CCCTTCCTCTCCCCTTTC
38097057 CCCTTCC
1 CCCTTCC
38097064 CCTTGGGTTG
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:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
CCCTTCCTCTCCCCTTTC
Found at i:38099908 original size:12 final size:12
Alignment explanation
Indices: 38099880--38099912 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38099870 ATGCAACAGG
38099880 AAACCAGC-TGC
1 AAACCAGCATGC
38099891 AAACCAGCATGC
1 AAACCAGCATGC
*
38099903 AGACCAGCAT
1 AAACCAGCAT
38099913 CCAAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.39, C:0.33, G:0.18, T:0.09
Consensus pattern (12 bp):
AAACCAGCATGC
Found at i:38100432 original size:19 final size:18
Alignment explanation
Indices: 38100394--38100443 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
38100384 AATATAATTG
38100394 TAATAATTTTTAATCATT
1 TAATAATTTTTAATCATT
* **
38100412 TATTAATTTTGTAATTGTT
1 TAATAATTTT-TAATCATT
38100431 TAATAATTTTTAA
1 TAATAATTTTTAA
38100444 AACTTGTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
TAATAATTTTTAATCATT
Found at i:38103514 original size:40 final size:40
Alignment explanation
Indices: 38103470--38103551 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
38103460 GTTAAAGGTA
38103470 GGCTTGTATATTTTGTTGTGTGGCCGGGGTTTTAAGTGTT
1 GGCTTGTATATTTTGTTGTGTGGCCGGGGTTTTAAGTGTT
38103510 GGCTTGTATATTTTGTTGTGTGGCCGGGGTTTTAAGTGTT
1 GGCTTGTATATTTTGTTGTGTGGCCGGGGTTTTAAGTGTT
38103550 GG
1 GG
38103552 AATCAGGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.10, C:0.07, G:0.37, T:0.46
Consensus pattern (40 bp):
GGCTTGTATATTTTGTTGTGTGGCCGGGGTTTTAAGTGTT
Found at i:38103533 original size:21 final size:21
Alignment explanation
Indices: 38103470--38103533 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 21
38103460 GTTAAAGGTA
38103470 GGCTTGTATATTTTGTTGTGT
1 GGCTTGTATATTTTGTTGTGT
** ** *
38103491 GGCCGGGGT-TTTAAG-TGT-T
1 GGCTTGTATATTT-TGTTGTGT
38103510 GGCTTGTATATTTTGTTGTGT
1 GGCTTGTATATTTTGTTGTGT
38103531 GGC
1 GGC
38103534 CGGGGTTTTA
Statistics
Matches: 29, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
19 7 0.24
20 12 0.41
21 10 0.34
ACGTcount: A:0.09, C:0.08, G:0.34, T:0.48
Consensus pattern (21 bp):
GGCTTGTATATTTTGTTGTGT
Found at i:38104377 original size:4 final size:4
Alignment explanation
Indices: 38104370--38104418 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
38104360 TTATATATAG
* * * * *
38104370 ACAC ACAC ACAC ACAC ACAC GCAC ACGC ACAC GCAC ACAT ACAC TCAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
38104418 A
1 A
38104419 AATACAATGA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.43, C:0.47, G:0.06, T:0.04
Consensus pattern (4 bp):
ACAC
Found at i:38104381 original size:6 final size:6
Alignment explanation
Indices: 38104370--38104418 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
38104360 TTATATATAG
* * * * *
38104370 ACACAC ACACAC ACACAC ACGCAC ACGCAC ACGCAC ACATAC ACTCAC
1 ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC
38104418 A
1 A
38104419 AATACAATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.43, C:0.47, G:0.06, T:0.04
Consensus pattern (6 bp):
ACACAC
Found at i:38104387 original size:12 final size:12
Alignment explanation
Indices: 38104370--38104418 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
38104360 TTATATATAG
*
38104370 ACACACACACAC
1 ACACACACGCAC
38104382 ACACACACGCAC
1 ACACACACGCAC
*
38104394 ACGCACACGCAC
1 ACACACACGCAC
* *
38104406 ACATACACTCAC
1 ACACACACGCAC
38104418 A
1 A
38104419 AATACAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.43, C:0.47, G:0.06, T:0.04
Consensus pattern (12 bp):
ACACACACGCAC
Found at i:38108019 original size:43 final size:44
Alignment explanation
Indices: 38107943--38108025 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
38107933 CAATCGCAGG
* * *
38107943 AATTAGTAGAATACTCTATTGAGGCTTTATTTTTT-TCCCCCAC
1 AATTAGTAGAATACTCAACTGAGCCTTTATTTTTTCTCCCCCAC
* * *
38107986 AATTTGTAGAATATTCAACTGAGCCTTTCTTTTTTCTCCC
1 AATTAGTAGAATACTCAACTGAGCCTTTATTTTTTCTCCC
38108026 AAAAATTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 29 0.88
44 4 0.12
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (44 bp):
AATTAGTAGAATACTCAACTGAGCCTTTATTTTTTCTCCCCCAC
Found at i:38111899 original size:20 final size:21
Alignment explanation
Indices: 38111846--38111899 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
38111836 GTAGCATAAA
*
38111846 GATTCAAAGCATCAAACAATC
1 GATTTAAAGCATCAAACAATC
*
38111867 GATTTAAA-TATCAAACAAT-
1 GATTTAAAGCATCAAACAATC
*
38111886 TATTTAAAGCATCA
1 GATTTAAAGCATCA
38111900 TTCAATCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 14 0.50
21 7 0.25
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (21 bp):
GATTTAAAGCATCAAACAATC
Found at i:38114763 original size:41 final size:40
Alignment explanation
Indices: 38114688--38114768 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
38114678 ATCCCGAACC
* * *
38114688 GACAAAATTCTCCTGCCTCTAATTGTGCCCCTTTTATATG
1 GACAAAATTCTCATGCCCCTAATTATGCCCCTTTTATATG
* *
38114728 GACAAAATTCTCATGCTCCCTAATTATTCTCCTTTTATATG
1 GACAAAATTCTCATGC-CCCTAATTATGCCCCTTTTATATG
38114769 CCCCTCCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 15 0.43
41 20 0.57
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.40
Consensus pattern (40 bp):
GACAAAATTCTCATGCCCCTAATTATGCCCCTTTTATATG
Found at i:38115167 original size:22 final size:20
Alignment explanation
Indices: 38115141--38115184 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
38115131 CATAATGTAC
38115141 TAAAATAATTAATACATTATAT
1 TAAAATAA-T-ATACATTATAT
*
38115163 TAAAATAATGTACATTATAT
1 TAAAATAATATACATTATAT
38115183 TA
1 TA
38115185 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 1 0.05
22 8 0.38
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAAATAATATACATTATAT
Found at i:38115364 original size:22 final size:20
Alignment explanation
Indices: 38115338--38115381 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
38115328 CATAATGTAC
38115338 TAAAATAATTAATACATTATAT
1 TAAAATAA-T-ATACATTATAT
*
38115360 TAAAATAATGTACATTATAT
1 TAAAATAATATACATTATAT
38115380 TA
1 TA
38115382 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 1 0.05
22 8 0.38
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAAATAATATACATTATAT
Found at i:38115576 original size:150 final size:154
Alignment explanation
Indices: 38115410--38116096 Score: 961
Period size: 153 Copynumber: 4.5 Consensus size: 154
38115400 GTACTAAAGT
38115410 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTAT-TTTTTTTAAAGTAAT
1 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAAT
* *
38115474 AAAATCTAGGAAAAAAAATACGAATAAAGGGCCGAAATAAGAG-TTTTTTTAAATTTA-TTAAAA
66 AAAATCTCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGAGATTTTTTTAAATTTATTTAAAA
* * *
38115537 AA-ATAGTAAATTAATACATTTCA
131 AACACACTAAATTAATACATTTAA
38115560 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATA-T-TATTTTTTTAAAAGTAA
1 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTT-AAAGTAA
** *
38115623 TAAAAT-TCGGGGAAAAAATACGAACAAAGGGCCGAAATAATA-ATTTTTTTAAAAATTTATTTA
65 TAAAATCTCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGAGATTTTTTT--AAATTTATTTA
* *
38115686 AAAAACACAATAAATTAATATATTTAA
128 AAAAACACACTAAATTAATACATTTAA
* * * * *
38115713 AACATAATTTACTAAAATAAAGTAAAAAAATAAAATAAGAAAATAATATATTTTTTTAAAGTAAT
1 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAAT
* * *
38115778 AAACTCT-GGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAA
66 AAAATCTCGGA-AAAAAAATACGAACAAAGGGCCGAAATAAGAGATTTTTTTAAATTTATTTAAA
*
38115842 AAA-ACACTAAATTAATACATTTCA
130 AAACACACTAAATTAATACATTTAA
* *
38115866 AACTTGATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTATTGAAAGTA
1 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT-TT-AAAGTA
*
38115931 ATAAAATC-CGGGAAAAAAATACGAACAAAGGGCCGAAATAA-AGATTTTTTT-AATTTATTTAA
64 ATAAAATCTCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGAGATTTTTTTAAATTTATTTAA
* *
38115993 AAAACAAACTAAATTAATACCTTTAA
129 AAAACACACTAAATTAATACATTTAA
* * * *
38116019 AATATAATGTATTAAAATAATGTAAAATAA-AAAATTAGAAAATATTATATTTTTTAAAAGTAAT
1 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAAT
*
38116083 AAAATCTGGGAAAA
66 AAAATCTCGGAAAA
38116097 GTTTATATTA
Statistics
Matches: 476, Mismatches: 44, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
148 1 0.00
149 46 0.10
150 72 0.15
151 13 0.03
152 46 0.10
153 176 0.37
154 62 0.13
155 53 0.11
156 7 0.01
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.31
Consensus pattern (154 bp):
AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAAT
AAAATCTCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGAGATTTTTTTAAATTTATTTAAAA
AACACACTAAATTAATACATTTAA
Found at i:38116791 original size:21 final size:20
Alignment explanation
Indices: 38116747--38116799 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
38116737 ATAATTACGT
*
38116747 TTATTTTTTTAAATTAAGAG
1 TTATTTTTTTAAATTAAGAA
* *
38116767 TTATTTTTTTAACTTCATGAA
1 TTATTTTTTTAAATT-AAGAA
38116788 TTATTTATTTTA
1 TTATTT-TTTTA
38116800 TTATTTTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 14 0.50
21 9 0.32
22 5 0.18
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (20 bp):
TTATTTTTTTAAATTAAGAA
Found at i:38118161 original size:21 final size:19
Alignment explanation
Indices: 38118136--38118175 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
38118126 CCGGCCCGAT
38118136 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
38118157 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
38118176 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:38118208 original size:38 final size:36
Alignment explanation
Indices: 38118155--38118225 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
38118145 ACACAAAAAA
*
38118155 TATTTTAAAAATAAAAAAATAAAAAAATATTTTTAAAG
1 TATTTTAAAAAT--AAAAATAAAAAAATATATTTAAAG
* *
38118193 TATTTTAAAATTAAAAATAAAAATATATATTTA
1 TATTTTAAAAATAAAAATAAAAAAATATATTTA
38118226 TTATATTCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 19 0.63
38 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (36 bp):
TATTTTAAAAATAAAAATAAAAAAATATATTTAAAG
Found at i:38119516 original size:20 final size:20
Alignment explanation
Indices: 38119493--38119534 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
38119483 TATTTATATA
38119493 CTTTAGAATGCCCAAAAAGC
1 CTTTAGAATGCCCAAAAAGC
38119513 CTTTAGAATGCCCAAAAAGC
1 CTTTAGAATGCCCAAAAAGC
38119533 CT
1 CT
38119535 AAAACTTGCA
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:0.38, C:0.26, G:0.14, T:0.21
Consensus pattern (20 bp):
CTTTAGAATGCCCAAAAAGC
Found at i:38120261 original size:15 final size:17
Alignment explanation
Indices: 38120243--38120281 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
38120233 TAATTTATTC
*
38120243 TTTTTTAAATAT-A-TA
1 TTTTTAAAATATGAGTA
38120258 TTTTTAAAATATGAGTA
1 TTTTTAAAATATGAGTA
38120275 TTTTTAA
1 TTTTTAA
38120282 GGTGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.52
16 1 0.05
17 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTTTAAAATATGAGTA
Found at i:38120940 original size:3 final size:3
Alignment explanation
Indices: 38120932--38120978 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
38120922 AATCTAAGTA
38120932 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38120979 AGAATTAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:38121428 original size:28 final size:28
Alignment explanation
Indices: 38121386--38121445 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
38121376 GTGTTCCCTG
38121386 TTTTTCAAAATTTACAATTTTGCCCATA
1 TTTTTCAAAATTTACAATTTTGCCCATA
* * *
38121414 TTTTTC-AAATGTTACAGTTTTGCGCATG
1 TTTTTCAAAAT-TTACAATTTTGCCCATA
38121442 TTTT
1 TTTT
38121446 CTAGGTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (28 bp):
TTTTTCAAAATTTACAATTTTGCCCATA
Found at i:38136865 original size:23 final size:23
Alignment explanation
Indices: 38136832--38136885 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
38136822 CAAGTCAACG
38136832 ATGAG-AGGATCAAATCTGTTGA
1 ATGAGAAGGATCAAATCTGTTGA
38136854 ATGAGAAGGATCAAATCTGTTGA
1 ATGAGAAGGATCAAATCTGTTGA
38136877 ATGAGAAGG
1 ATGAGAAGG
38136886 TTGGGATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.24
Consensus pattern (23 bp):
ATGAGAAGGATCAAATCTGTTGA
Found at i:38151383 original size:26 final size:26
Alignment explanation
Indices: 38151345--38151398 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
38151335 CACATATAAG
*
38151345 AATGATCAGATAATGAATCTTTCACT
1 AATGATCAAATAATGAATCTTTCACT
38151371 AATGATCAAATAATGAATCTTTCACT
1 AATGATCAAATAATGAATCTTTCACT
38151397 AA
1 AA
38151399 CTCAAGGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (26 bp):
AATGATCAAATAATGAATCTTTCACT
Found at i:38155857 original size:17 final size:17
Alignment explanation
Indices: 38155832--38155868 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
38155822 TAAAAAAAAC
38155832 ATTAGTATTGTTATCAA
1 ATTAGTATTGTTATCAA
* *
38155849 ATTATTATTTTTATCAA
1 ATTAGTATTGTTATCAA
38155866 ATT
1 ATT
38155869 TTGCTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTAGTATTGTTATCAA
Found at i:38158455 original size:22 final size:22
Alignment explanation
Indices: 38158430--38158486 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
38158420 TACAAATTAA
38158430 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTACAAAATCAT
* *
38158452 ATCTTCTAAGATTGC-ATATCAT
1 ATC-TCTAAGATTACAAAATCAT
38158474 A--TCTAAGATTACA
1 ATCTCTAAGATTACA
38158487 TATCCTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.33
22 10 0.33
23 10 0.33
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (22 bp):
ATCTCTAAGATTACAAAATCAT
Found at i:38158463 original size:23 final size:22
Alignment explanation
Indices: 38158420--38158477 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
38158410 AAAGGGTATC
* *
38158420 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
38158441 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
38158464 TGCATATCATATCT
1 TACAAATCATATCT
38158478 AAGATTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:38159643 original size:150 final size:150
Alignment explanation
Indices: 38159431--38159711 Score: 427
Period size: 150 Copynumber: 1.9 Consensus size: 150
38159421 ATCTTCAGTA
* *
38159431 TTTTAAATTGCAATGTTGGGGAAACAAGATTCGTTGTCGTAGTTTCAATCTATTCCACTACACCA
1 TTTTAAATTGCAATGTTGGGGAAACAAGATTCGTCGTCGTAGCTTCAATCTATTCCACTACACCA
* * * *
38159496 CCAGAGGAGTAAGATTAGTCGTTGCAGCTTTAATTTGCTCCACTGTAATGCCAAAGAAATAAGAT
66 CCAGAGGAATAAGATTAGCCATTGCAGCTTTAATCTGCTCCACTGTAATGCCAAAGAAATAAGAT
38159561 TAGCCGTTGCGACTTCAATC
131 TAGCCGTTGCGACTTCAATC
* * *
38159581 TTTTAAATTGCATTGTTGGGGAAACGAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTACACCA
1 TTTTAAATTGCAATGTTGGGGAAACAAGATTCGTCGTCGTAGCTTCAATCTATTCCACTACACCA
* * * * * *
38159646 CCAGGGGAATAAGATTCGCCATTGCGGCTTTAATCTGCTCCATTGTAATGCCAAAGAGATAGGAT
66 CCAGAGGAATAAGATTAGCCATTGCAGCTTTAATCTGCTCCACTGTAATGCCAAAGAAATAAGAT
38159711 T
131 T
38159712 CGCTGCCCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
150 116 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (150 bp):
TTTTAAATTGCAATGTTGGGGAAACAAGATTCGTCGTCGTAGCTTCAATCTATTCCACTACACCA
CCAGAGGAATAAGATTAGCCATTGCAGCTTTAATCTGCTCCACTGTAATGCCAAAGAAATAAGAT
TAGCCGTTGCGACTTCAATC
Found at i:38160005 original size:266 final size:267
Alignment explanation
Indices: 38159551--38160117 Score: 866
Period size: 266 Copynumber: 2.1 Consensus size: 267
38159541 TAATGCCAAA
* * * *
38159551 GAAATAAGATTAGCCGTTGCGACTTCAATCTTTTAAATTGCATTGTTGGGGAAACGAGATTCGTC
1 GAAATAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAAAGAGATTCGTC
*
38159616 GTCGTAGCTTCAATCTGTTCCACTACACCACCAGGGGAATAAGATTCGCCATTGCGGCTTTAATC
66 GTCGTAGCTTCAATCTGTTCCACTACACCACCAGAGGAATAAGATTCGCCATTGCGGCTTTAATC
* * * * * *
38159681 TGCTCCATTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCTGCTCCACTTCAGC
131 TGCTCCACTGTAACGACAAAGAGATAGGATTCACTGCCCACAACTTCAATCCGCTCCACTTCAGC
** * * *
38159746 TAATCCAAGCCTTAATGCCAGGGAGATAAGATTCGCCGTC-TGGCTTTAATCTGCACCGCTACAA
196 TAATCCAAGCCTTAACACCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCACCACTACAA
*
38159810 CGCTAGG
261 CACTAGG
* * *
38159817 GAAATAAGATTCGCCATTGCGGCTTCACTCTTTTAACTTGCAATGTTGGGGAAAAGAGATTCGTC
1 GAAATAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAAAGAGATTCGTC
* * *
38159882 GTCGTAGCTTCAATCTGTTCCACTACACCGCCAGAGGAGTAAGATTCGCCGTTGCGGCTTTAATC
66 GTCGTAGCTTCAATCTGTTCCACTACACCACCAGAGGAATAAGATTCGCCATTGCGGCTTTAATC
*
38159947 TGCTCCACTGTAACGACAAAGAGATAGGATTCACTGCCCACAACTTTAATCCGCTCCACTTCAGC
131 TGCTCCACTGTAACGACAAAGAGATAGGATTCACTGCCCACAACTTCAATCCGCTCCACTTCAGC
* * *
38160012 TAATCCAAGCCTTAACACCAAGGAGATAAGATTCGTCGTCGTGGCTTCAATCTGCTCTACTACAA
196 TAATCCAAGCCTTAACACCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCACCACTACAA
38160077 CACTAGG
261 CACTAGG
* *
38160084 GAAATAAGATTCGCCGTTGTGGCTTTAATCTTTT
1 GAAATAAGATTCGCCGTTGCGGCTTCAATCTTTT
38160118 CCATTGTGAC
Statistics
Matches: 269, Mismatches: 31, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
266 213 0.79
267 56 0.21
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (267 bp):
GAAATAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAAAGAGATTCGTC
GTCGTAGCTTCAATCTGTTCCACTACACCACCAGAGGAATAAGATTCGCCATTGCGGCTTTAATC
TGCTCCACTGTAACGACAAAGAGATAGGATTCACTGCCCACAACTTCAATCCGCTCCACTTCAGC
TAATCCAAGCCTTAACACCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCACCACTACAA
CACTAGG
Found at i:38160245 original size:44 final size:44
Alignment explanation
Indices: 38160196--38160315 Score: 179
Period size: 44 Copynumber: 2.7 Consensus size: 44
38160186 ATCTACTATT
* *
38160196 TTCAACCTACTCCACTGCTGCCCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
38160240 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
** *
38160284 TTCAATATATTCCACTGCTGACCAGGTAGATA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA
38160316 AAGCTTTGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 68 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
Found at i:38161599 original size:11 final size:10
Alignment explanation
Indices: 38161582--38161628 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 10
38161572 TTGGCCTCTC
38161582 TTTTTTCTTT
1 TTTTTTCTTT
38161592 TCTTTTTCTTT
1 T-TTTTTCTTT
**
38161603 ACTTTTCTTT
1 TTTTTTCTTT
38161613 TTTATTTCTTT
1 TTT-TTTCTTT
38161624 TTTTT
1 TTTTT
38161629 GAAATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 12 0.39
11 19 0.61
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:38161623 original size:16 final size:16
Alignment explanation
Indices: 38161584--38161628 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
38161574 GGCCTCTCTT
38161584 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTTTTTC
*
38161600 TTTACTTTTCTTTTT-
1 TTTTCTTTTCTTTTTC
38161615 TATTTCTTTT-TTTT
1 T-TTTCTTTTCTTTT
38161629 GAAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTC
Found at i:38162613 original size:32 final size:33
Alignment explanation
Indices: 38162573--38162657 Score: 127
Period size: 36 Copynumber: 2.5 Consensus size: 33
38162563 AAGAAAATCC
38162573 AAAAGAATGAAAGAATAAAAAATAATTATTCGT
1 AAAAGAATGAAAGAATAAAAAATAATTATTCGT
38162606 AAAGAATGAATGAAAGAATAAAAAATAATTATTCGT
1 -AA-AA-GAATGAAAGAATAAAAAATAATTATTCGT
*
38162642 -AAAGAATGAAAAAATA
1 AAAAGAATGAAAGAATA
38162658 TTGGCTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
32 12 0.25
33 2 0.04
34 3 0.06
35 2 0.04
36 29 0.60
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.22
Consensus pattern (33 bp):
AAAAGAATGAAAGAATAAAAAATAATTATTCGT
Found at i:38162622 original size:36 final size:36
Alignment explanation
Indices: 38162577--38162651 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
38162567 AAATCCAAAA
38162577 GAATGAAAGAATAAAAAATAATTATTCGTAAAGAAT
1 GAATGAAAGAATAAAAAATAATTATTCGTAAAGAAT
38162613 GAATGAAAGAATAAAAAATAATTATTCGTAAAGAAT
1 GAATGAAAGAATAAAAAATAATTATTCGTAAAGAAT
38162649 GAA
1 GAA
38162652 AAAATATTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.24
Consensus pattern (36 bp):
GAATGAAAGAATAAAAAATAATTATTCGTAAAGAAT
Found at i:38165821 original size:109 final size:108
Alignment explanation
Indices: 38165579--38165904 Score: 499
Period size: 109 Copynumber: 3.0 Consensus size: 108
38165569 GAAATTCGAG
* * * *
38165579 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATTGACACCCAGCACCTTAGGGCACGTTTCCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTT-CTC
* *
38165644 AAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTAAA
65 -GATTTCCCAAACGCAAAACATTGCCTTATTT-GAAAATTTTTAAA
*
38165690 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCGAGCACCTTAGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTT-TCTC
38165755 GATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
65 GATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
* * *
38165799 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCAACACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACG-TTTCTC
*
38165864 GAATTTTCCAAACGCAAAACATTGCCTTATTTGAAAATTTT
65 G-ATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTT
38165905 GTTTTTGATA
Statistics
Matches: 200, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
109 72 0.36
110 69 0.34
111 58 0.29
112 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (108 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTCTCG
ATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
Found at i:38166388 original size:25 final size:25
Alignment explanation
Indices: 38166331--38166395 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
38166321 GTAAGTGTAC
* *
38166331 ATATATAT-TACAAAAAGTATGTGT
1 ATATATATATACAAAAAATATATGT
*
38166355 GTA-AGTATATACAAAAAATATATGT
1 ATATA-TATATACAAAAAATATATGT
38166380 ATATATATATA-AAAAA
1 ATATATATATACAAAAA
38166396 CGTATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 1 0.03
24 10 0.29
25 22 0.65
26 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (25 bp):
ATATATATATACAAAAAATATATGT
Found at i:38166405 original size:23 final size:23
Alignment explanation
Indices: 38166360--38166405 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38166350 TGTGTGTAAG
* *
38166360 TATATACAAAAAATATATGTATA
1 TATATACAAAAAACATATATATA
* *
38166383 TATATATAAAAAACGTATATATA
1 TATATACAAAAAACATATATATA
38166406 AGGGCAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
TATATACAAAAAACATATATATA
Found at i:38166476 original size:3 final size:3
Alignment explanation
Indices: 38166417--38166459 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
38166407 GGGCAATTAC
* *
38166417 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
38166460 TTATTAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:38168965 original size:21 final size:19
Alignment explanation
Indices: 38168930--38169002 Score: 110
Period size: 19 Copynumber: 3.7 Consensus size: 19
38168920 TCATATCTTT
*
38168930 TAAGAATGCATATCATATC
1 TAAGATTGCATATCATATC
38168949 TAAGATTGCATATATCATATC
1 TAAGATTGC--ATATCATATC
38168970 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
38168989 TAAGATTGCCTATC
1 TAAGATTGCATATC
38169003 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.62
21 19 0.38
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:38171812 original size:11 final size:11
Alignment explanation
Indices: 38171792--38171868 Score: 58
Period size: 11 Copynumber: 7.4 Consensus size: 11
38171782 ATACAAATTA
38171792 AAAAAGTATTTT
1 AAAAA-TATTTT
38171804 AAAAATATTTT
1 AAAAATATTTT
38171815 --AAA-A--TT
1 AAAAATATTTT
**
38171821 AAAAA-ATTAA
1 AAAAATATTTT
38171831 AAAAAGTATTTT
1 AAAAA-TATTTT
*
38171843 AAAAAAATTTT
1 AAAAATATTTT
*
38171854 AAAAAAATTTT
1 AAAAATATTTT
38171865 AAAA
1 AAAA
38171869 TTAAAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
6 2 0.04
8 5 0.09
9 3 0.06
10 5 0.09
11 26 0.48
12 13 0.24
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:38171829 original size:50 final size:49
Alignment explanation
Indices: 38171772--38171918 Score: 152
Period size: 50 Copynumber: 3.1 Consensus size: 49
38171762 AATTTATTTT
38171772 AAAAATTAAAATACAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAATA-AAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
38171822 AAAAATTAAAA-AAAGTATTTTAAAAAA--ATTTTAAAAAAATTTTAAAATTAA
1 AAAAATTAAAATAAA--A--TTAAAAAAGTATTTTAAAAATATTTTAAAATT-A
*
38171873 AAAAATT----T-AAA--AAAAAAGTATTTTAAAACTATTTTAAAATTA
1 AAAAATTAAAATAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
38171915 AAAA
1 AAAA
38171919 TAAATAAATA
Statistics
Matches: 86, Mismatches: 3, Indels: 24
0.76 0.03 0.21
Matches are distributed among these distances:
41 6 0.07
42 5 0.06
43 20 0.23
45 1 0.01
47 2 0.02
48 2 0.02
49 1 0.01
50 33 0.38
51 8 0.09
52 8 0.09
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (49 bp):
AAAAATTAAAATAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:38171888 original size:11 final size:10
Alignment explanation
Indices: 38171821--38171887 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 10
38171811 TTTTAAAATT
*
38171821 AAAAAATTAA
1 AAAAAATTTA
38171831 AAAAAGTATTTTA
1 AAAAA--A-TTTA
38171844 AAAAAATTTTA
1 AAAAAA-TTTA
38171855 AAAAAATTT-
1 AAAAAATTTA
*
38171864 -TAAAA-TTA
1 AAAAAATTTA
38171872 AAAAAATTTA
1 AAAAAATTTA
38171882 AAAAAA
1 AAAAAA
38171888 AAGTATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
9 4 0.08
10 17 0.35
11 12 0.25
12 1 0.02
13 8 0.17
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:38171932 original size:43 final size:43
Alignment explanation
Indices: 38171849--38171932 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
38171839 TTTTAAAAAA
*
38171849 ATTTTAAAAAAATTTTAAAATTAAAAAAATTTAAAAAAAAAGT
1 ATTTTAAAAAAATTTTAAAATTAAAAAAATATAAAAAAAAAGT
** *
38171892 ATTTTAAAACTATTTTAAAATTAAAAATAA-ATAAATAAAAA
1 ATTTTAAAAAAATTTTAAAATTAAAAA-AATATAAAAAAAAA
38171933 TAAAAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (43 bp):
ATTTTAAAAAAATTTTAAAATTAAAAAAATATAAAAAAAAAGT
Found at i:38173419 original size:50 final size:50
Alignment explanation
Indices: 38173305--38173593 Score: 260
Period size: 50 Copynumber: 5.7 Consensus size: 50
38173295 TGCCAAAGTT
* ** * * * *
38173305 ATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-CTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAATGCC
* * * * * ** * *
38173354 ATATCCTAGATATGGTTTTACATGAGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAATGCC
* ** *
38173404 GTGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAATGCC
* * * *
38173454 ATGTCCCAGACATGGTCTTAGATGGGACCTCTTATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAATGCC
* *
38173504 ATGTCCCAGACATGGTCTTACATGGGATCTCTCATAATCTCAATGATGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-C-CTC-TCATCT--A-GGTGCCAATGCC
*
38173560 ATGTCCCAAACATGGTCTTACATGGGA--TCTCATC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
38173594 CTCTTAATGC
Statistics
Matches: 193, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
49 27 0.14
50 115 0.60
51 5 0.03
52 5 0.03
53 5 0.03
56 36 0.19
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAATGCC
Found at i:38173698 original size:19 final size:19
Alignment explanation
Indices: 38173674--38173714 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
38173664 CTGTCATCTC
38173674 ATACTTGAGTTAACATTAG
1 ATACTTGAGTTAACATTAG
38173693 ATACTTGAGTTAACATTAG
1 ATACTTGAGTTAACATTAG
38173712 ATA
1 ATA
38173715 TTTGCTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATACTTGAGTTAACATTAG
Found at i:38179750 original size:50 final size:50
Alignment explanation
Indices: 38179625--38179917 Score: 232
Period size: 50 Copynumber: 5.8 Consensus size: 50
38179615 TGAATATAAC
* * * * * * *
38179625 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA-TGTTTCTTGTA-
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACT-TCTCATATAG
* * * * * *
38179674 CTGCCAATGCCATATCCTAAATATGGTCTTACATGAGAGTTCTCATATAG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATAG
* * * ** * * *
38179724 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATAG
* * * * *
38179774 ATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATCTCG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATAG
* * *
38179824 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACT-TCTCAT-A--T--A-G
38179880 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
38179918 TCTCATCTTC
Statistics
Matches: 193, Mismatches: 42, Indels: 11
0.78 0.17 0.04
Matches are distributed among these distances:
49 35 0.18
50 121 0.63
53 1 0.01
56 36 0.19
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATAG
Found at i:38179915 original size:106 final size:100
Alignment explanation
Indices: 38179626--38179917 Score: 302
Period size: 100 Copynumber: 2.9 Consensus size: 100
38179616 GAATATAACA
* * * * * * *
38179626 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGT-TTCTTGTACTGCCAATGCCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTTG-A-TGCCAATGCCATG
* * * **
38179688 TCCTAAATATGGTCTTACATGAGAGTTCTCATATAGG
64 TCCCAAACATGGTCTTACATGGGACCTCTCATATAGG
* * * * *
38179725 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGATGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTTGATGCCAATGCCATGTC
* * *
38179790 CCAAACATGGTCTTACATGGGACCTCTTATCTCGG
66 CCAAACATGGTCTTACATGGGACCTCTCATATAGG
*
38179825 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-C-CTC-TAATCT---TGATGCCAATGC
38179890 CATGTCCCAAACATGGTCTTACATGGGA
60 CATGTCCCAAACATGGTCTTACATGGGA
38179918 TCTCATCTTC
Statistics
Matches: 160, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
99 31 0.19
100 73 0.46
101 4 0.03
102 8 0.05
103 5 0.03
106 39 0.24
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTTGATGCCAATGCCATGTC
CCAAACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:38179921 original size:56 final size:51
Alignment explanation
Indices: 38179732--38179917 Score: 241
Period size: 50 Copynumber: 3.6 Consensus size: 51
38179722 AGGTGCCCAT
* ** *
38179732 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCT-TGATGCCAAC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTAATCTCTGATGCCAAC
* *
38179782 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATCTC-GGTGCCAAC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTAATCTCTGATGCCAAC
* *
38179832 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACATGGGA-C-CTC-TAATCTC--TGATGCCAAC
38179888 GCCATGTCCCAAACATGGTCTTACATGGGA
1 GCCATGTCCCAAACATGGTCTTACATGGGA
38179918 TCTCATCTTC
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
50 73 0.61
51 1 0.01
52 3 0.03
53 6 0.05
56 36 0.30
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (51 bp):
GCCATGTCCCAAACATGGTCTTACATGGGACCTCTAATCTCTGATGCCAAC
Found at i:38187821 original size:18 final size:18
Alignment explanation
Indices: 38187794--38187829 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38187784 TTTTAAATAC
*
38187794 TTTTTATGAAAATAATTA
1 TTTTTATGAAAAGAATTA
*
38187812 TTTTTTTGAAAAGAATTA
1 TTTTTATGAAAAGAATTA
38187830 CAAAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (18 bp):
TTTTTATGAAAAGAATTA
Found at i:38192327 original size:20 final size:20
Alignment explanation
Indices: 38192292--38192329 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38192282 GATGCATAAT
* *
38192292 AGAGGCACCGATGTGCAACC
1 AGAGGCACCAAAGTGCAACC
38192312 AGAGGCACCAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
38192330 ACCTCGTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.29, T:0.08
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAACC
Found at i:38200415 original size:13 final size:13
Alignment explanation
Indices: 38200399--38200423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38200389 AAATTATTGT
38200399 TTTTTAAAAAATA
1 TTTTTAAAAAATA
38200412 TTTTTAAAAAAT
1 TTTTTAAAAAAT
38200424 CTTGCTGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:38200866 original size:16 final size:17
Alignment explanation
Indices: 38200839--38200876 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
38200829 AAAAGTAACA
38200839 ACATATTAATGTGGTTT
1 ACATATTAATGTGGTTT
38200856 ACATA-TAATGTGGTTT
1 ACATATTAATGTGGTTT
38200872 ACATA
1 ACATA
38200877 GCAAGCGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (17 bp):
ACATATTAATGTGGTTT
Found at i:38206337 original size:13 final size:13
Alignment explanation
Indices: 38206319--38206345 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38206309 TGGTTTTCTC
38206319 AAAAATGAAAATG
1 AAAAATGAAAATG
38206332 AAAAATGAAAATG
1 AAAAATGAAAATG
38206345 A
1 A
38206346 CTTGAAAAAT
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:38209725 original size:18 final size:18
Alignment explanation
Indices: 38209704--38209741 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38209694 TCTTTATCTC
*
38209704 TTCAATAAATAAATAGCA
1 TTCAATAAATAAATAACA
38209722 TTCAATAAATAAATAACA
1 TTCAATAAATAAATAACA
38209740 TT
1 TT
38209742 ATGAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (18 bp):
TTCAATAAATAAATAACA
Found at i:38221300 original size:19 final size:21
Alignment explanation
Indices: 38221254--38221301 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
38221244 TTTTCATGTG
38221254 GTTCAGCTCACTTGAGCTCAA
1 GTTCAGCTCACTTGAGCTCAA
38221275 GTT-AGCTCA-TTCGA-CTCAA
1 GTTCAGCTCACTT-GAGCTCAA
38221294 -TTCAGCTC
1 GTTCAGCTC
38221302 GTTATTAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.08
19 12 0.48
20 8 0.32
21 3 0.12
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (21 bp):
GTTCAGCTCACTTGAGCTCAA
Found at i:38223065 original size:23 final size:23
Alignment explanation
Indices: 38223021--38223065 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38223011 ATACGTACTT
* *
38223021 TTCTTTTGCTCTTTTATTTCTTG
1 TTCTTTTACTCTTTTATATCTTG
38223044 TTCTTTTACTCTCTTT-TATCTT
1 TTCTTTTACTCT-TTTATATCTT
38223066 TATTTTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.69
Consensus pattern (23 bp):
TTCTTTTACTCTTTTATATCTTG
Found at i:38225108 original size:18 final size:18
Alignment explanation
Indices: 38225075--38225109 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38225065 AAAAATCATA
38225075 AATAATTTAAAATATTTC
1 AATAATTTAAAATATTTC
38225093 AATAATTTAAAATATTT
1 AATAATTTAAAATATTT
38225110 GTAAACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAATTTAAAATATTTC
Found at i:38225546 original size:13 final size:13
Alignment explanation
Indices: 38225528--38225552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38225518 AAATGGAAGA
38225528 GAAAGTAAGCAAG
1 GAAAGTAAGCAAG
38225541 GAAAGTAAGCAA
1 GAAAGTAAGCAA
38225553 TCATGAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.28, T:0.08
Consensus pattern (13 bp):
GAAAGTAAGCAAG
Found at i:38228362 original size:19 final size:19
Alignment explanation
Indices: 38228338--38228419 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
38228328 CACATACGTG
38228338 CCCCTGTTGTACTTCGATA
1 CCCCTGTTGTACTTCGATA
* * * *
38228357 CCCCTGATGCACATGCG-TG
1 CCCCTGTTGTAC-TTCGATA
*
38228376 CCCCTGTTGTACTTC-AGTG
1 CCCCTGTTGTACTTCGA-TA
* *
38228395 CCCCTATTGTACTTCAATA
1 CCCCTGTTGTACTTCGATA
38228414 CCCCTG
1 CCCCTG
38228420 ATGCACATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
18 2 0.04
19 43 0.88
20 4 0.08
ACGTcount: A:0.16, C:0.35, G:0.17, T:0.32
Consensus pattern (19 bp):
CCCCTGTTGTACTTCGATA
Found at i:38228604 original size:43 final size:43
Alignment explanation
Indices: 38228537--38228802 Score: 326
Period size: 43 Copynumber: 6.3 Consensus size: 43
38228527 GTCGCTAACT
* *
38228537 TTTA-CGGTGCTTTT-CCACAAACGCCGCTACAGATCAAGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
* * **
38228578 TTTAGCGGCACTTTTCCCACAAACGCCGCTATAGACCGTGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
* * * * *
38228621 TTTAACGGCACTTTTACCACAAACGCTGCTATAGACCAAGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
* * * *
38228664 TTTAGCGACGCTTTTCCCACAAATGCCACTATAGATCTAGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
38228707 TTTAGCGGCGC-TTTCCCACAAACGCCGCTATAGATCAAGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
* * *
38228749 TTTAGCGGCGCTTTT-TCACAAAAGCCGCTATAGAACAA-ACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
*
38228790 TTTAGCGACGCTT
1 TTTAGCGGCGCTT
38228803 CTCGCTAAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
41 19 0.10
42 67 0.35
43 108 0.56
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
Found at i:38233998 original size:72 final size:73
Alignment explanation
Indices: 38233913--38234047 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 73
38233903 AAATTAAAAG
* * **
38233913 AAGGGGAGGAGATGCCAGAAGAACAGGAAGGTATTTTGGAG-GTAGAGGAAGCTGAGAAGGTGAA
1 AAGGGGAGAAGATGCCAAAAGAACAGGAAGGTA-TTTGGAGACAAGAGGAAGCTGAGAAGGTGAA
38233977 TTTAAAGGA
65 TTTAAAGGA
* * * * *
38233986 AAGGGG-GAAGATGCTAAAAGAATATGCAGGTATTTGGAGACAAGGGGAAGCTGAGAAGGTGA
1 AAGGGGAGAAGATGCCAAAAGAACAGGAAGGTATTTGGAGACAAGAGGAAGCTGAGAAGGTGA
38234048 GTAATTGTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
71 7 0.13
72 39 0.75
73 6 0.12
ACGTcount: A:0.39, C:0.06, G:0.39, T:0.16
Consensus pattern (73 bp):
AAGGGGAGAAGATGCCAAAAGAACAGGAAGGTATTTGGAGACAAGAGGAAGCTGAGAAGGTGAAT
TTAAAGGA
Found at i:38243247 original size:19 final size:20
Alignment explanation
Indices: 38243225--38243265 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
38243215 TTAGTATTAC
38243225 TTTTAAG-ACATTTTATTTA
1 TTTTAAGAACATTTTATTTA
* *
38243244 TTTTAGGAATATTTTATTTA
1 TTTTAAGAACATTTTATTTA
38243264 TT
1 TT
38243266 GCATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTAAGAACATTTTATTTA
Found at i:38247697 original size:25 final size:25
Alignment explanation
Indices: 38247668--38247721 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
38247658 TGGTGAATTA
* * *
38247668 GGTTCGCCAGGTAAGTTGCGAACTG
1 GGTTCACCAAGTAAGTTGCAAACTG
* *
38247693 GGTTCACCAATTGAGTTGCAAACTG
1 GGTTCACCAAGTAAGTTGCAAACTG
38247718 GGTT
1 GGTT
38247722 TGCCGGTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (25 bp):
GGTTCACCAAGTAAGTTGCAAACTG
Found at i:38248242 original size:14 final size:14
Alignment explanation
Indices: 38248219--38248253 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
38248209 TGTTTGACTG
*
38248219 AAAATAATTTCCGA
1 AAAATGATTTCCGA
*
38248233 AAAATGATTTCTGA
1 AAAATGATTTCCGA
38248247 AAAATGA
1 AAAATGA
38248254 CTTACATTTC
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:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (14 bp):
AAAATGATTTCCGA
Found at i:38252944 original size:37 final size:37
Alignment explanation
Indices: 38252894--38252964 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
38252884 TTTTTAAAGT
38252894 AAGTTTTTAAAGAAAGGATTAATAAGCATTCTTTAGC
1 AAGTTTTTAAAGAAAGGATTAATAAGCATTCTTTAGC
38252931 AAGTTTTTAAAGAAAGGATTAATAAGCATTCTTT
1 AAGTTTTTAAAGAAAGGATTAATAAGCATTCTTT
38252965 TTTAACACTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (37 bp):
AAGTTTTTAAAGAAAGGATTAATAAGCATTCTTTAGC
Found at i:38253539 original size:16 final size:17
Alignment explanation
Indices: 38253508--38253540 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38253498 TTTATTCACA
38253508 TGCGAACCACTATTTAC
1 TGCGAACCACTATTTAC
*
38253525 TGCGAATCA-TATTTAC
1 TGCGAACCACTATTTAC
38253541 AAGCGCACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
TGCGAACCACTATTTAC
Found at i:38260393 original size:20 final size:21
Alignment explanation
Indices: 38260358--38260397 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
38260348 AGGATTAGTG
*
38260358 TTTAAATAACAACTACCTAAC
1 TTTAAATAAAAACTACCTAAC
38260379 TTTAAA-AAAAACTACCTAA
1 TTTAAATAAAAACTACCTAA
38260398 AATTGTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (21 bp):
TTTAAATAAAAACTACCTAAC
Found at i:38264001 original size:63 final size:63
Alignment explanation
Indices: 38263902--38264026 Score: 205
Period size: 63 Copynumber: 2.0 Consensus size: 63
38263892 CAGTTGGGAG
*
38263902 CTTGAGCTTGTGCTAACAATTTTAAAGGCCGCAATATTGAATTAGCAAGCCTTAAGAGTACAA
1 CTTGAGCTTGTGCTAACAATTTTAAAGGCCGCAATATTGAATCAGCAAGCCTTAAGAGTACAA
** **
38263965 CTTGAGCTTGTGCTAACAATTTTGGAGGCCGCAATATTGAATCAGTGAGCCTTAAGAGTACA
1 CTTGAGCTTGTGCTAACAATTTTAAAGGCCGCAATATTGAATCAGCAAGCCTTAAGAGTACA
38264027 GTTGAGAGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (63 bp):
CTTGAGCTTGTGCTAACAATTTTAAAGGCCGCAATATTGAATCAGCAAGCCTTAAGAGTACAA
Found at i:38264072 original size:133 final size:136
Alignment explanation
Indices: 38263776--38264096 Score: 328
Period size: 133 Copynumber: 2.4 Consensus size: 136
38263766 TACTGCTGGT
* * * *
38263776 TAACTATTTTGGAGGCCGTAATATTGAATTAGCAAGCCTTAAGAATATAGCTGGCAGCTTAAGCT
1 TAACTATTTTGGAAGCCGTAATATTGAATTAGCAAGCCTTAAGAGTACAACTGGCAGCTT-AGCT
** * * * *
38263841 CCCGCTAACTGTTTTGGGGCTACAGTATTGAATCAACGAGCCTTAAGAGTACAGTTGGGAGCTTG
65 --CGCTAACAATTTTGGGGCCACAATATTGAATCAACGAGCCTTAAGAGTACAGTTGAGAGCTTA
****
38263906 AGCTTGTGC
128 AGCTCACAC
* * * *
38263915 TAACAATTTT-AAAGGCCGCAATATTGAATTAGCAAGCCTTAAGAGTACAACTTG-AGCTT-G-T
1 TAACTATTTTGGAA-GCCGTAATATTGAATTAGCAAGCCTTAAGAGTACAACTGGCAGCTTAGCT
* **
38263976 -GCTAACAATTTTGGAGGCCGCAATATTGAATCAGTGAGCCTTAAGAGTACAGTTGAGAGCTTAA
65 CGCTAACAATTTTGG-GGCCACAATATTGAATCAACGAGCCTTAAGAGTACAGTTGAGAGCTTAA
38264040 GCTCACAC
129 GCTCACAC
* * * * *
38264048 TAACTATTTTGGAAGCCATGATATTAAATCAGCGAGCCTTAAGAGTACA
1 TAACTATTTTGGAAGCCGTAATATTGAATTAGCAAGCCTTAAGAGTACA
38264097 GCTAGGAGCT
Statistics
Matches: 150, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
132 12 0.08
133 84 0.56
134 2 0.01
135 1 0.01
136 1 0.01
138 6 0.04
139 44 0.29
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (136 bp):
TAACTATTTTGGAAGCCGTAATATTGAATTAGCAAGCCTTAAGAGTACAACTGGCAGCTTAGCTC
GCTAACAATTTTGGGGCCACAATATTGAATCAACGAGCCTTAAGAGTACAGTTGAGAGCTTAAGC
TCACAC
Found at i:38265657 original size:20 final size:20
Alignment explanation
Indices: 38265612--38265659 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
38265602 GAGCTCAAAC
* *
38265612 GAGCTAAATTAAGCTCATGT
1 GAGCTGAATTAAACTCATGT
*
38265632 AAGCTGAATTAAACTCATGT
1 GAGCTGAATTAAACTCATGT
38265652 GAGCTGAA
1 GAGCTGAA
38265660 CCGAGCTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (20 bp):
GAGCTGAATTAAACTCATGT
Found at i:38267650 original size:10 final size:9
Alignment explanation
Indices: 38267599--38267749 Score: 62
Period size: 9 Copynumber: 16.6 Consensus size: 9
38267589 TTAAAATGTT
38267599 TAAAAAATCA
1 TAAAAAAT-A
*
38267609 TAATAAATTA
1 TAA-AAAATA
*
38267619 TCAAAAATCA
1 TAAAAAAT-A
*
38267629 -GAAAAATA
1 TAAAAAATA
38267637 TAAAAAATA
1 TAAAAAATA
* *
38267646 TTAAATAT-
1 TAAAAAATA
*
38267654 TAGAAAATA
1 TAAAAAATA
* *
38267663 TGAAAATTGA
1 TAAAAAAT-A
* *
38267673 TATAAACT-
1 TAAAAAATA
*
38267681 TAAAAATTA
1 TAAAAAATA
38267690 -AAAAAAT-
1 TAAAAAATA
38267697 TAAAAAA-A
1 TAAAAAATA
38267705 TCATAAAAATA
1 T-A-AAAAATA
* *
38267716 TAAAAATTC
1 TAAAAAATA
*
38267725 TAATAAATTA
1 TAA-AAAATA
38267735 TAAAAATATA
1 TAAAAA-ATA
38267745 TAAAA
1 TAAAA
38267750 TTAACAAAAC
Statistics
Matches: 105, Mismatches: 23, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
8 25 0.24
9 40 0.38
10 34 0.32
11 6 0.06
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (9 bp):
TAAAAAATA
Found at i:38267799 original size:22 final size:22
Alignment explanation
Indices: 38267773--38267816 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38267763 TTTAAAATAT
*
38267773 TTAAAATTTTATAAAAAACATA
1 TTAAAATTCTATAAAAAACATA
*
38267795 TTAAAATTCTATAAAAACCATA
1 TTAAAATTCTATAAAAAACATA
38267817 AAATTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (22 bp):
TTAAAATTCTATAAAAAACATA
Found at i:38268005 original size:3 final size:3
Alignment explanation
Indices: 38267997--38268031 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
38267987 GGTTGAATCA
38267997 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38268032 TAATTGAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:38268404 original size:29 final size:29
Alignment explanation
Indices: 38268372--38268447 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
38268362 TAAGAATTCT
* *
38268372 AATACATTTTTTTAATTTTA-AATATTTTA
1 AATA-ATTTTATTAATTTTATAAAATTTTA
*
38268401 AATAAGTTTTATTAATTTTATAAAATTTTT
1 AATAA-TTTTATTAATTTTATAAAATTTTA
38268431 AATAA-TTTATTATATTT
1 AATAATTTTATTA-ATTT
38268448 ATTGTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.20
29 21 0.51
30 12 0.29
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (29 bp):
AATAATTTTATTAATTTTATAAAATTTTA
Found at i:38268418 original size:20 final size:20
Alignment explanation
Indices: 38268395--38268438 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
38268385 AATTTTAAAT
*
38268395 ATTTTA-AATAAGTTTTATTA
1 ATTTTATAA-AAGTTTTAATA
*
38268415 ATTTTATAAAATTTTTAATA
1 ATTTTATAAAAGTTTTAATA
38268435 ATTT
1 ATTT
38268439 ATTATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTATAAAAGTTTTAATA
Found at i:38269234 original size:3 final size:3
Alignment explanation
Indices: 38269226--38269275 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
38269216 TTTTTCGGTG
38269226 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38269274 AT
1 AT
38269276 TGTCGAAACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:38270540 original size:20 final size:21
Alignment explanation
Indices: 38270502--38270541 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
38270492 ATATTAGTTA
38270502 AAAAAAATAAATATGTACATGT
1 AAAAAAATAAATA-GTACATGT
38270524 AAAAAAATAAATA-TACAT
1 AAAAAAATAAATAGTACAT
38270542 ATATATAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
22 13 0.72
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAAAAATAAATAGTACATGT
Found at i:38272205 original size:87 final size:87
Alignment explanation
Indices: 38272059--38272677 Score: 1085
Period size: 87 Copynumber: 7.1 Consensus size: 87
38272049 CTCCACATCC
* * *
38272059 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGTAATTTTTAACCTACTCCACTGCTTCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
*
38272124 CAGGGAGACAAGGCTGGGGATT
66 CAGGGAGACAAGGCTGGGGACT
* *
38272146 TCGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
38272211 CAGGGAGACAAGGCTGGGGACT
66 CAGGGAGACAAGGCTGGGGACT
* *
38272233 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCTACTGCTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
*
38272298 CAGGGAGACAAAGCTGGGGACT
66 CAGGGAGACAAGGCTGGGGACT
* *
38272320 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCGACCTACTCCACTGCTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
*
38272385 CAGGGAGACAAGGCTGAGGACT
66 CAGGGAGACAAGGCTGGGGACT
*
38272407 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTACTCCACTGCTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
38272472 CAGGGAGACAAGGCTGGGGACT
66 CAGGGAGACAAGGCTGGGGACT
38272494 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
*
38272559 CAGGGAGATAAGGCTGGGGACT
66 CAGGGAGACAAGGCTGGGGACT
*
38272581 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTTCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
*
38272646 CAGAGAGACAAGGCTGGGGACT
66 CAGGGAGACAAGGCTGGGGACT
*
38272668 TCAATCTGCT
1 TCGATCTGCT
38272678 TCGCTGTCAG
Statistics
Matches: 508, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 508 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (87 bp):
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT
CAGGGAGACAAGGCTGGGGACT
Found at i:38272523 original size:261 final size:261
Alignment explanation
Indices: 38272059--38272765 Score: 1094
Period size: 261 Copynumber: 2.7 Consensus size: 261
38272049 CTCCACATCC
* *
38272059 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGTAATTTTTAACCTACTCCACTGCTTCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTTCT
*
38272124 CAGGGAGACAAGGCTGGGGATTTCGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTGTAATT
66 CAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTGTAATT
*
38272189 TTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGACTTTGATCTGCTCCACTACTGCT
131 TTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCT
*
38272254 TAGGGAGATAAGATCTGTAATTTTCAACCTACTCTACTGCTGCTCAGGGAGACAAAGCTGGGGAC
196 TAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAAGCTGGGGAC
38272319 T
261 T
* * *
38272320 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCGACCTACTCCACTGCTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTTCT
* *
38272385 CAGGGAGACAAGGCTGAGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
66 CAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTGTAATT
* *
38272450 TTCGACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCT
131 TTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCT
* *
38272515 TAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGGGAC
196 TAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAAGCTGGGGAC
38272580 T
261 T
38272581 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTTCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTTCT
* * * * * * * **
38272646 CAGAGAGACAAGGCTGGGGACTTCAATCTGCTTCGCTGTCAG-TATAGGAAGGCAAGATCTGCT-
66 CAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACT-ACCGCT-TAGGGAGATAAGATCTG-TA
* * * * * * * *
38272709 ATTTTTAACCTGCTCCGCTGCAACCCAGGAAGACAAGGCTGGTGTCTTCGATCTGCT
128 ATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGACTTCGATCTGCT
38272766 TCGTTGTCGG
Statistics
Matches: 406, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
261 342 0.84
262 63 0.16
263 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (261 bp):
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTTCT
CAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTGTAATT
TTCAACCTACTCCACTGCTACTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAAGCTGGGGAC
T
Found at i:38272743 original size:88 final size:88
Alignment explanation
Indices: 38272650--38272978 Score: 473
Period size: 88 Copynumber: 3.8 Consensus size: 88
38272640 GCTTCTCAGA
* * * * **
38272650 GAGACAAGGCTGGGGACTTCAATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATTTTT
1 GAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
38272715 AACCTGCTCCGCTGCAACCCAGG
66 AACCTGCTCCGCTGCAACCCAGG
* *
38272738 AAGACAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
1 GAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
**
38272803 AACCTGCTCTACTGCAACCCAGG
66 AACCTGCTCCGCTGCAACCCAGG
* * * * *
38272826 GAGGCAAGGCTGATGTCTTTGATTTGCTTTGCTGTC-GTCGCAGGAAGGCAAGATCTGCTATTTT
1 GAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT-GCAGGAAGGCAAGATCTGCTATTTT
38272890 TAACCTGCTCCGCTGCAACCCAGG
65 TAACCTGCTCCGCTGCAACCCAGG
* * *
38272914 GAGACAAGGCTGGTGTCTTTGATTTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCT-TTTTT
1 GAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
38272978 A
66 A
38272979 TTGATCTGCT
Statistics
Matches: 216, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
87 8 0.04
88 206 0.95
89 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (88 bp):
GAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
AACCTGCTCCGCTGCAACCCAGG
Found at i:38272833 original size:44 final size:44
Alignment explanation
Indices: 38272691--38272913 Score: 146
Period size: 44 Copynumber: 5.1 Consensus size: 44
38272681 CTGTCAGTAT
*
38272691 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCC
* * * * * ** * * ****
38272735 AGGAAGACAAG-GCTGGTGTCTTCGATCTGCT-TCGTTGTCGGTGC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCT-GCTG-CAACCC
*
38272779 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCC
* * * * * * ** * ** *
38272823 AGGGAGGCAAG-GCTGATGTCTTTGATTTGCTTTGCTGTCGTCGC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTG-CAACCC
*
38272867 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCC
38272911 AGG
1 AGG
38272914 GAGACAAGGC
Statistics
Matches: 119, Mismatches: 54, Indels: 12
0.64 0.29 0.06
Matches are distributed among these distances:
43 33 0.28
44 53 0.45
45 32 0.27
46 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (44 bp):
AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCC
Found at i:38274180 original size:1 final size:1
Alignment explanation
Indices: 38274174--38274235 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
38274164 TTCTTTTCCC
* * ** * * * *
38274174 TTTTTTTTGTTTTGTTTCATTTTTTTTTGTTTTTTTTTGTTTTTTTATTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38274236 GAAATATTTC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:38274191 original size:20 final size:20
Alignment explanation
Indices: 38274168--38274206 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38274158 TCTTTCTTCT
*
38274168 TTTCCCTTTTTTTTGTTTTG
1 TTTCACTTTTTTTTGTTTTG
*
38274188 TTTCATTTTTTTTTGTTTT
1 TTTCACTTTTTTTTGTTTT
38274207 TTTTTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTCACTTTTTTTTGTTTTG
Found at i:38274212 original size:25 final size:25
Alignment explanation
Indices: 38274177--38274235 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 25
38274167 TTTTCCCTTT
38274177 TTTTTGTTTTGTTTCATTT-TTTTTTG
1 TTTTT-TTTTGTTT-ATTTATTTTTTG
*
38274203 TTTTTTTTTGTTTTTTTATTTTTTG
1 TTTTTTTTTGTTTATTTATTTTTTG
38274228 TTTTTTTT
1 TTTTTTTT
38274236 GAAATATTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 3 0.10
25 23 0.74
26 5 0.16
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.86
Consensus pattern (25 bp):
TTTTTTTTTGTTTATTTATTTTTTG
Found at i:38274216 original size:20 final size:20
Alignment explanation
Indices: 38274174--38274232 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
38274164 TTCTTTTCCC
* *
38274174 TTTTTTTTGTTTTGTTTCAT
1 TTTTTTTTGTTTTTTTTTAT
*
38274194 TTTTTTTTGTTTTTTTTTGT
1 TTTTTTTTGTTTTTTTTTAT
38274214 TTTTTTATT-TTTTGTTTTT
1 TTTTTT-TTGTTTT-TTTTT
38274233 TTTGAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 27 0.79
21 7 0.21
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.86
Consensus pattern (20 bp):
TTTTTTTTGTTTTTTTTTAT
Found at i:38274227 original size:15 final size:15
Alignment explanation
Indices: 38274176--38274234 Score: 77
Period size: 15 Copynumber: 3.9 Consensus size: 15
38274166 CTTTTCCCTT
38274176 TTTTTTGTTTTGTTTCA
1 TTTTTTGTTTT-TTT-A
*
38274193 TTTTTT-TTTGTTT-
1 TTTTTTGTTTTTTTA
38274206 TTTTTTGTTTTTTTA
1 TTTTTTGTTTTTTTA
38274221 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
38274235 TGAAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
13 6 0.16
14 6 0.16
15 17 0.45
16 3 0.08
17 6 0.16
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.86
Consensus pattern (15 bp):
TTTTTTGTTTTTTTA
Found at i:38274335 original size:14 final size:15
Alignment explanation
Indices: 38274312--38274344 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
38274302 ATTGACACTT
38274312 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
38274326 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
38274341 TTCC
1 TTCC
38274345 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:38278622 original size:20 final size:21
Alignment explanation
Indices: 38278583--38278623 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
38278573 AAATATTAGT
38278583 TAAAAAAATAAATATGTACATG
1 TAAAAAAATAAATA-GTACATG
38278605 TAAAAAAATAAATA-TACAT
1 TAAAAAAATAAATAGTACAT
38278624 ATATATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
22 14 0.74
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAAAAATAAATAGTACATG
Found at i:38280004 original size:3 final size:3
Alignment explanation
Indices: 38279996--38280026 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
38279986 ATTGGGTATT
38279996 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
38280027 TAATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:38280223 original size:19 final size:18
Alignment explanation
Indices: 38280178--38280224 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
38280168 TATTAATCGC
*
38280178 ATAAATTTTAAGTAATTA
1 ATAAATTTTCAGTAATTA
*
38280196 ATAAATTTTCAGTATATTG
1 ATAAATTTTCAGTA-ATTA
*
38280215 ATTAATTTTC
1 ATAAATTTTC
38280225 TAAGATGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (18 bp):
ATAAATTTTCAGTAATTA
Found at i:38284969 original size:18 final size:18
Alignment explanation
Indices: 38284943--38284989 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
38284933 GAGACATTAG
38284943 AAAATAAAAATTA-AACTA
1 AAAATAAAAATTATAA-TA
*
38284961 AAAACAAAAATTATAATA
1 AAAATAAAAATTATAATA
38284979 AAAATAAAAAT
1 AAAATAAAAAT
38284990 AACTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATAAAAATTATAATA
Found at i:38284984 original size:6 final size:6
Alignment explanation
Indices: 38284943--38284991 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
38284933 GAGACATTAG
* * * * *
38284943 AAAATA AAAATT AAACTA AAAACA AAAATT ATAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
38284991 A
1 A
38284992 CTAATTTAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:38284986 original size:24 final size:24
Alignment explanation
Indices: 38284959--38285007 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
38284949 AAAATTAAAC
38284959 TAAAAACAA-AAATTATAATAAAAA
1 TAAAAACAACAAATT-TAATAAAAA
* *
38284983 TAAAAATAACTAATTTAATAAAAA
1 TAAAAACAACAAATTTAATAAAAA
38285007 T
1 T
38285008 TTAGTGTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAAACAACAAATTTAATAAAAA
Found at i:38287639 original size:30 final size:30
Alignment explanation
Indices: 38287562--38287641 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
38287552 GAATAAATTA
* *
38287562 CTCACACAAGCTGACAATATATTAGGGTTG
1 CTCACACAAGCTGACATTATATTAGGATTG
* *
38287592 CTCACACAAGCTAACATTATAATT-GTATTG
1 CTCACACAAGCTGACATTAT-ATTAGGATTG
*
38287622 CTCACATAAGCTGACATTAT
1 CTCACACAAGCTGACATTAT
38287642 TTCGAAGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 40 0.93
31 3 0.07
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATATTAGGATTG
Found at i:38289633 original size:21 final size:21
Alignment explanation
Indices: 38289601--38289642 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38289591 AAATTTAATG
*
38289601 AAAATATATTAATTTAAATTT
1 AAAATATATTAATGTAAATTT
38289622 AAAAT-TATTTAATGTAAATTT
1 AAAATATA-TTAATGTAAATTT
38289643 TGATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAAATATATTAATGTAAATTT
Found at i:38289834 original size:22 final size:23
Alignment explanation
Indices: 38289816--38289857 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
38289806 ATTTAAAGCG
*
38289816 ACAAAG-TTGTAAT-AATAAACA
1 ACAAAGATTATAATGAATAAACA
38289837 ACAAAGATTATAATGAATAAA
1 ACAAAGATTATAATGAATAAA
38289858 TCTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.24
Consensus pattern (23 bp):
ACAAAGATTATAATGAATAAACA
Found at i:38290341 original size:11 final size:11
Alignment explanation
Indices: 38290325--38290361 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
38290315 AAGATGGAAG
38290325 AAAATTAATAT
1 AAAATTAATAT
38290336 AAAATTAATAT
1 AAAATTAATAT
*
38290347 AAAATAAATAGT
1 AAAATTAATA-T
38290359 AAA
1 AAA
38290362 TACATAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:38290996 original size:20 final size:21
Alignment explanation
Indices: 38290966--38291004 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
38290956 CATTATCATT
38290966 TATTATTTTTATCACTTTGAC
1 TATTATTTTTATCACTTTGAC
*
38290987 TATT-TTTTTATCATTTTG
1 TATTATTTTTATCACTTTG
38291005 GTTCCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (21 bp):
TATTATTTTTATCACTTTGAC
Found at i:38295153 original size:40 final size:40
Alignment explanation
Indices: 38294970--38295165 Score: 225
Period size: 40 Copynumber: 4.9 Consensus size: 40
38294960 GTATATATAG
*
38294970 GAATGCACATAAGTGCCATTGTTTGTACTTCTG-TACCCCT
1 GAATGCACATAAGTGCCACTGTTTGTACTTC-GATACCCCT
*
38295010 GAATGCACATAAGTGCCACTGTTTGTACTTTGATACCCCT
1 GAATGCACATAAGTGCCACTGTTTGTACTTCGATACCCCT
* **
38295050 AAATGCACATAAGTGCC-CATGTTTGTACTTCGGCACCCCT
1 GAATGCACATAAGTGCCAC-TGTTTGTACTTCGATACCCCT
* * *** *
38295090 GAATGCACTTAAATGCTTTTATTTGTACTTCGATACCCCT
1 GAATGCACATAAGTGCCACTGTTTGTACTTCGATACCCCT
* * * *
38295130 GAATGCACATACGTGCCCCTATTTGTACTACGATAC
1 GAATGCACATAAGTGCCACTGTTTGTACTTCGATAC
38295166 TCCTAAATTC
Statistics
Matches: 132, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 130 0.98
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (40 bp):
GAATGCACATAAGTGCCACTGTTTGTACTTCGATACCCCT
Found at i:38300639 original size:21 final size:22
Alignment explanation
Indices: 38300599--38300640 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38300589 TTTATATATT
*
38300599 TTTTCTTTTTGATTCTTTTTTC
1 TTTTCTTTTTGATTCATTTTTC
*
38300621 TTTT-TTTTTGATTGATTTTT
1 TTTTCTTTTTGATTCATTTTT
38300641 TTAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTTCTTTTTGATTCATTTTTC
Found at i:38311060 original size:13 final size:13
Alignment explanation
Indices: 38311042--38311066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38311032 TTAAAACTAA
38311042 AATTAACTAAATT
1 AATTAACTAAATT
38311055 AATTAACTAAAT
1 AATTAACTAAAT
38311067 AACACGACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAACTAAATT
Found at i:38318417 original size:51 final size:51
Alignment explanation
Indices: 38318341--38318442 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
38318331 TAGGCTATAG
* * *
38318341 GATGCCTATTTTGAGTCAGCACAGCCTCAATACCTATACCTGAGGCATCAC
1 GATGCCCATCTTGAGTCAGCACAGCCCCAATACCTATACCTGAGGCATCAC
38318392 GATGCCCATCTTGAGTCAGCACAGCCCCAATACCTATACCTGAGGCATCAC
1 GATGCCCATCTTGAGTCAGCACAGCCCCAATACCTATACCTGAGGCATCAC
38318443 ACTAAATCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (51 bp):
GATGCCCATCTTGAGTCAGCACAGCCCCAATACCTATACCTGAGGCATCAC
Found at i:38322480 original size:25 final size:26
Alignment explanation
Indices: 38322452--38322501 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
38322442 TACCTCTTGT
38322452 TTTCCTTTTGTTTTTCCA-CTTTTCC
1 TTTCCTTTTGTTTTTCCATCTTTTCC
38322477 TTTCCTTTTGTTTTTCCATCTTTTC
1 TTTCCTTTTGTTTTTCCATCTTTTC
38322502 TTTTTGCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTCCTTTTGTTTTTCCATCTTTTCC
Found at i:38328006 original size:47 final size:47
Alignment explanation
Indices: 38327954--38328310 Score: 534
Period size: 47 Copynumber: 7.6 Consensus size: 47
38327944 GATAATTGTG
* * *
38327954 ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38328001 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38328048 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38328095 ATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38328144 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38328191 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
38328238 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38328285 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
38328311 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 237 0.84
49 44 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:38328243 original size:190 final size:188
Alignment explanation
Indices: 38327954--38328310 Score: 615
Period size: 190 Copynumber: 1.9 Consensus size: 188
38327944 GATAATTGTG
* *
38327954 ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATAT
*
38328019 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
66 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGC
* *
38328084 CAATGTGATGAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 CAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38328144 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATAT
* *
38328209 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
66 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGC
*
38328274 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 CAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
38328311 TCCCGAAGGG
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
188 10 0.06
189 1 0.01
190 147 0.93
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATAT
GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGC
CAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:38330405 original size:99 final size:100
Alignment explanation
Indices: 38330222--38330412 Score: 242
Period size: 99 Copynumber: 1.9 Consensus size: 100
38330212 CTTGGAAGGG
* * *
38330222 AGCATACAACAGCTCTTGGTGCATGTATGTCCAGGCGCATGTCCTCCCTTAGTTGACATCCAATG
1 AGCAAACAACAGCTCTTGGTGCATGTAGGTCCAGGCGCATGTCCTCCCTTAGATGACATCCAATG
*
38330287 AACCTATTGGTGAGCAGCCAATACATTCAGCTATA
66 AACCTATTGATGAGCAGCCAATACATTCAGCTATA
* * * * * *
38330322 AGCAAACAGCAGCTTCTTGGTGCATGT-GGTCCAGGTGCATGTCTTCCTTTA-ATGCCGTCCAAT
1 AGCAAACAACAGC-TCTTGGTGCATGTAGGTCCAGGCGCATGTCCTCCCTTAGATGACATCCAAT
* * *
38330385 GAATCTGTTGATGAGCAGCCAATGCATT
65 GAACCTATTGATGAGCAGCCAATACATT
38330413 TAGCCTACAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
99 33 0.43
100 31 0.40
101 13 0.17
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (100 bp):
AGCAAACAACAGCTCTTGGTGCATGTAGGTCCAGGCGCATGTCCTCCCTTAGATGACATCCAATG
AACCTATTGATGAGCAGCCAATACATTCAGCTATA
Found at i:38339809 original size:24 final size:24
Alignment explanation
Indices: 38339761--38339807 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
38339751 ACTGGTCATA
*
38339761 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
38339785 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
38339808 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:38340603 original size:81 final size:81
Alignment explanation
Indices: 38340468--38340691 Score: 304
Period size: 81 Copynumber: 2.8 Consensus size: 81
38340458 GAGAGGTCAA
* * * * *
38340468 TAAAATGATTGAAATACCCCCATAGGGTAAAATGACTAAAATACCACTATAGGGTAAAATGATCG
1 TAAAATGATTGAAATACCCCAATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCA
*
38340533 AATTACCCTCATAGGG
66 AAATACCCTCATAGGG
* ** * *
38340549 TAAAATGATTTAAATACCCTTATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGATTA
1 TAAAATGATTGAAATACCCCAATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCA
38340614 AAATACCCTCATAGGG
66 AAATACCCTCATAGGG
* ** * *
38340630 TAAAATGACTGAAATACCCCAATAGGGTAGGATGACCGAAATACCCCCATAGGGTACAATGA
1 TAAAATGATTGAAATACCCCAATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA
38340692 CTGTTATACC
Statistics
Matches: 124, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 124 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.22
Consensus pattern (81 bp):
TAAAATGATTGAAATACCCCAATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCA
AAATACCCTCATAGGG
Found at i:38340702 original size:27 final size:27
Alignment explanation
Indices: 38340468--38340694 Score: 249
Period size: 27 Copynumber: 8.4 Consensus size: 27
38340458 GAGAGGTCAA
*
38340468 TAAAATGATTGAAATACCCCCATAGGG
1 TAAAATGACTGAAATACCCCCATAGGG
* * *
38340495 TAAAATGACTAAAATACCACTATAGGG
1 TAAAATGACTGAAATACCCCCATAGGG
* *
38340522 TAAAATGA-TCGAATTACCCTCATAGGG
1 TAAAATGACT-GAAATACCCCCATAGGG
* * **
38340549 TAAAATGATTTAAATACCCTTATAGGG
1 TAAAATGACTGAAATACCCCCATAGGG
* **
38340576 TAAAATAACCAAAATACCCCCATAGGG
1 TAAAATGACTGAAATACCCCCATAGGG
* * *
38340603 TAAAATGATTAAAATACCCTCATAGGG
1 TAAAATGACTGAAATACCCCCATAGGG
*
38340630 TAAAATGACTGAAATACCCCAATAGGG
1 TAAAATGACTGAAATACCCCCATAGGG
** *
38340657 TAGGATGACCGAAATACCCCCATAGGG
1 TAAAATGACTGAAATACCCCCATAGGG
*
38340684 TACAATGACTG
1 TAAAATGACTG
38340695 TTATACCCTT
Statistics
Matches: 165, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 163 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCCATAGGG
Found at i:38351056 original size:37 final size:36
Alignment explanation
Indices: 38350985--38351073 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 36
38350975 CAACTATAAG
38350985 TGCCGAATGC--ACATAT-TCACTTATACCCACCTA
1 TGCCGAATGCATACATATATCACTTATACCCACCTA
* *
38351018 TGCCGAATGCATACATATATACACTTATATCCAGCTA
1 TGCCGAATGCATACATATAT-CACTTATACCCACCTA
*
38351055 TGACGAATGCATACATATA
1 TGCCGAATGCATACATATA
38351074 CACATTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 10 0.20
35 6 0.12
36 1 0.02
37 32 0.65
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (36 bp):
TGCCGAATGCATACATATATCACTTATACCCACCTA
Found at i:38351311 original size:41 final size:41
Alignment explanation
Indices: 38351266--38351453 Score: 118
Period size: 41 Copynumber: 4.6 Consensus size: 41
38351256 AGATTCACTA
* *
38351266 GCACTTCA-CCTGATAGACTTATAGTC-TAATTCCGTTCACCG
1 GCACTT-AGCCTGATAGACCTATAG-CATAATTCAGTTCACCG
* * *
38351307 GCACTTAGCCTGCTAGGCCTATAGCATGATTCAGTTCACCG
1 GCACTTAGCCTGATAGACCTATAGCATAATTCAGTTCACCG
* * * *
38351348 GCACTTAGCCT-ACTGGACATATA--ATCCGATTCAATTCACCG
1 GCACTTAGCCTGA-TAGACCTATAGCAT--AATTCAGTTCACCG
* * * ** * *
38351389 GCACTTAGCCTGCTGGACGTATAGTC-CGATTCAATTCATCG
1 GCACTTAGCCTGATAGACCTATAG-CATAATTCAGTTCACCG
* *
38351430 GCACTTAGCCTGCTAGACGTATAG
1 GCACTTAGCCTGATAGACCTATAG
38351454 TCTGAACAAT
Statistics
Matches: 123, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 119 0.97
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
GCACTTAGCCTGATAGACCTATAGCATAATTCAGTTCACCG
Found at i:38351468 original size:41 final size:41
Alignment explanation
Indices: 38351300--38351455 Score: 206
Period size: 41 Copynumber: 3.8 Consensus size: 41
38351290 TCTAATTCCG
* * * *
38351300 TTCACCGGCACTTAGCCTGCTAGGCCTATAG-CATGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTC-CGATTCAA
* * * *
38351341 TTCACCGGCACTTAGCCTACTGGACATATAATCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAA
*
38351382 TTCACCGGCACTTAGCCTGCTGGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAA
*
38351423 TTCATCGGCACTTAGCCTGCTAGACGTATAGTC
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTC
38351456 TGAACAATTT
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 101 0.99
42 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAA
Found at i:38358242 original size:54 final size:54
Alignment explanation
Indices: 38358179--38358411 Score: 234
Period size: 54 Copynumber: 4.1 Consensus size: 54
38358169 AGTATCATAT
*
38358179 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
38358233 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
38358287 ATTATATATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 ATTAT-GA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTT-TA-T-T-A-
38358351 A
54 A
*
38358352 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
38358407 ATTAT
1 ATTAT
38358412 ATATTTTAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
54 62 0.43
55 2 0.01
56 7 0.05
57 12 0.08
58 5 0.03
59 4 0.03
60 16 0.11
61 4 0.03
62 5 0.03
63 12 0.08
64 7 0.05
65 2 0.01
66 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:38358279 original size:28 final size:27
Alignment explanation
Indices: 38358194--38358279 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
38358184 GATTTGAGTA
*
38358194 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
38358222 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
38358246 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
38358276 AATT
1 AATT
38358280 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:38358316 original size:15 final size:15
Alignment explanation
Indices: 38358281--38358332 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38358271 TTAAGAATTT
*
38358281 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38358295 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38358309 TATTTAATAATAAT-
1 TATTTAATTATAATA
38358323 TATGTTAATT
1 TAT-TTAATT
38358333 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38358358 original size:120 final size:120
Alignment explanation
Indices: 38358233--38358448 Score: 432
Period size: 120 Copynumber: 1.8 Consensus size: 120
38358223 ATTTTATTAA
38358233 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
38358298 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
66 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
38358353 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
38358418 TAATTATAATATATTTAATAATAATTATGTT
66 TAATTATAATATATTTAATAATAATTATGTT
38358449 TAAATATGAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (120 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
Done.