Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 115 of 207
Found at i:34548432 original size:691 final size:691
Alignment explanation
Indices: 34547111--34549181 Score: 3703
Period size: 691 Copynumber: 3.0 Consensus size: 691
34547101 TTATAAGAAG
* *
34547111 AAAGATTCAAAGGTATAAAAGATGGAAGGAAACAAGAGTTTGAGTTGACACCGCTATCGAACTAG
1 AAAGATTCAAAGGTATAAAAGATGGAAGGAAACAAGAGTTCGAGTTGACACCGCTAGCGAACTAG
34547176 GTAAGTCAATTCGAGACTCGAACGAAATGGAGAGGAAGGAAACCTCACAAGAACAATATGTTCAT
66 GTAAGTCAATTCGAGACTCGAACGAAATGGAGAGGAAGGAAACCTCACAAGAACAATATGTTCAT
34547241 TCAATAATTTGGCAAAAAGTTCTTTACAACATGAAATAACAAACTATTTATAGCCTCTATATGAT
131 TCAATAATTTGGCAAAAAGTTCTTTACAACATGAAATAACAAACTATTTATAGCCTCTATATGAT
*
34547306 ATTCGAATGGACAAAATAAACAAACTTAGAGACTAAGTAATTCGGCTTTAATTGTATGGATTAAT
196 AGTCGAATGGACAAAATAAACAAACTTAGAGACTAAGTAATTCGGCTTTAATTGTATGGATTAAT
*
34547371 CTAGAAATGTATTTCCTATTAGCTATGTCTAGATTTGGCTGGATGTAAGGTTCAATGTTCAGCTT
261 CTAGAAATGTATTTCCTATTAGCTATGTCTAGATTCGGCTGGATGTAAGGTTCAATGTTCAGCTT
34547436 CAAAGCTAAGGAAAAGAATGTGGCAGCTGGTGAATGCATAGGAGACCATCGGCCATGTCTAGGTT
326 CAAAGCTAAGGAAAAGAATGTGGCAGCTGGTGAATGCATAGGAGACCATCGGCCATGTCTAGGTT
34547501 CGACCAAAGGGTAAATGGTCCCTCCAATAGATGCCTCTTGGCCCAATAAACACATAGGAGATCAA
391 CGACCAAAGGGTAAATGGTCCCTCCAATAGATGCCTCTTGGCCCAATAAACACATAGGAGATCAA
*
34547566 TAGCTAGTAAACGATGCATGTAGGTGAGTATTCATGCACTCTTCCATTCATTCTAATGGACTATT
456 TAGCTAGTAAACGATGCATGTAGGTGAGTATTCATGCACTCTTCCATTCATTCTAATGGACTGTT
34547631 TATGCACCATCCTTAATGAATTCATACGTAGAACGTAGTAATTCATGCACCCGCACGTACATTGA
521 TATGCACCATCCTTAATGAATTCATACGTAGAACGTAGTAATTCATGCACCCGCACGTACATTGA
34547696 ACTAGCCCGTTCATGAACCATCATTGATTGTGTTTTCCATATTCGGTTGTACCTACAAAAGACAT
586 ACTAGCCCGTTCATGAACCATCATTGATTGTGTTTTCCATATTCGGTTGTACCTACAAAAGACAT
34547761 GAGCAACTTAAATTCAATGTATATTCGGCTGATCTTAGACA
651 GAGCAACTTAAATTCAATGTATATTCGGCTGATCTTAGACA
34547802 AAAGATTCAAAGGTATAAAAGATGGAAGGAAACAAGAGTTCGAGTTGACACCGCTAGCGAACTAG
1 AAAGATTCAAAGGTATAAAAGATGGAAGGAAACAAGAGTTCGAGTTGACACCGCTAGCGAACTAG
*
34547867 GTAAGTCAATTCGAGACTCGAACGAAATGGAGAAGAAGGAAACCTCACAAGAACAATATGTTCAT
66 GTAAGTCAATTCGAGACTCGAACGAAATGGAGAGGAAGGAAACCTCACAAGAACAATATGTTCAT
34547932 TCAATAATTTGGCAAAAAGTTCTTTACAACATGAAATAACAAACTATTTATAGCCTCTATATGAT
131 TCAATAATTTGGCAAAAAGTTCTTTACAACATGAAATAACAAACTATTTATAGCCTCTATATGAT
*
34547997 AGTCGAATGGACAAAATAAACAAACTTAGAGACTAAGTAATTCGGCTTTAATTGTATGAATTAAT
196 AGTCGAATGGACAAAATAAACAAACTTAGAGACTAAGTAATTCGGCTTTAATTGTATGGATTAAT
34548062 CTAGAAATGTATTTCCTATTAGCTATGTCTAGATTCGGCTGGATGTAAGGTTCAATGTTCAGCTT
261 CTAGAAATGTATTTCCTATTAGCTATGTCTAGATTCGGCTGGATGTAAGGTTCAATGTTCAGCTT
34548127 CAAAGCTAAGGAAAAGAATGTGGCAGCTGGTGAATGCATAGGAGACCATCGGCCATGTCTAGGTT
326 CAAAGCTAAGGAAAAGAATGTGGCAGCTGGTGAATGCATAGGAGACCATCGGCCATGTCTAGGTT
34548192 CGACCAAAGGGTAAATGGTCCCTCCAATAGATGCCTCTTGGCCCAATAAACACATAGGAGATCAA
391 CGACCAAAGGGTAAATGGTCCCTCCAATAGATGCCTCTTGGCCCAATAAACACATAGGAGATCAA
34548257 TAGCTAGTAAACGATGCATGTAGGTGAGTATTCATGCACTCTTCCATTCATTCTAATGGACTGTT
456 TAGCTAGTAAACGATGCATGTAGGTGAGTATTCATGCACTCTTCCATTCATTCTAATGGACTGTT
34548322 TATGCACCATCCTTAATGAATTCATACGTAGAACGTAGTAATTCATGCACCCGCACGTACATTGA
521 TATGCACCATCCTTAATGAATTCATACGTAGAACGTAGTAATTCATGCACCCGCACGTACATTGA
34548387 ACTAGCCCGTTCATGAACCATCATTGATTGTGTTTTCCATATTCGGTTGTACCTACAAAAGACAT
586 ACTAGCCCGTTCATGAACCATCATTGATTGTGTTTTCCATATTCGGTTGTACCTACAAAAGACAT
34548452 GAGCAACTTAAATTCAATGTATATTCGGCTGA-CTTAGACA
651 GAGCAACTTAAATTCAATGTATATTCGGCTGATCTTAGACA
*
34548492 AAAGATTCAAAGGTATAAAAGATGGAAGGAAACAAGAGTTCGAGTTGACACCGCTAGTGAACTAG
1 AAAGATTCAAAGGTATAAAAGATGGAAGGAAACAAGAGTTCGAGTTGACACCGCTAGCGAACTAG
* *
34548557 GTAAGTCAATTTGAGACTCGAACAAAATGGAGAGGAAGGAAACCTCACAAGAACAATATGTTCAT
66 GTAAGTCAATTCGAGACTCGAACGAAATGGAGAGGAAGGAAACCTCACAAGAACAATATGTTCAT
34548622 TCAATAATTTGGCAAAAAGTTCTTTACAACATGAAATAACAAACTATTTATAGCCTCTATATGAT
131 TCAATAATTTGGCAAAAAGTTCTTTACAACATGAAATAACAAACTATTTATAGCCTCTATATGAT
* * * *
34548687 AGTTGAATGGACAGAATAAACAAACTTAAAGACTAAGTAATTCGACTTTAATTGTATGGATTAAT
196 AGTCGAATGGACAAAATAAACAAACTTAGAGACTAAGTAATTCGGCTTTAATTGTATGGATTAAT
* * *
34548752 CTAGAAATGTATTTCCTATTAGCTATGTCTAGATTCGGCTAGATGTAAGGTGCAATGTTCAACTT
261 CTAGAAATGTATTTCCTATTAGCTATGTCTAGATTCGGCTGGATGTAAGGTTCAATGTTCAGCTT
* * * *** *
34548817 CAAACCTAAAGAAATGAATGTCATAGTTGGTGAATGCATAGGAGACCATCGGCCATGTCTAGGTT
326 CAAAGCTAAGGAAAAGAATGTGGCAGCTGGTGAATGCATAGGAGACCATCGGCCATGTCTAGGTT
* * * *
34548882 CGGCCAAAGGGTGAATGGTCCCTCTAATAGATGCCTTTTGGCCCAATAAACACATAGGAGATCAA
391 CGACCAAAGGGTAAATGGTCCCTCCAATAGATGCCTCTTGGCCCAATAAACACATAGGAGATCAA
* * * * * * *
34548947 TAGCCAGGAAACGATACATGTAGGTGAGTATTCATGCACTCGTCCATCCATTCTAATGAACCGTT
456 TAGCTAGTAAACGATGCATGTAGGTGAGTATTCATGCACTCTTCCATTCATTCTAATGGACTGTT
* * * * * * * * * *
34549012 CATGCACCATCCTTAATGCATTCATATGTTGAAGGCAGTCATTCATGCACCTGTACATACATTGA
521 TATGCACCATCCTTAATGAATTCATACGTAGAACGTAGTAATTCATGCACCCGCACGTACATTGA
* * *
34549077 ACCAGCCCGTTCATGAACCATCATTGATTGTGTTTTCCACATTCGGCTGTACCTACAAAAGACAT
586 ACTAGCCCGTTCATGAACCATCATTGATTGTGTTTTCCATATTCGGTTGTACCTACAAAAGACAT
34549142 GAGCAACTTAAATTCAATGTATATTCGGCTGATCTTAGAC
651 GAGCAACTTAAATTCAATGTATATTCGGCTGATCTTAGAC
34549182 TAAATACTTT
Statistics
Matches: 1329, Mismatches: 50, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
690 647 0.49
691 682 0.51
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (691 bp):
AAAGATTCAAAGGTATAAAAGATGGAAGGAAACAAGAGTTCGAGTTGACACCGCTAGCGAACTAG
GTAAGTCAATTCGAGACTCGAACGAAATGGAGAGGAAGGAAACCTCACAAGAACAATATGTTCAT
TCAATAATTTGGCAAAAAGTTCTTTACAACATGAAATAACAAACTATTTATAGCCTCTATATGAT
AGTCGAATGGACAAAATAAACAAACTTAGAGACTAAGTAATTCGGCTTTAATTGTATGGATTAAT
CTAGAAATGTATTTCCTATTAGCTATGTCTAGATTCGGCTGGATGTAAGGTTCAATGTTCAGCTT
CAAAGCTAAGGAAAAGAATGTGGCAGCTGGTGAATGCATAGGAGACCATCGGCCATGTCTAGGTT
CGACCAAAGGGTAAATGGTCCCTCCAATAGATGCCTCTTGGCCCAATAAACACATAGGAGATCAA
TAGCTAGTAAACGATGCATGTAGGTGAGTATTCATGCACTCTTCCATTCATTCTAATGGACTGTT
TATGCACCATCCTTAATGAATTCATACGTAGAACGTAGTAATTCATGCACCCGCACGTACATTGA
ACTAGCCCGTTCATGAACCATCATTGATTGTGTTTTCCATATTCGGTTGTACCTACAAAAGACAT
GAGCAACTTAAATTCAATGTATATTCGGCTGATCTTAGACA
Found at i:34552479 original size:20 final size:22
Alignment explanation
Indices: 34552454--34552495 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
34552444 TTATCTCCAA
34552454 AATTTC-T-CTCCTTTTTTTTT
1 AATTTCGTACTCCTTTTTTTTT
34552474 AATTTCGTAACTCCTTTTTTTT
1 AATTTCGT-ACTCCTTTTTTTT
34552496 CAATACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
23 12 0.63
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.64
Consensus pattern (22 bp):
AATTTCGTACTCCTTTTTTTTT
Found at i:34563785 original size:49 final size:49
Alignment explanation
Indices: 34563725--34563966 Score: 173
Period size: 50 Copynumber: 4.8 Consensus size: 49
34563715 GATAATAACA
* * *
34563725 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC-
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CG
* * *
34563774 TTCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-G
* * ** ** * *
34563824 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-ATCG
* * * **
34563874 TGCCAACGCCATGTCCCAGACAAGGTCTTACATGGGACCTCTCATAACCTCAATG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G
* * *
34563929 ATTCCAATTTCATGTCCAAGACATGGTCTTACATGGGA
1 -TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
34563967 TCTCTTTACC
Statistics
Matches: 152, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
48 4 0.03
49 37 0.24
50 77 0.51
51 1 0.01
52 1 0.01
55 1 0.01
56 31 0.20
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:34563853 original size:50 final size:50
Alignment explanation
Indices: 34563725--34563919 Score: 187
Period size: 50 Copynumber: 3.9 Consensus size: 50
34563715 GATAATAACA
* * ** * * *
34563725 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
34563774 TTCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
34563824 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
34563874 TGCCAACGCCATGTCCCAGACAAGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
34563920 ACCTCAATGA
Statistics
Matches: 118, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.32
50 79 0.67
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:34567244 original size:11 final size:11
Alignment explanation
Indices: 34567228--34567272 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
34567218 TAGTAGTTTC
34567228 TTCAAAAAAAA
1 TTCAAAAAAAA
34567239 TTCAAAAAAAA
1 TTCAAAAAAAA
*
34567250 ATCAAAAAAAAA
1 TTC-AAAAAAAA
34567262 TTCAAAAAAAA
1 TTCAAAAAAAA
34567273 ATTTGGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.16
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:34567248 original size:12 final size:12
Alignment explanation
Indices: 34567231--34567275 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
34567221 TAGTTTCTTC
34567231 AAAAAAAATTCA
1 AAAAAAAATTCA
34567243 AAAAAAAA-TCA
1 AAAAAAAATTCA
34567254 AAAAAAAATTCA
1 AAAAAAAATTCA
34567266 AAAAAAAATT
1 AAAAAAAATT
34567276 TGGTTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.34
12 21 0.66
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:34567261 original size:23 final size:23
Alignment explanation
Indices: 34567231--34567274 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
34567221 TAGTTTCTTC
34567231 AAAAAAAATTCAAAAAAAAATCA
1 AAAAAAAATTCAAAAAAAAATCA
34567254 AAAAAAAATTCAAAAAAAAAT
1 AAAAAAAATTCAAAAAAAAAT
34567275 TTGGTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.14
Consensus pattern (23 bp):
AAAAAAAATTCAAAAAAAAATCA
Found at i:34567333 original size:15 final size:16
Alignment explanation
Indices: 34567313--34567352 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
34567303 GATATCAAGT
34567313 TGAAAAAAAAA-TTCG
1 TGAAAAAAAAATTTCG
34567328 TGAAAAAAAAATTTCG
1 TGAAAAAAAAATTTCG
34567344 TGAAAAAAA
1 TGAAAAAAA
34567353 GAAGAAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (16 bp):
TGAAAAAAAAATTTCG
Found at i:34576587 original size:15 final size:15
Alignment explanation
Indices: 34576563--34576597 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
34576553 CAACATTTAA
*
34576563 GACTCTGTTAGGAAT
1 GACTCCGTTAGGAAT
34576578 GACTCCGTTAGGAAT
1 GACTCCGTTAGGAAT
34576593 GACTC
1 GACTC
34576598 TTTATCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (15 bp):
GACTCCGTTAGGAAT
Found at i:34579974 original size:13 final size:14
Alignment explanation
Indices: 34579956--34579984 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
34579946 ATTTGAACTG
34579956 AACTAACT-AAATT
1 AACTAACTAAAATT
34579969 AACTAACTAAAATT
1 AACTAACTAAAATT
34579983 AA
1 AA
34579985 ATAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
AACTAACTAAAATT
Found at i:34580058 original size:20 final size:21
Alignment explanation
Indices: 34580033--34580071 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34580023 AATAGAAAGA
34580033 TGGAAACGAGCTC-ATTGAGC
1 TGGAAACGAGCTCAATTGAGC
*
34580053 TGGAAATGAGCTCAATTGA
1 TGGAAACGAGCTCAATTGA
34580072 TCTCAACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (21 bp):
TGGAAACGAGCTCAATTGAGC
Found at i:34583481 original size:21 final size:18
Alignment explanation
Indices: 34583447--34583502 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 18
34583437 CCAAATTTCC
34583447 TTTTTTTTAT-AATTTTGAA
1 TTTTTTTT-TGAATTTTG-A
34583466 CTTTTTTTTTCGAATTTCTGA
1 -TTTTTTTTT-GAATTT-TGA
34583487 TTTTTTTTTGAATTTT
1 TTTTTTTTTGAATTTT
34583503 TTCAAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.03
19 7 0.21
20 17 0.52
21 6 0.18
22 2 0.06
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTTTTTTTGAATTTTGA
Found at i:34584867 original size:13 final size:14
Alignment explanation
Indices: 34584849--34584877 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
34584839 ATTTGAACTG
34584849 AACTAACT-AAATT
1 AACTAACTAAAATT
34584862 AACTAACTAAAATT
1 AACTAACTAAAATT
34584876 AA
1 AA
34584878 ATAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
AACTAACTAAAATT
Found at i:34590013 original size:21 final size:22
Alignment explanation
Indices: 34589969--34590015 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
34589959 GTGAAATCAG
* *
34589969 ATTTTGTAATGAACTTTTGATC
1 ATTTTGTAATGAAATTCTGATC
*
34589991 ATTTTG-AATGAAATTCTGTTC
1 ATTTTGTAATGAAATTCTGATC
34590012 ATTT
1 ATTT
34590016 GGTGAGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.51
Consensus pattern (22 bp):
ATTTTGTAATGAAATTCTGATC
Found at i:34590618 original size:16 final size:18
Alignment explanation
Indices: 34590596--34590638 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
34590586 TGAAGTATTG
*
34590596 AAAAAA-AATAATAATTCA
1 AAAAAACAATAA-ACTTCA
34590614 AAAAAACAATGAAACTTCA
1 AAAAAACAAT-AAACTTCA
34590633 AAAAAA
1 AAAAAA
34590639 AGTGTTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 14 0.64
20 2 0.09
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAAACAATAAACTTCA
Found at i:34594714 original size:25 final size:25
Alignment explanation
Indices: 34594665--34594717 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
34594655 AACTGACGAG
* **
34594665 ATTGGTCCAAAAGACTGGATGATGC
1 ATTGGTCCAAAAGACTAGACAATGC
34594690 ATTGGTCCAAAAGACTAGACAATGC
1 ATTGGTCCAAAAGACTAGACAATGC
34594715 ATT
1 ATT
34594718 ATGGGCCTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (25 bp):
ATTGGTCCAAAAGACTAGACAATGC
Found at i:34623451 original size:30 final size:30
Alignment explanation
Indices: 34623399--34623462 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
34623389 ACACATGGTT
* * *
34623399 GTGTGTCACACACGATTGAGACACATGCCC
1 GTGTGTCACACACGACTAAGACACACGCCC
* *
34623429 GTGTGTCACACATGGCTAAGACACACGCCC
1 GTGTGTCACACACGACTAAGACACACGCCC
34623459 GTGT
1 GTGT
34623463 CTCTGCCCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (30 bp):
GTGTGTCACACACGACTAAGACACACGCCC
Found at i:34637470 original size:44 final size:44
Alignment explanation
Indices: 34637422--34637606 Score: 130
Period size: 44 Copynumber: 4.2 Consensus size: 44
34637412 AAGATTGTAG
34637422 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
* ** * *
34637466 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCGA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGA-CAA
* * * * * ** * * *
34637510 ACCTTGTCTCCCTGAGCAGTAGCT-GAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAG-TGGAGCAGATCAAAGA-CGACAA
*
34637554 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGATAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
34637598 ATCTTATCT
1 ATCTTATCT
34637607 TTCCAAGATA
Statistics
Matches: 103, Mismatches: 26, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.04
43 10 0.10
44 80 0.78
45 5 0.05
46 3 0.03
47 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
Found at i:34637515 original size:132 final size:132
Alignment explanation
Indices: 34637278--34637677 Score: 649
Period size: 132 Copynumber: 3.0 Consensus size: 132
34637268 AACAGATCAG
* * * * * * * *
34637278 TGAAGATAGCAGACCTTATCTCCCTAAGTAGTAGTGGAGCATATCGAAGACGGCAAATCTTATTT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
34637343 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCAGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCAGAGTAG
34637408 GT
131 GT
34637410 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
* *
34637475 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGTAGCTGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCAGAGTAG
34637540 GT
131 GT
*
34637542 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGATAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
* * **
34637607 TTCCAAGATAGTGGGAAGCAGGTTTAAGCCACC-AAGCCTTGTCTCTCTGAGCAGCAGTGGAGTA
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAA-CCTTGTCTCCCTGAGCAGCAGCAGAGTA
34637671 GGT
130 GGT
34637674 TGAA
1 TGAA
34637678 AATAGCAGCA
Statistics
Matches: 251, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.01
132 249 0.99
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCAGAGTAG
GT
Found at i:34637712 original size:48 final size:45
Alignment explanation
Indices: 34637690--34637803 Score: 115
Period size: 45 Copynumber: 2.6 Consensus size: 45
34637680 TAGCAGCAGG
* * *
34637690 TCTTATCCCCCTGAGGTTGCAGTGGGGTAGATCGAAGATGATAAA
1 TCTTATCCCCCTGAGGTTGCAGTGGAGTAGATCGAAAATGACAAA
* * * *
34637735 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-CTGAGAA-GACAAG
1 TCTTATCCCCCTGAGGTTGCAGTGGAGTAGATC-GAAAATGACAAA
* * *
34637779 TCTTATCCCCTTGAAGTTCCAGTGG
1 TCTTATCCCCCTGAGGTTGCAGTGG
34637804 GGCAGACTGA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
44 26 0.46
45 31 0.54
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (45 bp):
TCTTATCCCCCTGAGGTTGCAGTGGAGTAGATCGAAAATGACAAA
Found at i:34637802 original size:44 final size:44
Alignment explanation
Indices: 34637735--34637834 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
34637725 AGATGATAAA
* *
34637735 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAGA-CAAG
1 TCTTATC-CCCTGAAGTTCCAGTGGAGCAGACTGAGAAGAGCAAG
* * *
34637779 TCTTATCCCCTTGAAGTTCCAGTGGGGCAGACTGAGAATAGCAAT
1 TCTTATCCCC-TGAAGTTCCAGTGGAGCAGACTGAGAAGAGCAAG
34637824 TCTTACTCCCC
1 TCTTA-TCCCC
34637835 AGGCGATGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 3 0.06
44 32 0.67
45 8 0.17
46 5 0.10
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (44 bp):
TCTTATCCCCTGAAGTTCCAGTGGAGCAGACTGAGAAGAGCAAG
Found at i:34637926 original size:50 final size:50
Alignment explanation
Indices: 34637849--34638010 Score: 144
Period size: 50 Copynumber: 3.2 Consensus size: 50
34637839 GATGCAGTGG
* ** **
34637849 AACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCGACGTTGCAGTTA
1 AACAGATTAAAGCTACAACAGCCAATCTTGCTTCCCCGACGTTGCAGTTA
* * * * * * **
34637899 AAAAGATTAAAGCTACAACAGCCAATCTTACTTCCCGGGCGGTGTAGTGG
1 AACAGATTAAAGCTACAACAGCCAATCTTGCTTCCCCGACGTTGCAGTTA
* * ** * **
34637949 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTTGACATCACAGTTA
1 AACAGATTAAAGCTACAACAGCCAATCTTGCTTCCCCGACGTTGCAGTTA
34637999 AACAGATTAAAG
1 AACAGATTAAAG
34638011 TTACGAGTTA
Statistics
Matches: 84, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (50 bp):
AACAGATTAAAGCTACAACAGCCAATCTTGCTTCCCCGACGTTGCAGTTA
Found at i:34637998 original size:100 final size:100
Alignment explanation
Indices: 34637824--34638010 Score: 239
Period size: 100 Copynumber: 1.9 Consensus size: 100
34637814 GAATAGCAAT
** *
34637824 TCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCGAC
1 TCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGAC
* **
34637889 GTTGCAGTTAAAAAGATTAAAGCTACAACAGCCAA
66 ATCACAGTTAAAAAGATTAAAGCTACAACAGCCAA
* * * * * * **
34637924 TCTTACTTCCCGGGCGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTTGAC
1 TCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGAC
*
34637989 ATCACAGTTAAACAGATTAAAG
66 ATCACAGTTAAAAAGATTAAAG
34638011 TTACGAGTTA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 72 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (100 bp):
TCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGAC
ATCACAGTTAAAAAGATTAAAGCTACAACAGCCAA
Found at i:34640920 original size:25 final size:25
Alignment explanation
Indices: 34640891--34641009 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 25
34640881 TCCTGTACAT
34640891 GTATGCTCATACGAGCTGT-GAATCA
1 GTATGCTCATACGAGCTGTAG-ATCA
* *
34640916 ATATGCCCACT-CGAGCTGTAGAT-A
1 GTATGCTCA-TACGAGCTGTAGATCA
* **
34640940 GGTATGCTC-TCACGAGCTGTAAATTG
1 -GTATGCTCAT-ACGAGCTGTAGATCA
* *
34640966 GTATGCTCACATGAGCTGTAGATCA
1 GTATGCTCATACGAGCTGTAGATCA
* *
34640991 GTATCCTCACACGAGCTGT
1 GTATGCTCATACGAGCTGT
34641010 GAGTCGGAAC
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
23 1 0.01
24 1 0.01
25 70 0.95
26 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTAGATCA
Found at i:34640956 original size:50 final size:50
Alignment explanation
Indices: 34640891--34641011 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
34640881 TCCTGTACAT
34640891 GTATGCTCAT-ACGAGCTGTGAATCAATATGCCCAC-TCGAGCTGTAGAT-A
1 GTATGCTC-TCACGAGCTGTGAATCAATATGCCCACAT-GAGCTGTAGATCA
* *** *
34640940 GGTATGCTCTCACGAGCTGTAAATTGGTATGCTCACATGAGCTGTAGATCA
1 -GTATGCTCTCACGAGCTGTGAATCAATATGCCCACATGAGCTGTAGATCA
* *
34640991 GTATCCTCACACGAGCTGTGA
1 GTATGCTCTCACGAGCTGTGA
34641012 GTCGGAACGT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.02
50 57 0.95
51 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (50 bp):
GTATGCTCTCACGAGCTGTGAATCAATATGCCCACATGAGCTGTAGATCA
Found at i:34642196 original size:17 final size:17
Alignment explanation
Indices: 34642176--34642208 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34642166 TTAATAACCC
34642176 AATTAAATTAATTCTAT
1 AATTAAATTAATTCTAT
*
34642193 AATTAATTTAATTCTA
1 AATTAAATTAATTCTA
34642209 GCGACAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTAAATTAATTCTAT
Found at i:34649956 original size:16 final size:16
Alignment explanation
Indices: 34649935--34649966 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34649925 GTTTTGTTCC
*
34649935 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
34649951 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
34649967 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:34650252 original size:51 final size:51
Alignment explanation
Indices: 34650194--34650384 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 51
34650184 CCGGTTCACA
* *
34650194 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCTGGTACACG
* * * * *
34650245 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACATGTGA-CCATCA-CTATCTGGTACACG
* * *
34650296 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACATG
1 TAGTAGCCTACACATAGTACTACACATGTGACC-ATCACTATCTGGTACACG
* *
34650346 TAGTAGCCTACACTTAGTACTACACATGTGACCGTCACT
1 TAGTAGCCTACACATAGTACTACACATGTGACCATCACT
34650385 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 3 0.03
50 40 0.35
51 69 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCTGGTACACG
Found at i:34650311 original size:102 final size:101
Alignment explanation
Indices: 34650192--34650376 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
34650182 TACCGGTTCA
*
34650192 CATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCTGATACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGATACACGTAGTAGCCTAC
34650256 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* *
34650294 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACATGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGATACACGTAGTAGCCTACAC
* *
34650359 TTAGTACTACACATGTGA
66 ATAGTACTACACACGTGA
34650377 CCGTCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 38 0.49
102 35 0.45
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:34650391 original size:6 final size:6
Alignment explanation
Indices: 34650380--34650407 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34650370 CATGTGACCG
34650380 TCACTT TCACTT TCACTT TCACTT TCAC
1 TCACTT TCACTT TCACTT TCACTT TCAC
34650408 ATAGTGGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:34653504 original size:25 final size:25
Alignment explanation
Indices: 34653440--34653552 Score: 113
Period size: 25 Copynumber: 4.5 Consensus size: 25
34653430 TCCTGTACAT
34653440 GTATGCTCAT-ACGAGCTGT-GAATCG
1 GTATGCTC-TCACGAGCTGTAG-ATCG
* * * * *
34653465 GTTTTCTCACTCGAGCTATAGATCG
1 GTATGCTCTCACGAGCTGTAGATCG
* * *
34653490 ATATGCTCTCACGAGCTGTAAATTG
1 GTATGCTCTCACGAGCTGTAGATCG
*
34653515 GTATGCTCACACGAGCTGTAGATCG
1 GTATGCTCTCACGAGCTGTAGATCG
34653540 GTATGCTCTCACG
1 GTATGCTCTCACG
34653553 CACTCTAACT
Statistics
Matches: 68, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
25 67 0.99
26 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAGATCG
Found at i:34653524 original size:50 final size:50
Alignment explanation
Indices: 34653441--34653552 Score: 145
Period size: 50 Copynumber: 2.2 Consensus size: 50
34653431 CCTGTACATG
* * * *
34653441 TATGCTCAT-ACGAGCTGTGAATCGGTTTTCTCACTCGAGCTATAGATCGA
1 TATGCTC-TCACGAGCTGTAAATCGGTATGCTCACACGAGCTATAGATCGA
* * *
34653491 TATGCTCTCACGAGCTGTAAATTGGTATGCTCACACGAGCTGTAGATCGG
1 TATGCTCTCACGAGCTGTAAATCGGTATGCTCACACGAGCTATAGATCGA
34653541 TATGCTCTCACG
1 TATGCTCTCACG
34653553 CACTCTAACT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.02
50 53 0.98
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (50 bp):
TATGCTCTCACGAGCTGTAAATCGGTATGCTCACACGAGCTATAGATCGA
Found at i:34653652 original size:50 final size:50
Alignment explanation
Indices: 34653595--34653707 Score: 111
Period size: 50 Copynumber: 2.3 Consensus size: 50
34653585 TCCAGTACAT
34653595 GTATGCTCAT-ACGAGCTGTGAATCGATTTTCTCACTCGAGCTATAGATCG
1 GTATGCTC-TCACGAGCTGTGAATCGATTTTCTCACTCGAGCTATAGATCG
* * * * * * * * * * *
34653645 GTATGCTCTCATGAGTTATAAATTGGTATGCTCACACGAACTGTAGATCG
1 GTATGCTCTCACGAGCTGTGAATCGATTTTCTCACTCGAGCTATAGATCG
34653695 GTATGCTCTCACG
1 GTATGCTCTCACG
34653708 CACTGTAGGT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
49 1 0.02
50 49 0.98
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
GTATGCTCTCACGAGCTGTGAATCGATTTTCTCACTCGAGCTATAGATCG
Found at i:34653664 original size:25 final size:25
Alignment explanation
Indices: 34653635--34653707 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
34653625 CTCACTCGAG
* *
34653635 CTATAGATCGGTATGCTCTCATGAG
1 CTATAGATCGGTATGCTCTCACGAA
* * * *
34653660 TTATAAATTGGTATGCTCACACGAA
1 CTATAGATCGGTATGCTCTCACGAA
*
34653685 CTGTAGATCGGTATGCTCTCACG
1 CTATAGATCGGTATGCTCTCACG
34653708 CACTGTAGGT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (25 bp):
CTATAGATCGGTATGCTCTCACGAA
Found at i:34653689 original size:155 final size:155
Alignment explanation
Indices: 34653402--34653711 Score: 557
Period size: 155 Copynumber: 2.0 Consensus size: 155
34653392 ACATTGTGTG
* *
34653402 CTAACTCATATAACTGTAATCTATCAAATCCTGTACATGTATGCTCATACGAGCTGTGAATCGGT
1 CTAACTCATATAACTGTAATCTATCAAATCCAGTACATGTATGCTCATACGAGCTGTGAATCGAT
* *
34653467 TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTGTAAATTGGTATGCTCACACGAGCT
66 TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTATAAATTGGTATGCTCACACGAACT
34653532 GTAGATCGGTATGCTCTCACGCACT
131 GTAGATCGGTATGCTCTCACGCACT
34653557 CTAACTCATATAACTGTAATCTATCAAATCCAGTACATGTATGCTCATACGAGCTGTGAATCGAT
1 CTAACTCATATAACTGTAATCTATCAAATCCAGTACATGTATGCTCATACGAGCTGTGAATCGAT
* * *
34653622 TTTCTCACTCGAGCTATAGATCGGTATGCTCTCATGAGTTATAAATTGGTATGCTCACACGAACT
66 TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTATAAATTGGTATGCTCACACGAACT
34653687 GTAGATCGGTATGCTCTCACGCACT
131 GTAGATCGGTATGCTCTCACGCACT
34653712 GTAGGTCGGA
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
155 148 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (155 bp):
CTAACTCATATAACTGTAATCTATCAAATCCAGTACATGTATGCTCATACGAGCTGTGAATCGAT
TTTCTCACTCGAGCTATAGATCGATATGCTCTCACGAGCTATAAATTGGTATGCTCACACGAACT
GTAGATCGGTATGCTCTCACGCACT
Found at i:34653712 original size:25 final size:24
Alignment explanation
Indices: 34653638--34653720 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
34653628 ACTCGAGCTA
* * *
34653638 TAGATCGGTATGCTCTCATGAGTTA
1 TAGATCGGTATGCTCTCACGA-CTG
* * *
34653663 TAAATTGGTATGCTCACACGAACTG
1 TAGATCGGTATGCTCTCACG-ACTG
34653688 TAGATCGGTATGCTCTCACGCACTG
1 TAGATCGGTATGCTCTCACG-ACTG
*
34653713 TAGGTCGG
1 TAGATCGG
34653721 AACGTAGCTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (24 bp):
TAGATCGGTATGCTCTCACGACTG
Found at i:34655516 original size:27 final size:25
Alignment explanation
Indices: 34655464--34655520 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
34655454 ACCCGCTGAA
34655464 TATTTTTTAATTTTTTTCTTGATTTC
1 TATTTTTTAATTTTTTTCTT-ATTTC
34655490 GTATTTTTTAATTTTTTTGACTT-TTTC
1 -TATTTTTTAATTTTTTT--CTTATTTC
34655517 TATT
1 TATT
34655521 GATTTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 4 0.14
27 21 0.75
29 3 0.11
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (25 bp):
TATTTTTTAATTTTTTTCTTATTTC
Found at i:34658200 original size:6 final size:6
Alignment explanation
Indices: 34658189--34658220 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
34658179 GCATCGATGT
34658189 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AA
34658221 GGTTTCGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:34671430 original size:19 final size:18
Alignment explanation
Indices: 34671386--34671431 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
34671376 GAGTTAAACG
* * *
34671386 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAATC
34671404 AATCGAATTATTCGAATC
1 AATCGAATTATTCGAATC
34671422 AACTCGAATT
1 AA-TCGAATT
34671432 TTTTTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAATC
Found at i:34671489 original size:9 final size:9
Alignment explanation
Indices: 34671472--34671535 Score: 110
Period size: 9 Copynumber: 7.1 Consensus size: 9
34671462 TGAGTTTTAG
34671472 AATTCGAAT
1 AATTCGAAT
*
34671481 AACTCGAAT
1 AATTCGAAT
*
34671490 AATTCAAAT
1 AATTCGAAT
34671499 AATTCGAAT
1 AATTCGAAT
34671508 AATTCGAAT
1 AATTCGAAT
34671517 AATTCGAAT
1 AATTCGAAT
34671526 AATTCGAAT
1 AATTCGAAT
34671535 A
1 A
34671536 TCAAACTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34680372 original size:19 final size:19
Alignment explanation
Indices: 34680348--34680418 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
34680338 ATATTCATAA
*
34680348 AAAGGGAGGAAATCAGTGT
1 AAAGGGAGAAAATCAGTGT
34680367 AAAGGG-GAAAAGTCAGTGT
1 AAAGGGAGAAAA-TCAGTGT
* *
34680386 AAAGAGAAAAAAATCAGTGT
1 AAAG-GGAGAAAATCAGTGT
34680406 AAAGGGAGGAAAA
1 AAAGGGA-GAAAA
34680419 AAAATCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.09
19 19 0.44
20 16 0.37
21 4 0.09
ACGTcount: A:0.51, C:0.04, G:0.32, T:0.13
Consensus pattern (19 bp):
AAAGGGAGAAAATCAGTGT
Found at i:34680418 original size:20 final size:20
Alignment explanation
Indices: 34680348--34680418 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
34680338 ATATTCATAA
34680348 AAAGGGAGG-AAATCAGTGT
1 AAAGGGAGGAAAATCAGTGT
34680367 AAA-GG-GGAAAAGTCAGTGT
1 AAAGGGAGGAAAA-TCAGTGT
* **
34680386 AAAGAGAAAAAAATCAGTGT
1 AAAGGGAGGAAAATCAGTGT
34680406 AAAGGGAGGAAAA
1 AAAGGGAGGAAAA
34680419 AAAATCAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.05
18 5 0.12
19 13 0.31
20 18 0.43
21 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.32, T:0.13
Consensus pattern (20 bp):
AAAGGGAGGAAAATCAGTGT
Found at i:34680872 original size:46 final size:45
Alignment explanation
Indices: 34680801--34680891 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 45
34680791 GACTCGGGGA
*
34680801 AGGATCCATGCGTTTCTAACGCTTCGGAAAATTACGCAAACAGTC
1 AGGATCCACGCGTTTCTAACGCTTCGGAAAATTACGCAAACAGTC
34680846 AGGATCCACGCGTTTTCTAACGCTTCGGAAAATTACGCAAACAGTC
1 AGGATCCACGCG-TTTCTAACGCTTCGGAAAATTACGCAAACAGTC
34680892 CCTTTTCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 11 0.25
46 33 0.75
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (45 bp):
AGGATCCACGCGTTTCTAACGCTTCGGAAAATTACGCAAACAGTC
Found at i:34681391 original size:24 final size:23
Alignment explanation
Indices: 34681233--34681430 Score: 118
Period size: 24 Copynumber: 8.6 Consensus size: 23
34681223 CTTATTATCA
*
34681233 TTAAATTAATCATTAATATTA-T
1 TTAAATTTATCATTAATATTATT
* * ** *
34681255 CTAAGTTTATTGTATATTATTATT
1 TTAAATTTATCAT-TAATATTATT
* **
34681279 TTAGATTTATCATGTTTTATTATT
1 TTAAATTTATCAT-TAATATTATT
* *
34681303 TGT-AATTTATCAATATTATTATT
1 T-TAAATTTATCATTAATATTATT
* * *
34681326 TTAAATTCATCGTTAACATTATT
1 TTAAATTTATCATTAATATTATT
*
34681349 TTAAATTTATCCTGT-ATATTTATT
1 TTAAATTTATCAT-TAATA-TTATT
*
34681373 TCAAATTTATCATTAATA-T-TT
1 TTAAATTTATCATTAATATTATT
* * *
34681394 TTAAATTTATTATATACTATCATT
1 TTAAATTTATCAT-TAATATTATT
**
34681418 TTGGATTTATCAT
1 TTAAATTTATCAT
34681431 GTACGATTAT
Statistics
Matches: 133, Mismatches: 33, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
21 13 0.10
22 14 0.11
23 46 0.35
24 59 0.44
25 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (23 bp):
TTAAATTTATCATTAATATTATT
Found at i:34681520 original size:24 final size:23
Alignment explanation
Indices: 34681462--34681520 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
34681452 CATCAAAATT
34681462 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
34681485 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
34681510 TTGTAAATTAT
1 TT-TAAATTAT
34681521 CTAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:34684335 original size:53 final size:53
Alignment explanation
Indices: 34684255--34684360 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
34684245 TCATGTCTAA
34684255 ACGTCATTATTTTAATGAAGTACATTTTTGCAATTCTTTTGAGCAAATATTCT
1 ACGTCATTATTTTAATGAAGTACATTTTTGCAATTCTTTTGAGCAAATATTCT
34684308 ACGTCATTATTTTAATGAAGTACATTTTTGCAATTCTTTTGAGCAAATATTCT
1 ACGTCATTATTTTAATGAAGTACATTTTTGCAATTCTTTTGAGCAAATATTCT
34684361 TTCATTCTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (53 bp):
ACGTCATTATTTTAATGAAGTACATTTTTGCAATTCTTTTGAGCAAATATTCT
Found at i:34685242 original size:22 final size:22
Alignment explanation
Indices: 34685217--34685271 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
34685207 AAAGGAAAAA
*
34685217 AAAAAGAAAAAACGTCAAAATC
1 AAAAAGAAAAAACATCAAAATC
**
34685239 AAAATA-AAAAGTCATCAAAATC
1 AAAA-AGAAAAAACATCAAAATC
34685261 AAAAATGAAAA
1 AAAAA-GAAAA
34685272 TGAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.04
22 21 0.78
23 5 0.19
ACGTcount: A:0.69, C:0.11, G:0.07, T:0.13
Consensus pattern (22 bp):
AAAAAGAAAAAACATCAAAATC
Found at i:34687547 original size:44 final size:44
Alignment explanation
Indices: 34687492--34688250 Score: 405
Period size: 44 Copynumber: 17.6 Consensus size: 44
34687482 AAACCAACCC
* ** *
34687492 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * *
34687536 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACATC-TAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * *
34687577 CATCTC-CTTGAAGTTGCAATGGAGCAGATTGAAGAAAC-CA-ATCC
1 TATCTCTC-TGAAGTTGCAGTGGAGCAGATT-AA-AATCACAGATCT
*
34687621 TATCTC-CTTGAAGTTGCAGTGGAGCGGATTAAAA-CACAGATCT
1 TATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ***
34687664 TATCTCTCTGAAGTTGTAG-AGAGTAGA-TCGCATC-CA-ATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * **
34687704 TATCTCTTTGAAGTTGCAGTGGGGCAGACTAAAGATGGC-GAATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA-ATCACAG-ATCT
* * * * * * * *
34687749 TATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAACCA-ATAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-GATCT
* *
34687793 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGC-TAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAAT-CACAGATCT
* * ***
34687837 TATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGCATC-CAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * * *
34687878 TATCTCCCTGAAGTTACAGTAGAGCAGACTGAATAAAC-CA-ATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCACAGATCT
* * * *
34687922 TATCT-TCTTGAAGTTACAGTGGAGCAGATTGAATAA-AATA-ATCC
1 TATCTCTC-TGAAGTTGCAGTGGAGCAGATT-AA-AATCACAGATCT
* * * **
34687966 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAGTGATGGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * *** *
34688010 TATCTCTCTAAAGTTGTAGTAGAGCAGA-TCGCAT--CAGGTCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
** *
34688051 TATCT-TCCTGAAGTTGCAGTGGAGCAGA-CGAAATAAACCA-ATCT
1 TATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAAT-CA-CAGATCT
* * * * *
34688095 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAAAAATC-
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * * **
34688138 TATCTCTCTGAAGTTGCAGTGAATCAGATCAAAATGATGGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * ****
34688182 TATCTCTCTGAAGTTGCAGTAGAGAAGATCGCTA-CA-AG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* *
34688223 TATCTCACTGAAGTTGTAGTGGAGCAGA
1 TATCTCTCTGAAGTTGCAGTGGAGCAGA
34688251 CTGAATATAG
Statistics
Matches: 545, Mismatches: 132, Indels: 79
0.72 0.17 0.10
Matches are distributed among these distances:
40 23 0.04
41 120 0.22
42 19 0.03
43 74 0.14
44 271 0.50
45 38 0.07
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
Found at i:34687763 original size:128 final size:129
Alignment explanation
Indices: 34687479--34687821 Score: 404
Period size: 129 Copynumber: 2.7 Consensus size: 129
34687469 GAACAGATCG
* *
34687479 AAGAAACCAACCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTC
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* * * *
34687544 TGAAGTTGCAGTAGAGCAGATCACATCTAGTCTCATCTCCTTGAAGTTGCAATGGAGCAGATTG
66 TGAAGTTGCAGTAGAGCAGATCACATCCAATCTCATCTCCTTGAAGTTGCAATGGAGCAGACTA
*
34687608 AAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAA-CACAGATCTTATCTCTC
1 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* * * * * * *
34687672 TGAAGTTGTAG-AGAGTAGATCGCATCCAATCTTATCTCTTTGAAGTTGCAGTGGGGCAGACTA
66 TGAAGTTGCAGTAGAGCAGATCACATCCAATCTCATCTCCTTGAAGTTGCAATGGAGCAGACTA
** * * * * ** * * *
34687735 AAGATGGCGAATCTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAACCA-ATAATCCTATCTC
1 AAGA-AACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA-GATCTTATCTC
* *
34687799 CCTGAAGTTGCAGTGGAGCAGAT
64 TCTGAAGTTGCAGTAGAGCAGAT
34687822 TAAAATGCTA
Statistics
Matches: 180, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
127 46 0.26
128 61 0.34
129 66 0.37
130 7 0.04
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (129 bp):
AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
TGAAGTTGCAGTAGAGCAGATCACATCCAATCTCATCTCCTTGAAGTTGCAATGGAGCAGACTA
Found at i:34687903 original size:129 final size:129
Alignment explanation
Indices: 34687746--34687990 Score: 282
Period size: 129 Copynumber: 1.9 Consensus size: 129
34687736 AGATGGCGAA
* * * * *
34687746 TCTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAA-ACCAA-TAATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTACAGCAGAGCAAACTGAATA--AACCAATCCTATCTCCCTGAAGTTA
** * *
34687809 CAGTGGAGCAGATT-AA-AATGCTAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATC
64 CAGTGGAGCAGATTGAATAA-AATA-ATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
34687872 CAG
127 CAG
* * * * * *
34687875 TCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAATAAACCAATCTTATCTTCTTGAAGTTACA
1 TCTTATCTCCCTAAAGTTACAGCAGAGCAAACTGAATAAACCAATCCTATCTCCCTGAAGTTACA
*
34687940 GTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTGGAGC
66 GTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTAGAGC
34687991 GGATTAAAGT
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
128 2 0.02
129 87 0.91
130 5 0.05
131 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTAAAGTTACAGCAGAGCAAACTGAATAAACCAATCCTATCTCCCTGAAGTTACA
GTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
Found at i:34687964 original size:173 final size:172
Alignment explanation
Indices: 34687578--34688257 Score: 816
Period size: 173 Copynumber: 3.9 Consensus size: 172
34687568 ATCTAGTCTC
* * ** *
34687578 ATCTCCTTGAAGTTGCAATGGAGCAGATTGAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAAATAATCCTATCTCCCTGAAGTTGCAGTGG
* * * * *
34687643 AGCGGATTAAAA-CACAGATCTTATCTCTCTGAAGTTGTAG-AGAGTAGATCGCATCCAATCTTA
65 AGCAGATTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTA
** * * * ** *
34687706 TCTCTTTGAAGTTGCAGTGGGGCAGACTAAAGATGGCGAATCTT
130 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAATA-AACCAATCTT
* * * *
34687750 ATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAACCAATAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-AAATAATCCTATCTCCCTGAAGTTGCAGTGG
*
34687815 AGCAGATTAAAATGCTAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTA
65 AGCAGATTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTA
* *
34687880 TCTCCCTGAAGTTACAGTAGAGCAGACTGAATAAACCAATCTT
130 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAACCAATCTT
* * * *
34687923 ATCTTCTTGAAGTTACAGTGGAGCAGATTGAATAAAATAATCCTATCTCTCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAAATAATCCTATCTCCCTGAAGTTGCAGTGG
* * * *
34687988 AGCGGATTAAAGTGATGGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCAT-CAGGTCTT
65 AGCAGATTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCA-GTCTT
*
34688052 ATCTTCCTGAAGTTGCAGTGGAGCAGAC-GAAATAAACCAATCTT
129 ATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AATAAACCAATCTT
* * *
34688096 ATCTCCCTGAAGTTGTAGTGGAGCAGATT-AAAACCAAAAAT-CTATCTCTCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAA--AATAATCCTATCTCCCTGAAGTTGCAGTG
* * * * * * *
34688159 AATCAGATCAAAATGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCGC-TACAAGTCT
64 GAGCAGATTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCAT-CCAGTCT
* *
34688223 TATCTCACTGAAGTTGTAGTGGAGCAGACTGAATA
128 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATA
34688258 TAGCAAATTT
Statistics
Matches: 439, Mismatches: 58, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
171 4 0.01
172 173 0.39
173 214 0.49
174 48 0.11
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (172 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAATAATCCTATCTCCCTGAAGTTGCAGTGGA
GCAGATTAAAATGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTAT
CTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAACCAATCTT
Found at i:34688143 original size:345 final size:345
Alignment explanation
Indices: 34687578--34688257 Score: 913
Period size: 345 Copynumber: 2.0 Consensus size: 345
34687568 ATCTAGTCTC
* *
34687578 ATCTCCTTGAAGTTGCAATGGAGCAGATTGAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGG
1 ATCTCCTTGAAGTTACAATGGAGCAGATTGAAGAAAACAATCCTATCTCCTTGAAGTTGCAGTGG
* *
34687643 AGCGGATTAAAACACAGATCTTATCTCTCTGAAGTTGTAGAGAGTAGATCGCATCCAATCTTATC
66 AGCGGATTAAAACACAGATCTTATCTCTCTAAAGTTGTAGAGAGCAGATCGCATCCAATCTTATC
* * * ** *
34687708 TCTTTGAAGTTGCAGTGGGGCAGACTAAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGCGGAG
131 TCTCTGAAGTTGCAGTGGAGCAGACGAAAGATAACCAATCTTATCTCCCTAAAGTTGCAGCGGAG
* * * * *
34687773 CAAATTGAAACCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCTAGATCTT
196 CAAATTAAAACCAAAAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAATGATAGATCTT
* * * *
34687838 ATCTCTCTGAAGTTGTAGTAGAGCAGATCGC-ATCCAGTCTTATCTCCCTGAAGTTACAGTAGAG
261 ATCTCTCTGAAGTTGCAGTAGAGAAGATCGCTA-CAAGTCTTATCTCACTGAAGTTACAGTAGAG
34687902 CAGACTGAATAAACCAATCTT
325 CAGACTGAATAAACCAATCTT
* * * *
34687923 ATCTTCTTGAAGTTACAGTGGAGCAGATTGAATAAAATAATCCTATCT-CTCTGAAGTTGCAGTG
1 ATCTCCTTGAAGTTACAATGGAGCAGATTGAAGAAAACAATCCTATCTCCT-TGAAGTTGCAGTG
** ** *
34687987 GAGCGGATTAAAGTGATGGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCAT-CAGGTCT
65 GAGCGGATTAAA-ACACAGATCTTATCTCTCTAAAGTTGTAG-AGAGCAGATCGCATCCA-ATCT
* * *
34688051 TATCT-TCCTGAAGTTGCAGTGGAGCAGACGAAATA-AACCAATCTTATCTCCCTGAAGTTGTAG
127 TATCTCT-CTGAAGTTGCAGTGGAGCAGACGAAAGATAACCAATCTTATCTCCCTAAAGTTGCAG
* * * * *
34688114 TGGAGCAGATTAAAACCAAAAAT-CTATCTCTCTGAAGTTGCAGTGAATCAGATCAAAATGATGG
191 CGGAGCAAATTAAAACCAAAAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAATGATAG
**
34688178 ATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCGCTACAAGTCTTATCTCACTGAAGTTGTAGT
256 ATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCGCTACAAGTCTTATCTCACTGAAGTTACAGT
*
34688243 GGAGCAGACTGAATA
321 AGAGCAGACTGAATA
34688258 TAGCAAATTT
Statistics
Matches: 290, Mismatches: 39, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
344 2 0.01
345 173 0.60
346 70 0.24
347 45 0.16
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (345 bp):
ATCTCCTTGAAGTTACAATGGAGCAGATTGAAGAAAACAATCCTATCTCCTTGAAGTTGCAGTGG
AGCGGATTAAAACACAGATCTTATCTCTCTAAAGTTGTAGAGAGCAGATCGCATCCAATCTTATC
TCTCTGAAGTTGCAGTGGAGCAGACGAAAGATAACCAATCTTATCTCCCTAAAGTTGCAGCGGAG
CAAATTAAAACCAAAAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAATGATAGATCTT
ATCTCTCTGAAGTTGCAGTAGAGAAGATCGCTACAAGTCTTATCTCACTGAAGTTACAGTAGAGC
AGACTGAATAAACCAATCTT
Found at i:34688687 original size:19 final size:19
Alignment explanation
Indices: 34688663--34688703 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
34688653 TATTCATAAA
34688663 AAAGGGAGGAAA-TCAGTGT
1 AAAGGG-GGAAAGTCAGTGT
34688682 AAA-GGGGAAAGTCAGTGT
1 AAAGGGGGAAAGTCAGTGT
34688700 AAAG
1 AAAG
34688704 AGAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.44, C:0.05, G:0.37, T:0.15
Consensus pattern (19 bp):
AAAGGGGGAAAGTCAGTGT
Found at i:34688708 original size:17 final size:17
Alignment explanation
Indices: 34688671--34688708 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
34688661 AAAAAGGGAG
*
34688671 GAAATCAGTGTAAAGGG
1 GAAATCAGTGTAAAGGA
34688688 GAAAGTCAGTGTAAA-GA
1 GAAA-TCAGTGTAAAGGA
34688705 GAAA
1 GAAA
34688709 AAAATAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.05, G:0.32, T:0.16
Consensus pattern (17 bp):
GAAATCAGTGTAAAGGA
Found at i:34689566 original size:24 final size:24
Alignment explanation
Indices: 34689537--34689763 Score: 145
Period size: 24 Copynumber: 9.8 Consensus size: 24
34689527 GTTTATTGTA
*
34689537 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
34689561 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
* *
34689584 TATTATTATTTTAAATTCATCGT-
1 TATTATTATTTTAAATTTATCATG
** *
34689607 TAACATTATTTTAAATTTATCCTG
1 TATTATTATTTTAAATTTATCATG
*
34689631 TA-TATTTATTTCAAATTTATCAT-
1 TATTA-TTATTTTAAATTTATCATG
* * *
34689654 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* *
34689676 TACTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* * *
34689700 TATGATTATTCTAGAA-TCATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
34689723 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
*
34689745 TATTATTATTTCAAATTTA
1 TATTATTATTTTAAATTTA
34689764 ATTTATATTA
Statistics
Matches: 155, Mismatches: 33, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
20 2 0.01
21 19 0.12
22 12 0.08
23 47 0.30
24 73 0.47
25 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:34689617 original size:70 final size:69
Alignment explanation
Indices: 34689503--34689709 Score: 179
Period size: 70 Copynumber: 3.0 Consensus size: 69
34689493 TATTATCATT
* * * * * * *
34689503 AAATTAATCATTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTTATCATGTTTTATT
1 AAATTTATCAATAATATT-TTTAAATTCATTATATACTATTATTTTAGATTTATCATGTTTTATT
*
34689568 ATTTG
65 ATTTC
* * * * *
34689573 TAATTTATCAATATTATTATTTTAAATTCATCGT-TA-AC-ATTATTTTAAATTTATCCTG-TAT
1 AAATTTATCAATAATA-T-TTTTAAATTCAT--TATATACTATTATTTTAGATTTATCATGTTTT
34689634 ATTTATTTC
62 A-TTATTTC
* * * *
34689643 AAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCATGTATGATTA
1 AAATTTATCAATAATATTTTTAAATTCATTATATACTATTATTTTAGATTTATCATGTTTTATTA
34689708 TT
66 TT
34689710 CTAGAATCAT
Statistics
Matches: 107, Mismatches: 21, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
66 1 0.01
67 2 0.02
68 13 0.12
69 27 0.25
70 50 0.47
71 10 0.09
72 3 0.03
73 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (69 bp):
AAATTTATCAATAATATTTTTAAATTCATTATATACTATTATTTTAGATTTATCATGTTTTATTA
TTTC
Found at i:34689722 original size:69 final size:69
Alignment explanation
Indices: 34689504--34689776 Score: 199
Period size: 69 Copynumber: 4.0 Consensus size: 69
34689494 ATTATCATTA
* * * * * *
34689504 AATTAATCATTAATATTATCTAAGTTTAT-TGTATATTATTATTTTAGATTTATCATGTTTTATT
1 AATTTATCATTAATATT-TTTAAATTTATATATATACTATTATTTTAGATTTATCATG-TATATT
34689568 ATTT-G
64 ATTTAG
* * * * * *
34689573 TAATTTATCAATATTATTATTTTAAATTCATCGT-TA-AC-ATTATTTTAAATTTATCCTGTATA
1 -AATTTATCATTAATA-T-TTTTAAATTTAT-ATATATACTATTATTTTAGATTTATCATGTATA
34689635 TTTATTTCA-
62 -TTATTT-AG
34689644 AATTTATCATTAATATTTTTAAATTTAT-TATATACTATTATTTTAGATTTATCATGTATGATTA
1 AATTTATCATTAATATTTTTAAATTTATATATATACTATTATTTTAGATTTATCATGTAT-ATTA
34689708 TTCTAG
65 TT-TAG
* * * * * * * *
34689714 AA-TCATCATCAAAATTTTTAAATTT-TATATGTATTATTATTTCAAATTTA--ATTTATATTAT
1 AATTTATCATTAATATTTTTAAATTTATATATATACTATTATTTTAGATTTATCATGTATATTAT
34689775 TT
66 TT
34689777 TTTGTAAATT
Statistics
Matches: 166, Mismatches: 23, Indels: 33
0.75 0.10 0.15
Matches are distributed among these distances:
65 1 0.01
66 7 0.04
67 7 0.04
68 14 0.08
69 70 0.42
70 53 0.32
71 10 0.06
72 3 0.02
73 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (69 bp):
AATTTATCATTAATATTTTTAAATTTATATATATACTATTATTTTAGATTTATCATGTATATTAT
TTAG
Found at i:34690158 original size:43 final size:43
Alignment explanation
Indices: 34690101--34690258 Score: 237
Period size: 43 Copynumber: 3.7 Consensus size: 43
34690091 TTATGTGAAA
34690101 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
* *
34690144 AAACACCGCTAAAGAACATGACCTTTAGCAGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
* * * *
34690187 AAACGCCGCTAAAGAACATGACCTTTAGTGACGCTTTTATCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
* *
34690230 AAACGCTGTTAAAGAACA-GACCTTTAGCG
1 AAACGCCGCTAAAGAACATGACCTTTAGCG
34690259 ACACTTCTCG
Statistics
Matches: 104, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 10 0.10
43 94 0.90
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
Found at i:34690276 original size:42 final size:42
Alignment explanation
Indices: 34690101--34690278 Score: 189
Period size: 43 Copynumber: 4.2 Consensus size: 42
34690091 TTATGTGAAA
* *
34690101 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTAG-CAC
* *
34690144 AAACACCGCTAAAGAACATGACCTTTAGC-AGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGA-CGCTTTAG-CAC
* * *
34690187 AAACGCCGCTAAAGAACATGACCTTTAGTGACGCTTTTATCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGC-TTTAGCAC
* * * * *
34690230 AAACGCTGTTAAAGAACA-GACCTTTAGCGACACTTCTCGCAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTT-TAGCAC
34690272 AAACGCC
1 AAACGCC
34690279 ACAAAAAAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.02
42 22 0.19
43 88 0.76
44 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTAGCAC
Found at i:34693571 original size:38 final size:38
Alignment explanation
Indices: 34693528--34693609 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
34693518 TAAAACAATT
* * *
34693528 GATAAACCAAACTTTGTGAGATGAACATGTAAAAAACA
1 GATAAAACAAACTTTGTGAGATAAACATATAAAAAACA
* *
34693566 GATAAAAGAAATTTTGTGAGATAAACATATAAAAAACA
1 GATAAAACAAACTTTGTGAGATAAACATATAAAAAACA
34693604 GATAAA
1 GATAAA
34693610 GTTTGTAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.22
Consensus pattern (38 bp):
GATAAAACAAACTTTGTGAGATAAACATATAAAAAACA
Found at i:34694663 original size:7 final size:7
Alignment explanation
Indices: 34694648--34694713 Score: 62
Period size: 7 Copynumber: 9.4 Consensus size: 7
34694638 CACTAACTCT
34694648 TAACCTC
1 TAACCTC
*
34694655 TAACATC
1 TAACCTC
34694662 TAACCTC
1 TAACCTC
*
34694669 TAACCCC
1 TAACCTC
*
34694676 TAACCCC
1 TAACCTC
*
34694683 TAACCCC
1 TAACCTC
*
34694690 TAACCCC
1 TAACCTC
34694697 TAA-CTAC
1 TAACCT-C
*
34694704 TAACCCC
1 TAACCTC
34694711 TAA
1 TAA
34694714 ACCTTATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
6 1 0.02
7 50 0.96
8 1 0.02
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCTC
Found at i:34694664 original size:21 final size:21
Alignment explanation
Indices: 34694640--34694713 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
34694630 CCTTAAATCA
*
34694640 CTAA-CTCTTAACCTCTAACAT
1 CTAACCTC-TAACCCCTAACAT
**
34694661 CTAACCTCTAACCCCTAACCC
1 CTAACCTCTAACCCCTAACAT
*
34694682 CTAACCCCTAACCCCTAAC-T
1 CTAACCTCTAACCCCTAACAT
*
34694702 ACTAACCCCTAA
1 -CTAACCTCTAA
34694714 ACCTTATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 43 0.93
22 3 0.07
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAACCTCTAACCCCTAACAT
Found at i:34694665 original size:14 final size:14
Alignment explanation
Indices: 34694661--34694713 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
34694651 CCTCTAACAT
*
34694661 CTAACCTCTAACCC
1 CTAACCCCTAACCC
34694675 CTAACCCCTAACCC
1 CTAACCCCTAACCC
**
34694689 CTAACCCCTAACTA
1 CTAACCCCTAACCC
34694703 CTAACCCCTAA
1 CTAACCCCTAA
34694714 ACCTTATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAACCCCTAACCC
Found at i:34694842 original size:14 final size:15
Alignment explanation
Indices: 34694823--34694855 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
34694813 CTTAAACTAG
34694823 AATCCCT-ATTCCAT
1 AATCCCTAATTCCAT
34694837 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
34694852 AATC
1 AATC
34694856 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:34695217 original size:40 final size:41
Alignment explanation
Indices: 34695173--34695309 Score: 106
Period size: 40 Copynumber: 3.4 Consensus size: 41
34695163 TGGGCTTAGG
*
34695173 TTTTTTGCGGCGTTTTTCCAAGAAACGCCACTAATGCTC-A
1 TTTTTAGCGGCGTTTTTCCAAGAAACGCCACTAATGCTCGA
* * * * *
34695213 TTTTTAGCGGCG-CTTTCCTAGAAGCGCCGCTGATGCTCGA
1 TTTTTAGCGGCGTTTTTCCAAGAAACGCCACTAATGCTCGA
* * * * *
34695253 TCTTTAGCGACG-TTTT--ATGTAAAGCGCCGAC-AATACTCAA
1 TTTTTAGCGGCGTTTTTCCAAG-AAA-CGCC-ACTAATGCTCGA
34695293 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
34695310 TATCCAAACG
Statistics
Matches: 74, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
38 1 0.01
39 23 0.31
40 45 0.61
41 5 0.07
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTTCCAAGAAACGCCACTAATGCTCGA
Found at i:34695230 original size:39 final size:41
Alignment explanation
Indices: 34695173--34695261 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 41
34695163 TGGGCTTAGG
* *
34695173 TTTTTTGCGGCGTTTTTCCAAGAAACGCCACTAATGCTC-A
1 TTTTTAGCGGCGTCTTTCCAAGAAACGCCACTAATGCTCGA
* * * *
34695213 TTTTTAGCGGCG-CTTTCCTAGAAGCGCCGCTGATGCTCGA
1 TTTTTAGCGGCGTCTTTCCAAGAAACGCCACTAATGCTCGA
*
34695253 TCTTTAGCG
1 TTTTTAGCG
34695262 ACGTTTTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 21 0.51
40 20 0.49
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTCTTTCCAAGAAACGCCACTAATGCTCGA
Found at i:34697055 original size:12 final size:13
Alignment explanation
Indices: 34697038--34697067 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
34697028 CTCATACATG
34697038 AATAAATAAA-GC
1 AATAAATAAATGC
34697050 AATAAATAAATGC
1 AATAAATAAATGC
34697063 AATAA
1 AATAA
34697068 TTATACCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:34703314 original size:20 final size:20
Alignment explanation
Indices: 34703289--34703327 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34703279 TACTTTCTTC
34703289 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
34703309 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
34703328 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:34703646 original size:50 final size:49
Alignment explanation
Indices: 34703584--34703719 Score: 164
Period size: 50 Copynumber: 2.8 Consensus size: 49
34703574 TGTACTGCAA
* * * * **
34703584 ATGCCATATCCTAGATATGGTTTTACATGAGAGTTCTCATATCGGTGCCC
1 ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCTCATATCGGTG-CC
* * *
34703634 ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCTCATATCGGTGCC
* *
34703683 ACGCCATGTCCCAGACATGGTCTTACGTGAGACCTCT
1 ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCT
34703720 TAGAACCTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 35 0.48
50 38 0.52
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCTAGACATGGTCTTACGTGAGACCTCTCATATCGGTGCC
Found at i:34703704 original size:49 final size:50
Alignment explanation
Indices: 34703618--34703719 Score: 152
Period size: 49 Copynumber: 2.1 Consensus size: 50
34703608 ACATGAGAGT
* * *
34703618 TCTCATATCGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGAGACC
* *
34703668 TCTCATCTCGGTG-CCACGCCATGTCCCAGACATGGTCTTACGTGAGACC
1 TCTCATATCGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGAGACC
34703717 TCT
1 TCT
34703720 TAGAACCTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 35 0.74
50 12 0.26
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCCACGCCATGTCCCAGACATGGTCTTACGGGAGACC
Found at i:34711084 original size:52 final size:50
Alignment explanation
Indices: 34711006--34711128 Score: 113
Period size: 50 Copynumber: 2.4 Consensus size: 50
34710996 ATGAACAAAA
* * *
34711006 GAGTTACTTAATGCAAGACTTAATTTAATAATTCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTT-ATAATGCAGACTT-AACTAACATGG
* * * * *
34711058 GAGTTACATAATGCATGTCATT-ATTTATGATGCATACTTAACTAGCATGT
1 GAGTTACATAATGCATGAC-TTAATTTATAATGCAGACTTAACTAACATGG
* * *
34711108 AAGTTACACAATGCATAACTT
1 GAGTTACATAATGCATGACTT
34711129 TATTAAATGT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.03
50 24 0.41
51 10 0.17
52 20 0.34
53 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTTATAATGCAGACTTAACTAACATGG
Found at i:34712679 original size:20 final size:20
Alignment explanation
Indices: 34712654--34712692 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34712644 TACTTTCTTC
34712654 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
34712674 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
34712693 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:34713020 original size:50 final size:50
Alignment explanation
Indices: 34712951--34713136 Score: 147
Period size: 50 Copynumber: 3.6 Consensus size: 50
34712941 TACTGTAAAT
* * * * ** * *
34712951 GCCATATCCTAGATATGGTCTTACATGAGAGTTCTCATATCAGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACGTGAGACCTCTCATATCAGTGCCAAC
* * * * *
34713001 GCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACGTGAGACCTCTCATATCAGTGCCAAC
* * * * *
34713051 GTCATGTCCCAGACATGGTCTTACGTGAGACCTCTTATAACCTCAATAATGTCAAT
1 GCCATGTCCCAGACATGGTCTTACGTGAGACCTCTCAT-A--TC---AGTGCCAAC
*
34713107 GCCATGTCCCAGACATGGTCTTACATGAGA
1 GCCATGTCCCAGACATGGTCTTACGTGAGA
34713137 TCTTATTCCC
Statistics
Matches: 105, Mismatches: 25, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
50 70 0.67
53 2 0.02
56 33 0.31
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACGTGAGACCTCTCATATCAGTGCCAAC
Found at i:34722634 original size:50 final size:50
Alignment explanation
Indices: 34722557--34722798 Score: 243
Period size: 50 Copynumber: 4.8 Consensus size: 50
34722547 TATCATTCAA
* * * *
34722557 TACACGTAGTAGCCTTCACATACTACTACACACGTGATCAATCTTTCTGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAATCTATCTGG
* * * * * * *
34722607 TTCACGTAGTAGCCTGCACATAGTACTATACACGTGGCCATTAATATCTGA
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAT-CTATCTGG
* * * * *
34722658 TACACGTAGTACCCTACACATAATACTACACACGTGATCGAAGCTATCCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAATCTATCTGG
* * * * * **
34722709 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTTTC-ATTCTGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAATCTA-TCTGG
34722759 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA
34722799 TCACTTTCAC
Statistics
Matches: 149, Mismatches: 40, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
49 1 0.01
50 75 0.50
51 71 0.48
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAATCTATCTGG
Found at i:34722763 original size:101 final size:101
Alignment explanation
Indices: 34722556--34722795 Score: 311
Period size: 101 Copynumber: 2.4 Consensus size: 101
34722546 TTATCATTCA
* * * * * * *
34722556 ATACACGTAGTAGCCTTCACATACTACTACACACGTGATCAATCTTTCTGGTTCACGTAGTAGCC
1 ATACACGTAGTAGCCTACACATAATACTACACACGTGATCAAGCTATCCGGTACACATAGTAGCC
* * *
34722621 TGCACATAGTACTATACACGTGGCCATTAATATCTG
66 TGCACATAGTACTACACACGCGACCATTAATATCTG
* *
34722657 ATACACGTAGTACCCTACACATAATACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGC
1 ATACACGTAGTAGCCTACACATAATACTACACACGTGATC-AAGCTATCCGGTACACATAGTAGC
* * *
34722722 CTGCACATAGTACTACACATGCGACCTTTCAT-TCTG
65 CTGCACATAGTACTACACACGCGACCATTAATATCTG
* *
34722758 GTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 ATACACGTAGTAGCCTACACATAATACTACACACGTGA
34722796 CCATCACTTT
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
101 76 0.63
102 44 0.37
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
ATACACGTAGTAGCCTACACATAATACTACACACGTGATCAAGCTATCCGGTACACATAGTAGCC
TGCACATAGTACTACACACGCGACCATTAATATCTG
Found at i:34730350 original size:37 final size:37
Alignment explanation
Indices: 34730244--34730350 Score: 94
Period size: 37 Copynumber: 2.9 Consensus size: 37
34730234 TTGTCAACTA
34730244 AAACACACCGTCCTAG-GGCGTTTGATACTCTAATGAC
1 AAACACACCGTCCTAGAGG-GTTTGATACTCTAATGAC
* ** * * * *
34730281 AAACTCAGTAGACTCAACA-GG-TAGATACTCTAATGAC
1 AAACACA-CCGTC-CTAGAGGGTTTGATACTCTAATGAC
*
34730318 AAACACACCGTCCTAGAGGGTTTGATAATCTAA
1 AAACACACCGTCCTAGAGGGTTTGATACTCTAA
34730351 ATTCTCACAC
Statistics
Matches: 50, Mismatches: 15, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
35 3 0.06
36 4 0.08
37 37 0.74
38 3 0.06
39 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (37 bp):
AAACACACCGTCCTAGAGGGTTTGATACTCTAATGAC
Found at i:34736178 original size:16 final size:15
Alignment explanation
Indices: 34736153--34736182 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34736143 GGCGTCTTTT
34736153 GAACCGATTTAGATG
1 GAACCGATTTAGATG
34736168 GAACACGATTTAGAT
1 GAAC-CGATTTAGAT
34736183 TGAAAGCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (15 bp):
GAACCGATTTAGATG
Found at i:34737594 original size:42 final size:42
Alignment explanation
Indices: 34737531--34737682 Score: 200
Period size: 42 Copynumber: 3.7 Consensus size: 42
34737521 CTAGCCATAT
**
34737531 AGTCTGA-A-TGTTTCACCGGCATTAAGCCTGTTAGACGTAA
1 AGTCTGATATTGTTTCACCGGCATTAAGCCTACTAGACGTAA
* *
34737571 AGTCTGATATTGTTTCATCGGCATTAAGCCTACTAGACATAA
1 AGTCTGATATTGTTTCACCGGCATTAAGCCTACTAGACGTAA
* * *
34737613 AGTTTGAAATTATTTCACCGGCATTAAGCCTACTAGACGTAA
1 AGTCTGATATTGTTTCACCGGCATTAAGCCTACTAGACGTAA
* * *
34737655 AGTCAGATATTGTTTCACTGGCAATAAG
1 AGTCTGATATTGTTTCACCGGCATTAAG
34737683 TCTGCTAGGC
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 7 0.07
41 1 0.01
42 87 0.92
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (42 bp):
AGTCTGATATTGTTTCACCGGCATTAAGCCTACTAGACGTAA
Found at i:34745244 original size:49 final size:49
Alignment explanation
Indices: 34745184--34745301 Score: 195
Period size: 48 Copynumber: 2.4 Consensus size: 49
34745174 TTGATTTTTA
* *
34745184 AAAACTCTTTTAGATAATAATTTAAATTCTATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATTTAAATTCTATTTAATTAT-TATTTATCT
34745233 AAAACTCTTTTAAATAATAA-TTAAATTCTATTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAATTTAAATTCTATTTAATTATTATTTATCT
34745281 AAAACTCTTTTAAATAATAAT
1 AAAACTCTTTTAAATAATAAT
34745302 ATAATTATTA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
47 1 0.02
48 45 0.69
49 19 0.29
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (49 bp):
AAAACTCTTTTAAATAATAATTTAAATTCTATTTAATTATTATTTATCT
Found at i:34745308 original size:38 final size:38
Alignment explanation
Indices: 34745265--34745339 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
34745255 AAATTCTATT
*
34745265 TAATTATTATTTATCTAAAACTCTTTTAAATAATAATA
1 TAATTATTATTTATCTAAAAATCTTTTAAATAATAATA
34745303 TAATTATTATTTATCTAAAAATCTTTTAAATAATAAT
1 TAATTATTATTTATCTAAAAATCTTTTAAATAATAAT
34745340 TCTATTTCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (38 bp):
TAATTATTATTTATCTAAAAATCTTTTAAATAATAATA
Found at i:34745493 original size:94 final size:88
Alignment explanation
Indices: 34745303--34745469 Score: 226
Period size: 94 Copynumber: 1.8 Consensus size: 88
34745293 AATAATAATA
* *
34745303 TAATTATTATTTATCTAAAAATCTTTTAAATAATAATTCTATTTCCTTATCTGATAAGGAATATA
1 TAATTATTATTTAGCTAAAAATCTTTTAAATAATAATTCTATTTCCTTATCTAATAAGGAATATA
* * *
34745368 TCAAATTCTTTTGATTTTGAATTT
66 TCAAATCCTTTTGATCTCG-ATTT
*
34745392 TAATTATTATTTAGCTAAAACTCTTTATAATAATAATTAAATTCTATTTCCTTATCTAATAAGGA
1 TAATTATTATTTAGCTAAAAATCTTT-T-A-AATAA-T-AATTCTATTTCCTTATCTAATAAGGA
34745457 ATATATCAAATCC
61 ATATATCAAATCC
34745470 CCTTTTATCT
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
89 24 0.35
90 1 0.01
91 1 0.01
92 5 0.07
93 1 0.01
94 37 0.54
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (88 bp):
TAATTATTATTTAGCTAAAAATCTTTTAAATAATAATTCTATTTCCTTATCTAATAAGGAATATA
TCAAATCCTTTTGATCTCGATTT
Found at i:34747508 original size:15 final size:16
Alignment explanation
Indices: 34747488--34747517 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34747478 TGATGCATTG
34747488 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
34747503 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
34747518 AGTATGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:34748170 original size:30 final size:30
Alignment explanation
Indices: 34748134--34748229 Score: 183
Period size: 30 Copynumber: 3.2 Consensus size: 30
34748124 ACGGCCTAAG
34748134 ACACGGACGTGTGTCTCAGCCGTGTGTGAC
1 ACACGGACGTGTGTCTCAGCCGTGTGTGAC
34748164 ACACGGACGTGTGTCTCAGCCGTGTGTGAC
1 ACACGGACGTGTGTCTCAGCCGTGTGTGAC
*
34748194 ACACGGACGTGTGTCTTAGCCGTGTGTGAC
1 ACACGGACGTGTGTCTCAGCCGTGTGTGAC
34748224 ACACGG
1 ACACGG
34748230 CAATGTGACA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (30 bp):
ACACGGACGTGTGTCTCAGCCGTGTGTGAC
Found at i:34748176 original size:17 final size:17
Alignment explanation
Indices: 34748154--34748207 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
34748144 GTGTCTCAGC
34748154 CGTGTGTGACACACGGA
1 CGTGTGTGACACACGGA
* *
34748171 CGTGTGT--CTCA--GC
1 CGTGTGTGACACACGGA
34748184 CGTGTGTGACACACGGA
1 CGTGTGTGACACACGGA
34748201 CGTGTGT
1 CGTGTGT
34748208 CTTAGCCGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 8 0.28
15 6 0.21
17 15 0.52
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (17 bp):
CGTGTGTGACACACGGA
Found at i:34764117 original size:36 final size:36
Alignment explanation
Indices: 34764077--34764145 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
34764067 TAAATATTTC
*
34764077 ATTAATCAAATTGGGTTT-AATTAATTAAGTAAATTG
1 ATTAATCAAAGT-GGTTTAAATTAATTAAGTAAATTG
* * *
34764113 ATTAATTAAAGTGGTTTAAATTGATTAATTAAA
1 ATTAATCAAAGTGGTTTAAATTAATTAAGTAAA
34764146 GTGGTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.18
36 23 0.82
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.42
Consensus pattern (36 bp):
ATTAATCAAAGTGGTTTAAATTAATTAAGTAAATTG
Found at i:34764132 original size:23 final size:23
Alignment explanation
Indices: 34764106--34764154 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
34764096 ATTAATTAAG
34764106 TAAATTGATTAATTAAAGTGGTT
1 TAAATTGATTAATTAAAGTGGTT
34764129 TAAATTGATTAATTAAAGTGGTT
1 TAAATTGATTAATTAAAGTGGTT
34764152 TAA
1 TAA
34764155 TTCATTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (23 bp):
TAAATTGATTAATTAAAGTGGTT
Found at i:34766419 original size:15 final size:16
Alignment explanation
Indices: 34766401--34766430 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34766391 TGGTGTCTTG
34766401 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
34766416 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
34766431 AGTATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:34768982 original size:16 final size:16
Alignment explanation
Indices: 34768961--34768992 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34768951 CACACATGGC
34768961 CATCTGACACGGTTGT
1 CATCTGACACGGTTGT
34768977 CATCTGACACGGTTGT
1 CATCTGACACGGTTGT
34768993 GTGTCCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (16 bp):
CATCTGACACGGTTGT
Found at i:34779249 original size:31 final size:31
Alignment explanation
Indices: 34779211--34779273 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
34779201 TTTACTAAAC
34779211 AATGTAAAAACTAAGTAAATAGATTAATCAT
1 AATGTAAAAACTAAGTAAATAGATTAATCAT
34779242 AATGTAAAAACTAAGTAAATAGATTAATCAT
1 AATGTAAAAACTAAGTAAATAGATTAATCAT
34779273 A
1 A
34779274 CCTGTTATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.29
Consensus pattern (31 bp):
AATGTAAAAACTAAGTAAATAGATTAATCAT
Found at i:34779682 original size:19 final size:19
Alignment explanation
Indices: 34779658--34779695 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34779648 AAATGTATAC
* *
34779658 AGAGGCACCGAAGTGCAAA
1 AGAGGCACCAAAATGCAAA
34779677 AGAGGCACCAAAATGCAAA
1 AGAGGCACCAAAATGCAAA
34779696 TCTCATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.21, G:0.26, T:0.05
Consensus pattern (19 bp):
AGAGGCACCAAAATGCAAA
Found at i:34784747 original size:54 final size:55
Alignment explanation
Indices: 34784689--34784865 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 55
34784679 TAAATGATCA
* * *
34784689 AAATACCCCT-GAAGGATAAAATGACCAAAATACCCCCAAAAGGTAAAATGACTG
1 AAATACCCCTAGAAGGGTAAAATAACCAAAATACCCCCAAAGGGTAAAATGACTG
* ** *
34784743 AAATA-CCCTCGAAGGGTAAAATAACTTAAATACCCCCAAAGGGTAAAATGACCG
1 AAATACCCCTAGAAGGGTAAAATAACCAAAATACCCCCAAAGGGTAAAATGACTG
* *
34784797 AAATACACCC-A-AAGGGTAAAATAATCAAAATACCCCCATAGGGTAAAATGACTG
1 AAATAC-CCCTAGAAGGGTAAAATAACCAAAATACCCCCAAAGGGTAAAATGACTG
**
34784851 TTATACCCCTAGAAG
1 AAATACCCCTAGAAG
34784866 TCGAAATGTC
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.07
54 91 0.88
55 3 0.03
56 3 0.03
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (55 bp):
AAATACCCCTAGAAGGGTAAAATAACCAAAATACCCCCAAAGGGTAAAATGACTG
Found at i:34784856 original size:27 final size:27
Alignment explanation
Indices: 34784689--34784859 Score: 173
Period size: 27 Copynumber: 6.3 Consensus size: 27
34784679 TAAATGATCA
** * **
34784689 AAATACCCCTGAAGGATAAAATGACCA
1 AAATACCCCCAAAGGGTAAAATGACTG
*
34784716 AAATACCCCCAAAAGGTAAAATGACTG
1 AAATACCCCCAAAGGGTAAAATGACTG
* * * *
34784743 AAATACCCTCGAAGGGTAAAATAACTT
1 AAATACCCCCAAAGGGTAAAATGACTG
*
34784770 AAATACCCCCAAAGGGTAAAATGACCG
1 AAATACCCCCAAAGGGTAAAATGACTG
* * *
34784797 AAATACACCCAAAGGGTAAAAT-AATCA
1 AAATACCCCCAAAGGGTAAAATGACT-G
*
34784824 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCAAAGGGTAAAATGACTG
**
34784851 TTATACCCC
1 AAATACCCC
34784860 TAGAAGTCGA
Statistics
Matches: 116, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 113 0.97
28 2 0.02
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.17
Consensus pattern (27 bp):
AAATACCCCCAAAGGGTAAAATGACTG
Found at i:34784859 original size:81 final size:81
Alignment explanation
Indices: 34784689--34784845 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
34784679 TAAATGATCA
** * * * *
34784689 AAATACCCCTGAAGGATAAAATGACCAAAATACCCCCAAAAGGTAAAATGACTGAAATACCCTCG
1 AAATACCCCCAAAGGATAAAATGACCAAAATACACCCAAAAGGTAAAATAACTAAAATACCCTCC
34784754 AAGGGTAAAATAACTT
66 AAGGGTAAAATAACTT
* * *
34784770 AAATACCCCCAAAGGGTAAAATGACCGAAATACACCCAAAGGGTAAAATAA-TCAAAATACCC-C
1 AAATACCCCCAAAGGATAAAATGACCAAAATACACCCAAAAGGTAAAATAACT-AAAATACCCTC
34784833 CATAGGGTAAAAT
65 CA-AGGGTAAAAT
34784846 GACTGTTATA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 3 0.05
81 62 0.95
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.16
Consensus pattern (81 bp):
AAATACCCCCAAAGGATAAAATGACCAAAATACACCCAAAAGGTAAAATAACTAAAATACCCTCC
AAGGGTAAAATAACTT
Found at i:34785276 original size:28 final size:28
Alignment explanation
Indices: 34785185--34785274 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
34785175 GTTACATTAT
*
34785185 CACACTATTATTGTATCGGGCTAAGGCC
1 CACACTATTATTGTATTGGGCTAAGGCC
** *
34785213 CACACTATTATTAAATTAGGCTAAGGCC
1 CACACTATTATTGTATTGGGCTAAGGCC
*
34785241 CACACTGTTATTGTATTGGGCTAAGGCC
1 CACACTATTATTGTATTGGGCTAAGGCC
34785269 CACACT
1 CACACT
34785275 GTACTGTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (28 bp):
CACACTATTATTGTATTGGGCTAAGGCC
Found at i:34785285 original size:28 final size:28
Alignment explanation
Indices: 34785185--34785286 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 28
34785175 GTTACATTAT
* * *
34785185 CACACTATTATTGTATCGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
* * ** *
34785213 CACACTATTATTAAATTAGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
*
34785241 CACACTGTTATTGTATTGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
34785269 CACACTG-TACTGTTATTG
1 CACACTGTTACTG-TATTG
34785287 TATAAGGTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.06
28 60 0.94
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (28 bp):
CACACTGTTACTGTATTGGGCTAAGGCC
Found at i:34791718 original size:27 final size:26
Alignment explanation
Indices: 34791679--34791763 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
34791669 AGTGGTCAAT
* *
34791679 AAATGACCTAAATAGCCCTAAAGGGTA
1 AAATAACCGAAATA-CCCTAAAGGGTA
**
34791706 AAATAACCGAAATACCCCCGAAGGGTA
1 AAATAACCGAAATA-CCCTAAAGGGTA
* * *
34791733 AAATAATCGATATACCCTCATAGGGTA
1 AAATAACCGAAATACCCT-AAAGGGTA
34791760 AAAT
1 AAAT
34791764 GACTGTTATA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (26 bp):
AAATAACCGAAATACCCTAAAGGGTA
Found at i:34806062 original size:48 final size:47
Alignment explanation
Indices: 34805982--34806082 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 47
34805972 AGGTAATGTA
* * * * *
34805982 CCACATAATCAAATTGTGGACAGGCCATCACTTTTGTAAATATACTG
1 CCACATAATAAAATTGTGGACAAGCCACCACTTTTGCAAATAAACTG
34806029 CCACATAATAAAATTTGTGGACAAGCCACCACTTTTGCAAATAAACTG
1 CCACATAATAAAA-TTGTGGACAAGCCACCACTTTTGCAAATAAACTG
34806077 CCACAT
1 CCACAT
34806083 TCTTCCACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 12 0.25
48 36 0.75
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (47 bp):
CCACATAATAAAATTGTGGACAAGCCACCACTTTTGCAAATAAACTG
Found at i:34806157 original size:17 final size:18
Alignment explanation
Indices: 34806127--34806161 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
34806117 GATAGGCCAC
34806127 AAAATCACATTTTCACTT
1 AAAATCACATTTTCACTT
34806145 AAAATCA-ATTTTCACTT
1 AAAATCACATTTTCACTT
34806162 TAGCATGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATCACATTTTCACTT
Found at i:34813033 original size:39 final size:39
Alignment explanation
Indices: 34812997--34813132 Score: 182
Period size: 39 Copynumber: 3.5 Consensus size: 39
34812987 ACTTTTAAAT
* * *
34812997 ATATATCACATTACACAAATAATCACATAACATTTAATC
1 ATATATCACAATACACAAATAATCACATAACATTCAAAC
* * *
34813036 ATATATCACAATATACATATAATCACATAACATTCAAGC
1 ATATATCACAATACACAAATAATCACATAACATTCAAAC
* * *
34813075 ATATATCACAATACTCATATAATCACATAACATTCAAGC
1 ATATATCACAATACACAAATAATCACATAACATTCAAAC
*
34813114 ATATATCACAATACTCAAA
1 ATATATCACAATACACAAA
34813133 AACATGGTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.29
Consensus pattern (39 bp):
ATATATCACAATACACAAATAATCACATAACATTCAAAC
Found at i:34825353 original size:25 final size:27
Alignment explanation
Indices: 34825300--34825358 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
34825290 CTTTGTATTT
*
34825300 TTTTAAAATTAGTTTATATATTACTTA
1 TTTTAAAATTAGTTTATATATAACTTA
34825327 TTTTAAAATT-GATTTATAT-TAAC-TA
1 TTTTAAAATTAG-TTTATATATAACTTA
34825352 -TTTAAAA
1 TTTTAAAA
34825359 CATGTTTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 2 0.07
26 4 0.13
27 17 0.57
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (27 bp):
TTTTAAAATTAGTTTATATATAACTTA
Found at i:34829794 original size:9 final size:9
Alignment explanation
Indices: 34829780--34829813 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
34829770 CAGATCCAAT
34829780 AAAAAAATA
1 AAAAAAATA
34829789 AAAAAAATA
1 AAAAAAATA
*
34829798 AAAAAAACA
1 AAAAAAATA
34829807 AAAAAAA
1 AAAAAAA
34829814 ACAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAATA
Found at i:34829799 original size:17 final size:17
Alignment explanation
Indices: 34829777--34829812 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
34829767 GTTCAGATCC
34829777 AATAAAAAAATA-AAAAA
1 AATAAAAAAA-ACAAAAA
34829794 AATAAAAAAAACAAAAA
1 AATAAAAAAAACAAAAA
34829811 AA
1 AA
34829813 AACAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.06
17 17 0.94
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.08
Consensus pattern (17 bp):
AATAAAAAAAACAAAAA
Found at i:34829819 original size:9 final size:9
Alignment explanation
Indices: 34829780--34829834 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
34829770 CAGATCCAAT
*
34829780 AAAAAAATA
1 AAAAAAACA
*
34829789 AAAAAAATA
1 AAAAAAACA
34829798 AAAAAAACAA
1 AAAAAAAC-A
34829808 AAAAAAACA
1 AAAAAAACA
*
34829817 AAAAGAAGCA
1 AAAA-AAACA
34829827 AAAGAAAA
1 AAA-AAAA
34829835 ATCAAAATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
9 21 0.52
10 18 0.45
11 1 0.03
ACGTcount: A:0.85, C:0.05, G:0.05, T:0.04
Consensus pattern (9 bp):
AAAAAAACA
Found at i:34830801 original size:7 final size:7
Alignment explanation
Indices: 34830789--34830836 Score: 89
Period size: 7 Copynumber: 7.0 Consensus size: 7
34830779 AAAAAGAGGG
34830789 ATGAAAA
1 ATGAAAA
34830796 ATGAAAA
1 ATGAAAA
34830803 ATG-AAA
1 ATGAAAA
34830809 ATGAAAA
1 ATGAAAA
34830816 ATGAAAA
1 ATGAAAA
34830823 ATGAAAA
1 ATGAAAA
34830830 ATGAAAA
1 ATGAAAA
34830837 GTAATGATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:34830809 original size:13 final size:13
Alignment explanation
Indices: 34830793--34830836 Score: 79
Period size: 13 Copynumber: 3.3 Consensus size: 13
34830783 AGAGGGATGA
34830793 AAAATGAAAAATG
1 AAAATGAAAAATG
34830806 AAAATGAAAAATG
1 AAAATGAAAAATG
34830819 AAAAATGAAAAATG
1 -AAAATGAAAAATG
34830833 AAAA
1 AAAA
34830837 GTAATGATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:34830812 original size:20 final size:21
Alignment explanation
Indices: 34830789--34830836 Score: 89
Period size: 20 Copynumber: 2.3 Consensus size: 21
34830779 AAAAAGAGGG
34830789 ATGAAAAATGAAAAATG-AAA
1 ATGAAAAATGAAAAATGAAAA
34830809 ATGAAAAATGAAAAATGAAAA
1 ATGAAAAATGAAAAATGAAAA
34830830 ATGAAAA
1 ATGAAAA
34830837 GTAATGATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
ATGAAAAATGAAAAATGAAAA
Found at i:34832310 original size:131 final size:130
Alignment explanation
Indices: 34832076--34833027 Score: 1166
Period size: 131 Copynumber: 7.3 Consensus size: 130
34832066 ATCAATGAAT
* *
34832076 ACTACAGATCTTATCTCCCTAAGAAATAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCT
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCC-
* *
34832141 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAACAGCAGTGGAATACGTTGGA
65 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGATCAGCAGTGGAATAGGTTGGA
34832206 A
130 A
*
34832207 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCC
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT-CCC
* * *
34832272 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTAAGCAGTAGTGGAATAGGTTGGA
65 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGATCAGCAGTGGAATAGGTTGGA
34832337 A
130 A
* * * *
34832338 ACTATAGATCTTATATCCCTAAGCAATAGTAGAGCAGATCGAAGACGACGAATCTTATCTTCTCC
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTC-CC
* * *
34832403 AGGAGTAGGGAAACAGATTGAAGCCACAAGTCCTATTTCCCTGACCAGTAGTGGAATAGGTTGGA
65 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGATCAGCAGTGGAATAGGTTGGA
34832468 A
130 A
* *
34832469 ACTACAGATCTTATCTCCCTAAACAATAGTGGAGC-GATCGAAGACGGAGAATCTTATCTTCCCC
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT-CCC
*
34832533 AGAAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGT-AGCAGTGGAATAGGTTGG
65 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGA-TCAGCAGTGGAATAGGTTGG
34832597 AA
129 AA
* * * *
34832599 ACTATAGATCTTCTCTCTCTAAGCAATAGTGGAGCAGATCGAAGACGGCAAATCTTATCTT--CA
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
* * * * * *
34832662 AGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGTTTGGA
66 GGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGATCAGCAGTGGAATAGG-TTGGA
34832727 A
130 A
* * * * * * * *
34832728 ATTACAGATCTTGTCTCCCTAAGTAGTAGCGGAGTAGATCGAATATGGCGAATCTTATCTT--CA
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
* * * * * * * * * *
34832791 AGTGTAAGGAAGCAGCTTTAAGCCACAACTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAA
66 GGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGATCAGCAGTGGAATAGGTTGGAA
* * * * ** *
34832856 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATTAAAGACGACGAATCTTATCTT--CA
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
* * * * * * * *
34832919 AGTGTAAGGAAGCAGATTTAAGCCACAAG-CCTTATGTCCCTGGTCAGCAGTGGAGTAGGTTGAA
66 GGAGTAGGGAAACAGATTTAAGCCACAAGTCC-TATTTCCCTGATCAGCAGTGGAATAGGTTGGA
34832983 A
130 A
* * * * ** *
34832984 ATTACAGATCTTGTCTCCTTAAGCAGTAGCAGAGCAGATTGAAG
1 ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAG
34833028 TCGATAATCC
Statistics
Matches: 744, Mismatches: 69, Indels: 19
0.89 0.08 0.02
Matches are distributed among these distances:
127 3 0.00
128 213 0.29
129 111 0.15
130 118 0.16
131 296 0.40
132 3 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (130 bp):
ACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCA
GGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGATCAGCAGTGGAATAGGTTGGAA
Found at i:34833063 original size:44 final size:43
Alignment explanation
Indices: 34833015--34833196 Score: 125
Period size: 44 Copynumber: 4.2 Consensus size: 43
34833005 AGCAGTAGCA
*
34833015 GAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAATTGTAGTG
1 GAGCAGATTGAAGTCG-TAATCCTATCTCCCTGAAATTGCAGTG
* ** * * * *
34833059 GAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTA
1 GAGCAGATTGAAGTCGTA-ATCCTATCTCCCTGAAATTGCAGTG
* * * * * * *
34833103 GAACGGATCGCA-TC-CAATCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGATTGAAGTCGTAATCCTATCTCCCTGAAATTGCAGTG
** ** * *
34833144 GAGCAGACAGAAGAAGTCAATCCTCTCTCCCTGAAATTGTAGTG
1 GAGCAGATTGAAGTCGT-AATCCTATCTCCCTGAAATTGCAGTG
*
34833188 GAGCGGATT
1 GAGCAGATT
34833197 AAAATGATGG
Statistics
Matches: 102, Mismatches: 32, Indels: 8
0.72 0.23 0.06
Matches are distributed among these distances:
41 30 0.29
42 1 0.01
43 3 0.03
44 68 0.67
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
GAGCAGATTGAAGTCGTAATCCTATCTCCCTGAAATTGCAGTG
Found at i:34833266 original size:129 final size:129
Alignment explanation
Indices: 34833033--34833267 Score: 366
Period size: 129 Copynumber: 1.8 Consensus size: 129
34833023 TGAAGTCGAT
*
34833033 AATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAATAATAGATCTTATCTCTCTGAAGTTG
* *
34833098 CAGTAGAACGGATCGCATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGTC
66 CAGTAGAACGGATCGCATCCAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGTC
* * * *
34833162 AATCCTCTCTCCCTGAAATTGTAGTGGAGCGGATTAAAATGATGGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAATAATAGATCTTATCTCTCTGAAGTTG
*
34833227 CAGTAGAGCGGATCGCAT-CAGACCTTAT-TCCCTTAAAGTTG
66 CAGTAGAACGGATCGCATCCA-ACCTTATCTCCC-TAAAGTTG
34833268 TAGTTGAAAC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
128 6 0.06
129 90 0.94
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAATAATAGATCTTATCTCTCTGAAGTTG
CAGTAGAACGGATCGCATCCAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAGTC
Found at i:34833737 original size:17 final size:16
Alignment explanation
Indices: 34833715--34833749 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
34833705 GGGCCCAGGC
34833715 AAACAAAAATAAACCCA
1 AAAC-AAAATAAACCCA
*
34833732 AAACAAATTAAACCCA
1 AAACAAAATAAACCCA
34833748 AA
1 AA
34833750 TAGCCCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (16 bp):
AAACAAAATAAACCCA
Found at i:34839841 original size:7 final size:7
Alignment explanation
Indices: 34839829--34839853 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34839819 TCACTACTTT
34839829 TCTTTTC
1 TCTTTTC
34839836 TCTTTTC
1 TCTTTTC
34839843 TCTTTTC
1 TCTTTTC
34839850 TCTT
1 TCTT
34839854 AATATTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:34840826 original size:50 final size:49
Alignment explanation
Indices: 34840642--34840826 Score: 176
Period size: 50 Copynumber: 3.7 Consensus size: 49
34840632 AGAAGTGGTT
* * *
34840642 GTATATCTGCAAATCAATGGTGGCTTGTCCACAAAATATATCAGTGCCA
1 GTATATCAGCAAATCAATGATGGCTTGTCCACAAAATATATCAGTGGCA
* * * *
34840691 GTATATCTA-CAAATTAGTGGTGGTTTGTCCACAAAAATATATCAGTGGCA
1 GTATATC-AGCAAATCAATGATGGCTTGTCCAC-AAAATATATCAGTGGCA
* * * * * * *
34840741 GTATATAATGCATATCAGT-AGTGGCTTGTCTACAAAGTGTTATTAGTGGCA
1 GTATATCA-GCAAATCAATGA-TGGCTTGTCCACAAAAT-ATATCAGTGGCA
*
34840792 GTTTATCAGCAAATCAATGATGGCTTGTCCACAAA
1 GTATATCAGCAAATCAATGATGGCTTGTCCACAAA
34840827 TGGTGTTTCA
Statistics
Matches: 110, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
49 28 0.25
50 48 0.44
51 34 0.31
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (49 bp):
GTATATCAGCAAATCAATGATGGCTTGTCCACAAAATATATCAGTGGCA
Found at i:34841409 original size:24 final size:24
Alignment explanation
Indices: 34841382--34841428 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34841372 TAATACAAGT
34841382 ATTTTAATAAAAAGGAACA-AATAA
1 ATTTTAATAAAAA-GAACATAATAA
* *
34841406 ATTTTATTTAAAAGAACATAATA
1 ATTTTAATAAAAAGAACATAATA
34841429 TTTTCAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
ATTTTAATAAAAAGAACATAATAA
Found at i:34842076 original size:286 final size:287
Alignment explanation
Indices: 34841553--34842083 Score: 793
Period size: 286 Copynumber: 1.9 Consensus size: 287
34841543 AGGGGTTACA
* * * *
34841553 ATTGTTGTTGGGCCTTGAGGTGGTGTGAGCCTATCACATCCATGGGTATGAAATTAGGCCTTGAG
1 ATTGCTGTTGGGCCTTGAGGTAGTGTGAGCCCATCACATCCATGAGTATGAAATTAGGCCTTGAG
* * * * * * *
34841618 ACTTGCATCATTCGCCCTTCCTCATGAAGATTAATCCTCAAATCTTTAGTTGCACAAAAAGAATA
66 ACTCGCATCATTCCCCCTTCCTCACGAAGATTAATCCTCAAATATTTAGCTACACAAAAAGAAAA
34841683 AGGATTAGAATAAATAACAATAAAATGAAAAAAAATACTTACCTAACTTTTCTTGTGTGCCAACA
131 AGGATTAGAATAAATAACAATAAAATGAAAAAAAATACTTACCTAACTTTTCTTGTGTGCCAACA
* *
34841748 CTATCTCCAAAATTAAAAACATTAATTTTATCCTTCAAATCAGCTTCGATTATCTTTGATTGAAT
196 CTATCTCCAAAATCAAAAACATTAATTTTATCCTTCAAATCAGCTCCGATTATCTTTGATTGAAT
34841813 CCTGATTTAATTTGCTTGGCCTTGGAC
261 CCTGATTTAATTTGCTTGGCCTTGGAC
* *
34841840 ATTGCTGTTGGGCCTTGAGGTAGTGTGAGCCCATCACATCCATGAGTTTGAAATTGGGCCTTGAG
1 ATTGCTGTTGGGCCTTGAGGTAGTGTGAGCCCATCACATCCATGAGTATGAAATTAGGCCTTGAG
*
34841905 ACTCGCATCATTCCCCCTTCCTCACGAAGATT-TTCCTCAAATATTTAGCTACACAAAAAGAAAA
66 ACTCGCATCATTCCCCCTTCCTCACGAAGATTAATCCTCAAATATTTAGCTACACAAAAAGAAAA
* *
34841969 ATGATTAGAATAAATAACAATAAAATGAAAAAAAATACTTACCTAAGC-TTTCTTGTGCAT-CGA
131 AGGATTAGAATAAATAACAATAAAATGAAAAAAAATACTTACCTAA-CTTTTCTTGTG--TGCCA
** * *
34842032 A-ACTATCTCCAGGATCAAAGACATT-ATTTTGATCCTTGAAATCAGCTCCGAT
193 ACACTATCTCCAAAATCAAAAACATTAATTTT-ATCCTTCAAATCAGCTCCGAT
34842084 CATTTATGTC
Statistics
Matches: 218, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
285 5 0.02
286 120 0.55
287 92 0.42
288 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (287 bp):
ATTGCTGTTGGGCCTTGAGGTAGTGTGAGCCCATCACATCCATGAGTATGAAATTAGGCCTTGAG
ACTCGCATCATTCCCCCTTCCTCACGAAGATTAATCCTCAAATATTTAGCTACACAAAAAGAAAA
AGGATTAGAATAAATAACAATAAAATGAAAAAAAATACTTACCTAACTTTTCTTGTGTGCCAACA
CTATCTCCAAAATCAAAAACATTAATTTTATCCTTCAAATCAGCTCCGATTATCTTTGATTGAAT
CCTGATTTAATTTGCTTGGCCTTGGAC
Found at i:34842481 original size:16 final size:16
Alignment explanation
Indices: 34842462--34842510 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
34842452 TGTTGTAAGG
34842462 AAATGTTTTACAAACA
1 AAATGTTTTACAAACA
* **
34842478 AAATGTTGT---AAGG
1 AAATGTTTTACAAACA
34842491 AAATGTTTTACAAACA
1 AAATGTTTTACAAACA
34842507 AAAT
1 AAAT
34842511 TAGTAGCATA
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 10 0.42
16 14 0.58
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (16 bp):
AAATGTTTTACAAACA
Found at i:34842484 original size:29 final size:29
Alignment explanation
Indices: 34842451--34842510 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
34842441 ACGAGAAAAC
34842451 ATGTTGTAAGGAAATGTTTTACAAACAAA
1 ATGTTGTAAGGAAATGTTTTACAAACAAA
34842480 ATGTTGTAAGGAAATGTTTTACAAACAAA
1 ATGTTGTAAGGAAATGTTTTACAAACAAA
34842509 AT
1 AT
34842511 TAGTAGCATA
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:0.45, C:0.07, G:0.17, T:0.32
Consensus pattern (29 bp):
ATGTTGTAAGGAAATGTTTTACAAACAAA
Found at i:34843393 original size:19 final size:18
Alignment explanation
Indices: 34843344--34843394 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
34843334 AGGTCACTTG
*
34843344 CTCAACGCATAATCCGAA
1 CTCAACGCATAATCCCAA
*
34843362 -TCAACG-TTGAATCACCAA
1 CTCAACGCAT-AATC-CCAA
34843380 CTCAACGCATAATCC
1 CTCAACGCATAATCC
34843395 AAAAATCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.04
17 10 0.38
18 4 0.15
19 10 0.38
20 1 0.04
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (18 bp):
CTCAACGCATAATCCCAA
Found at i:34847129 original size:28 final size:29
Alignment explanation
Indices: 34847080--34847140 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
34847070 AAAATTTAAA
34847080 AATATTTTTATATATTTTAAATAA-CTTT
1 AATATTTTTATATATTTTAAATAATCTTT
*
34847108 AATAGTTTTTAT-T-TTTTAAAATAATTTTT
1 AATA-TTTTTATATATTTT-AAATAATCTTT
34847137 AATA
1 AATA
34847141 ACTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.14
28 11 0.38
29 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
AATATTTTTATATATTTTAAATAATCTTT
Found at i:34853980 original size:18 final size:19
Alignment explanation
Indices: 34853945--34853982 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
34853935 AAAGTTAGAA
**
34853945 AAAAAATTATATTCTTTCC
1 AAAAAATTATATAATTTCC
34853964 AAAAAATTAT-TAATTTCC
1 AAAAAATTATATAATTTCC
34853982 A
1 A
34853983 TGTCTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAAATTATATAATTTCC
Found at i:34854197 original size:138 final size:138
Alignment explanation
Indices: 34853949--34854370 Score: 684
Period size: 138 Copynumber: 3.1 Consensus size: 138
34853939 TTAGAAAAAA
* *
34853949 AATTATATTCTTTCCAAAA-AATTATTAATTTCCATGTCTTTTATATTTTCACCGGAATTAATTA
1 AATTATATTCTTTCCAAAAGAA-TATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
*
34854013 ATATAACTATTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAAT
65 ATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
34854078 TCATATATT
130 TCATATATT
*
34854087 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
34854152 TATACCTGTTTATATTAATAAATTTGGTAAAATATATGCAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
34854217 AATATATT
131 CATATATT
* * * *
34854225 AACTATATTCTTTCCAAAAGAATACTAATTTTCATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
34854290 AATAACTATGTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
34854355 CATATATT
131 CATATATT
34854363 AATTATAT
1 AATTATAT
34854371 CTATGTTCTC
Statistics
Matches: 260, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
138 258 0.99
139 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Done.