Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 25 of 33
Found at i:3557236 original size:3 final size:3
Alignment explanation
Indices: 3557230--3557258 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3557220 TCTGAGTTGT
3557230 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3557259 CCAACTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3561723 original size:20 final size:20
Alignment explanation
Indices: 3561698--3561774 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
3561688 GTAAAAAGAT
3561698 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
3561718 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
3561738 TA-CATATATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
3561758 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
3561775 CCGGGTACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:3562605 original size:20 final size:19
Alignment explanation
Indices: 3562560--3562615 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
3562550 TTGTATCGAT
*
3562560 ACATTGTATCGAT-CATGT
1 ACATTGTATCGATACATGG
*
3562578 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
3562597 ACAATTGTATCGGTACATG
1 AC-ATTGTATCGATACATG
3562616 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 12 0.38
19 5 0.16
20 15 0.47
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:3568812 original size:20 final size:20
Alignment explanation
Indices: 3568772--3568812 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3568762 GAAAATTTCT
*
3568772 AGAATGTATCGATTCATTAA
1 AGAATGTATCGATACATTAA
3568792 AGAATGTAT-GATACATCTAA
1 AGAATGTATCGATACAT-TAA
3568812 A
1 A
3568813 AAACCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:3569023 original size:20 final size:20
Alignment explanation
Indices: 3568985--3569024 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
3568975 TTACAAATTT
3568985 CTTCTTTTTCACTTCAAAATA
1 CTTCTTTTTCAC-TCAAAATA
3569006 CTTCATTTTTCA-TCAAAAT
1 CTTC-TTTTTCACTCAAAAT
3569025 CATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (20 bp):
CTTCTTTTTCACTCAAAATA
Found at i:3571421 original size:20 final size:20
Alignment explanation
Indices: 3571375--3571431 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
3571365 TTGTATTGAT
*
3571375 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
3571394 TC-ATTGTATCGATTCATGG
1 ACAATTGTATCGATACATGG
3571413 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
3571432 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:3573346 original size:17 final size:15
Alignment explanation
Indices: 3573320--3573365 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
3573310 ATTGGAATTC
3573320 TTTTTTTCTCTCTTA
1 TTTTTTTCTCTCTTA
3573335 TTTTTTTCTCTCTTA
1 TTTTTTTCTCTCTTA
3573350 TTTTTTTCTCTCTTA
1 TTTTTTTCTCTCTTA
3573365 T
1 T
3573366 AAAAATTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTTCTCTCTTA
Found at i:3574616 original size:47 final size:47
Alignment explanation
Indices: 3574543--3574638 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
3574533 TATACAAGAT
*
3574543 GACCTAGTATCACAAGTTAGATGACTAGTTACCCGACTAGCTTGTGA
1 GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA
3574590 GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA
1 GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA
3574637 GA
1 GA
3574639 ACATTTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (47 bp):
GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA
Found at i:3579704 original size:18 final size:18
Alignment explanation
Indices: 3579683--3579720 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
3579673 ATATGAGGTA
3579683 AAATACTAGTTAGAGGAG
1 AAATACTAGTTAGAGGAG
*
3579701 AAATACTAGTTAGTGGAG
1 AAATACTAGTTAGAGGAG
3579719 AA
1 AA
3579721 GCTATGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (18 bp):
AAATACTAGTTAGAGGAG
Found at i:3580740 original size:29 final size:29
Alignment explanation
Indices: 3580707--3580776 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
3580697 CATATATTAG
3580707 TTAATCAAGTGACACCCTAAACCTAGCAC
1 TTAATCAAGTGACACCCTAAACCTAGCAC
3580736 TTAATCAAGTGACACCCTAAACCTAGCAC
1 TTAATCAAGTGACACCCTAAACCTAGCAC
3580765 TTAATCAAGTGA
1 TTAATCAAGTGA
3580777 TACAAGGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (29 bp):
TTAATCAAGTGACACCCTAAACCTAGCAC
Found at i:3582791 original size:28 final size:28
Alignment explanation
Indices: 3582750--3582805 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
3582740 TTTCATCTAA
* * *
3582750 ACATGTTGGTGATGAATATAAGTAATTT
1 ACATGTTAGCGATGAATATAACTAATTT
3582778 ACATGTTAGCGATGAATATAACTAATTT
1 ACATGTTAGCGATGAATATAACTAATTT
3582806 TATTAATTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (28 bp):
ACATGTTAGCGATGAATATAACTAATTT
Found at i:3587190 original size:79 final size:76
Alignment explanation
Indices: 3587053--3587252 Score: 199
Period size: 79 Copynumber: 2.6 Consensus size: 76
3587043 AAAATTTAAT
* * * * * * * *
3587053 ATGGGGTTGAAGTATCCCCTC-AGAAGTTATAGGGTTAGAGTATCCCCGATGGTGAAAAATTGAT
1 ATGGGGTTGGAGTATCCCTTCGA-AAATAATAAGGTTAGAGTATCCCCGATGATAAAAAATT-AA
*
3587117 TTTTTGAAAATAAAA
64 TATTT-AAAA-AAAA
*
3587132 ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTGGAGTATCCCCGA-GATAAAAAAATTAAT
1 ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTAGAGTATCCCCGATGAT-AAAAAATTAAT
3587196 ATTTAAAAAAAA
65 ATTTAAAAAAAA
* * ***
3587208 ACGGGGTTAGAGTATCCCTTCG-AAATAACGGGGTTAGAGTATCCC
1 ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTAGAGTATCCC
3587253 TTCGAAATAA
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
75 19 0.18
76 24 0.23
77 4 0.04
78 7 0.07
79 48 0.47
80 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (76 bp):
ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTAGAGTATCCCCGATGATAAAAAATTAATA
TTTAAAAAAAA
Found at i:3587245 original size:27 final size:27
Alignment explanation
Indices: 3587207--3587279 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
3587197 TTTAAAAAAA
3587207 AACGGGGTTAGAGTATCCCTTCGAAAT
1 AACGGGGTTAGAGTATCCCTTCGAAAT
3587234 AACGGGGTTAGAGTATCCCTTCGAAAT
1 AACGGGGTTAGAGTATCCCTTCGAAAT
*
3587261 AACGGGGTTAGAATATCCC
1 AACGGGGTTAGAGTATCCC
3587280 CGAGATGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (27 bp):
AACGGGGTTAGAGTATCCCTTCGAAAT
Found at i:3587328 original size:78 final size:80
Alignment explanation
Indices: 3587234--3587565 Score: 401
Period size: 79 Copynumber: 4.2 Consensus size: 80
3587224 CCTTCGAAAT
* *
3587234 AACGGGGTTAGAGTATCCCTTC-GAAATAACGGGGTTAGAA-TATCCCCGAGATGAAAAATTTAA
1 AACGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTAA
*
3587297 TATTTCAGAAATAAA
66 TATTTCAAAAATAAA
* * **
3587312 AATGGGGTTGGAGTAT-CCTCTCAAAAATAATGGGGTTA-AAGTATCCTTGAGATGAAAAATTTA
1 AACGGGGTTGGAGTATCCCT-TCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTA
**
3587375 ATATTTTGAAAAT-AA
65 ATATTTCAAAAATAAA
* * * * *
3587390 AACGGGGTTGGAGTATCCCCTCAAAAATAGCAGGGTT-GGAGTATTCCCGAGATGAAAAATTTAA
1 AACGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTAA
*
3587454 TGTTTCAAAAATAAA
66 TATTTCAAAAATAAA
* * *
3587469 AATGAGGTTGGAGTATTCCC-TCGAAAATAACGGGGTT-GAAGTATCCCCGAGATGAAAAATTTA
1 AACGGGGTTGGAGTA-TCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTA
*
3587532 ATATTTTAAAAATAAA
65 ATATTTCAAAAATAAA
* *
3587548 AACGAGGTTGGAGAATCC
1 AACGGGGTTGGAGTATCC
3587566 TCGAGATGAA
Statistics
Matches: 215, Mismatches: 32, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
77 3 0.01
78 83 0.39
79 125 0.58
80 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (80 bp):
AACGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTAA
TATTTCAAAAATAAA
Found at i:3587447 original size:157 final size:157
Alignment explanation
Indices: 3587234--3587565 Score: 461
Period size: 157 Copynumber: 2.1 Consensus size: 157
3587224 CCTTCGAAAT
* * * *
3587234 AACGGGGTTAGAGTATCCCTTCGAAATAACGGGGTTAGAATATCCCCGAGATGAAAAATTTAATA
1 AACGGGGTTGGAGTATCCCCTCAAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTTAATA
* * * **
3587299 TTTCAGAAATAAAAATGGGGTTGGAGTA-TCCTCTCAAAAATAATGGGGTTAAAGTATCCTTGAG
66 TTTCAAAAATAAAAATGAGGTTGGAGTATTCC-CTCAAAAATAACGGGGTTAAAGTATCCCCGAG
*
3587363 ATGAAAAATTTAATATTTTGAAAAT-AA
130 ATGAAAAATTTAATATTTTAAAAATAAA
* * * *
3587390 AACGGGGTTGGAGTATCCCCTCAAAAATAGCAGGGTTGGAGTATTCCCGAGATGAAAAATTTAAT
1 AACGGGGTTGGAGTATCCCCTC-AAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTTAAT
* * *
3587455 GTTTCAAAAATAAAAATGAGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGAAGTATCCCCGAG
65 ATTTCAAAAATAAAAATGAGGTTGGAGTATTCCCTCAAAAATAACGGGGTTAAAGTATCCCCGAG
3587520 ATGAAAAATTTAATATTTTAAAAATAAA
130 ATGAAAAATTTAATATTTTAAAAATAAA
* *
3587548 AACGAGGTTGGAGAATCC
1 AACGGGGTTGGAGTATCC
3587566 TCGAGATGAA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
156 20 0.13
157 113 0.73
158 21 0.14
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (157 bp):
AACGGGGTTGGAGTATCCCCTCAAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTTAATA
TTTCAAAAATAAAAATGAGGTTGGAGTATTCCCTCAAAAATAACGGGGTTAAAGTATCCCCGAGA
TGAAAAATTTAATATTTTAAAAATAAA
Found at i:3587571 original size:51 final size:51
Alignment explanation
Indices: 3587497--3587652 Score: 195
Period size: 51 Copynumber: 3.0 Consensus size: 51
3587487 CCTCGAAAAT
* * *
3587497 AACGGGGTTGAAGTATCCCCGAGATGAAAAATTTAATATTTTAAAAATAAA
1 AACGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA
* * * *
3587548 AACGAGGTTGGAGAATCCTCGAGATGAAAAATTTAATGTTTCAGAAATAAA
1 AACGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA
* * * * *
3587599 AACGAGGTTAGAGTATCCCCCAAGAAGAAAAATTTAATGTATTGAAAATAAA
1 AACGAGGTTGGAGTAT-CCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA
3587651 AA
1 AA
3587653 TGGAATTGGA
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 58 0.66
52 30 0.34
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (51 bp):
AACGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA
Found at i:3593930 original size:551 final size:551
Alignment explanation
Indices: 3592889--3593990 Score: 2204
Period size: 551 Copynumber: 2.0 Consensus size: 551
3592879 GGGCTCAAGA
3592889 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA
1 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA
3592954 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT
66 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT
3593019 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG
131 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG
3593084 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA
196 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA
3593149 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG
261 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG
3593214 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC
326 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC
3593279 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT
391 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT
3593344 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG
456 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG
3593409 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT
521 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT
3593440 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA
1 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA
3593505 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT
66 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT
3593570 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG
131 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG
3593635 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA
196 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA
3593700 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG
261 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG
3593765 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC
326 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC
3593830 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT
391 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT
3593895 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG
456 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG
3593960 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT
521 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT
3593991 TGTTTAAATT
Statistics
Matches: 551, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
551 551 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (551 bp):
ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA
TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT
GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG
TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA
TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG
GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC
ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT
GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG
CTTTTGTTTTTTGCAAATTTGGTTTTGAACT
Found at i:3594255 original size:52 final size:52
Alignment explanation
Indices: 3594150--3594270 Score: 147
Period size: 51 Copynumber: 2.3 Consensus size: 52
3594140 TACATCGAAG
* **
3594150 AATGTATCGATACATTTGGGTCAAAAAGCCAGAATGTATCGATGCAATAAAAA
1 AATGTATCGATACATTTAGGTCAAAAAGCCAGAATGTATCGATAAAAT-AAAA
* * * *
3594203 AATGTATCGATACATTTAGG-CTAAAA-CTTAGAATTTATCGATAAAATGAAA
1 AATGTATCGATACATTTAGGTCAAAAAGC-CAGAATGTATCGATAAAATAAAA
3594254 AATGTATCGATACATTT
1 AATGTATCGATACATTT
3594271 TCTTTTCTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 21 0.35
52 20 0.33
53 19 0.32
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (52 bp):
AATGTATCGATACATTTAGGTCAAAAAGCCAGAATGTATCGATAAAATAAAA
Found at i:3595253 original size:19 final size:21
Alignment explanation
Indices: 3595201--3595256 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
3595191 GAATTTCTAC
3595201 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** * *
3595222 AAATGTATTGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
3595242 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
3595257 TGTATCGATA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:3595262 original size:13 final size:13
Alignment explanation
Indices: 3595244--3595269 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3595234 ACATAAGTTT
3595244 TGTATCGATACAA
1 TGTATCGATACAA
3595257 TGTATCGATACAA
1 TGTATCGATACAA
3595270 ACTTACCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3595921 original size:13 final size:13
Alignment explanation
Indices: 3595903--3595927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3595893 ATTACTCAAA
3595903 TGTATCGATACAT
1 TGTATCGATACAT
3595916 TGTATCGATACA
1 TGTATCGATACA
3595928 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3596064 original size:52 final size:52
Alignment explanation
Indices: 3595936--3596056 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
3595926 CACTGATCTT
*
3595936 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3595988 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3596040 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
3596057 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3596650 original size:15 final size:15
Alignment explanation
Indices: 3596630--3596658 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3596620 GCTTGTTTAC
3596630 AACCCCAAAGAAGGA
1 AACCCCAAAGAAGGA
3596645 AACCCCAAAGAAGG
1 AACCCCAAAGAAGG
3596659 GTTAAACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.21, T:0.00
Consensus pattern (15 bp):
AACCCCAAAGAAGGA
Found at i:3601293 original size:95 final size:95
Alignment explanation
Indices: 3601130--3601339 Score: 312
Period size: 95 Copynumber: 2.2 Consensus size: 95
3601120 TTCCTTTATT
* * * *
3601130 GGGGATACTCCAGCCCCATTATTCCGAGGGGATACTCTAATCCTGTTTTTAAACTTGTCAAGATA
1 GGGGATACTCCAACCCCATTATTCCAAAGGGATACTCTAATCCTGTTTTTAAACTTATCAAGATA
*
3601195 CTTCTTATTTTTGCCTAAAATATCATTGTC
66 CTTCCTATTTTTGCCTAAAATATCATTGTC
* ** *
3601225 GGGGATACTCCAACCCCATTCTTCCAAAGGGATACTCTAATTTTGTTTTTAAATTTATCAAGATA
1 GGGGATACTCCAACCCCATTATTCCAAAGGGATACTCTAATCCTGTTTTTAAACTTATCAAGATA
*
3601290 CTTCCTATTTTTGCTTAAAATATCATTGTC
66 CTTCCTATTTTTGCCTAAAATATCATTGTC
* *
3601320 GGGGACACTCCAACACCATT
1 GGGGATACTCCAACCCCATT
3601340 TTTCTGAGGG
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 103 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (95 bp):
GGGGATACTCCAACCCCATTATTCCAAAGGGATACTCTAATCCTGTTTTTAAACTTATCAAGATA
CTTCCTATTTTTGCCTAAAATATCATTGTC
Found at i:3602993 original size:13 final size:13
Alignment explanation
Indices: 3602975--3603000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3602965 AGTTAAGTAT
3602975 GACATATTTGAAC
1 GACATATTTGAAC
3602988 GACATATTTGAAC
1 GACATATTTGAAC
3603001 CATACAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
GACATATTTGAAC
Found at i:3610024 original size:51 final size:51
Alignment explanation
Indices: 3609968--3610156 Score: 238
Period size: 52 Copynumber: 3.7 Consensus size: 51
3609958 ATTTAACTAG
* *
3609968 ATGTATCAATACATTGAAAAATGTATCGATACATTTGAGTCAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGAGTCAAAACCCAGA
* * *
3610019 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGAGTC-AAAACCCAGA
* * * * * *
3610071 TTGCATCGATATAATGAAAAATGTATCGATATAGTT-AGATC-AAACCCAAA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGAG-TCAAAACCCAGA
*
3610121 ATGTATCGATACAATAAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
3610157 TTCTTTCCAG
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 38 0.33
51 37 0.32
52 41 0.35
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTGAGTCAAAACCCAGA
Found at i:3610236 original size:20 final size:20
Alignment explanation
Indices: 3610193--3610249 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
3610183 CGACATGTCT
*
3610193 TGTATTGATACATTTCAATCA
1 TGTATTGATACA-TTCAATAA
* *
3610214 TGTATCGATACATTCACTAA
1 TGTATTGATACATTCAATAA
3610234 TGTATTGATACATTCA
1 TGTATTGATACATTCA
3610250 TTTGTTGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATTGATACATTCAATAA
Found at i:3619183 original size:20 final size:20
Alignment explanation
Indices: 3619158--3619233 Score: 100
Period size: 20 Copynumber: 3.7 Consensus size: 20
3619148 CATTGGACTT
3619158 AATGTATCGATACTATTCAC
1 AATGTATCGATACTATTCAC
**
3619178 AATGTATCGATAC-ATGAAC
1 AATGTATCGATACTATTCAC
3619197 AGTGATGTATCGATACTATTCAC
1 A---ATGTATCGATACTATTCAC
3619220 AATGTATCGATACT
1 AATGTATCGATACT
3619234 TGAACAGTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.10
20 26 0.54
22 12 0.25
23 5 0.10
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACTATTCAC
Found at i:3619205 original size:42 final size:42
Alignment explanation
Indices: 3619159--3619241 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
3619149 ATTGGACTTA
3619159 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG
1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG
*
3619201 ATGTATCGATACTATTCACAATGTATCGATACTTGAACAGT
1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGT
3619242 CATGAATAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG
Found at i:3619207 original size:22 final size:21
Alignment explanation
Indices: 3619179--3619241 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
3619169 ACTATTCACA
3619179 ATGTATCGATACATGAACAGT
1 ATGTATCGATACATGAACAGT
**
3619200 GATGTATCGATACTATTCACA--
1 -ATGTATCGATAC-ATGAACAGT
*
3619221 ATGTATCGATACTTGAACAGT
1 ATGTATCGATACATGAACAGT
3619242 CATGAATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.12
20 12 0.36
22 12 0.36
23 5 0.15
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATGAACAGT
Found at i:3622010 original size:16 final size:18
Alignment explanation
Indices: 3621984--3622019 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
3621974 ATTTAACACA
3621984 AAAACACAAATTTT-AAC
1 AAAACACAAATTTTCAAC
3622001 AAAA-ACAAATTTTCAAC
1 AAAACACAAATTTTCAAC
3622018 AA
1 AA
3622020 TTTCTCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAACACAAATTTTCAAC
Found at i:3622716 original size:21 final size:21
Alignment explanation
Indices: 3622692--3622735 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3622682 TCTTTTATCC
* *
3622692 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
3622713 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
3622734 TC
1 TC
3622736 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:3627419 original size:19 final size:19
Alignment explanation
Indices: 3627395--3627459 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
3627385 AGCGATACAT
3627395 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
3627414 TGTATCGATAC---A-TTA
1 TGTATCGATACAAAACTTA
*
3627429 --TATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
3627446 TGTATCGATACAAA
1 TGTATCGATACAAA
3627460 TTGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 9 0.23
15 3 0.08
16 2 0.05
17 3 0.08
19 22 0.56
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3627433 original size:32 final size:32
Alignment explanation
Indices: 3627387--3627457 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
3627377 AGCTTCATAG
*
3627387 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
*
3627419 CGATACATTATATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
3627451 CGATACA
1 CGATACA
3627458 AATTGTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:3632068 original size:27 final size:27
Alignment explanation
Indices: 3632030--3632090 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
3632020 ATTCACGGGA
* *
3632030 ATACTCCAACCTCGACCTTTCGAGGGG
1 ATACTCCAACCTCGACCTTTCAAAGGG
* * *
3632057 ATACTCCCACCTTGACCTTTTAAAGGG
1 ATACTCCAACCTCGACCTTTCAAAGGG
3632084 ATACTCC
1 ATACTCC
3632091 GACCCTGCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (27 bp):
ATACTCCAACCTCGACCTTTCAAAGGG
Found at i:3632187 original size:102 final size:101
Alignment explanation
Indices: 3632079--3632298 Score: 318
Period size: 102 Copynumber: 2.2 Consensus size: 101
3632069 TGACCTTTTA
*
3632079 AAGGGATACTCCGACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCT-TCCTTT-GTCAAAAT
1 AAGGGATACTCCAACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCTAT--TTTGGTCAAAAT
* *
3632142 TATTTGTTATCCACAGGGATACTCTAACCCCACCTTTCG
64 TATTTGTTATCCACA-GGATACACCAACCCCACCTTTCG
* *
3632181 AGGGGATACTCCAACCCTGCTCTTCAAAATTTATTTAGATTTGAACTCTATTTTGGTCAAAATTA
1 AAGGGATACTCCAACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCTATTTTGGTCAAAATTA
* *
3632246 TTTGTTATCCATAGGATACACCAACCCCATCTTTCG
66 TTTGTTATCCACAGGATACACCAACCCCACCTTTCG
* *
3632282 AATGGATACTCAAACCC
1 AAGGGATACTCCAACCC
3632299 CATTTTTAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
101 37 0.35
102 68 0.64
103 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (101 bp):
AAGGGATACTCCAACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCTATTTTGGTCAAAATTA
TTTGTTATCCACAGGATACACCAACCCCACCTTTCG
Found at i:3634757 original size:20 final size:20
Alignment explanation
Indices: 3634732--3634786 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3634722 TCCCAAGGAA
3634732 ATGTATCGATACATT-ATTCT
1 ATGTATCGATACATTGA-TCT
*
3634752 ATGTATCGATAGATTGATCT
1 ATGTATCGATACATTGATCT
*
3634772 TTGTATCGATACATT
1 ATGTATCGATACATT
3634787 TGGGAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTGATCT
Found at i:3638960 original size:52 final size:52
Alignment explanation
Indices: 3638904--3639081 Score: 173
Period size: 52 Copynumber: 3.4 Consensus size: 52
3638894 CGGCATATTG
* * * **
3638904 GCACCTTTATCATTTTTAAGTCCAATATTGCTGGCCTTAGATTTGCACATTA
1 GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAGATCAGCACATTA
* * * * *
3638956 GCACCTTTATCATTTCTAAGACTAATGTCGCTAGCCTTCGATCAGCACATTG
1 GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAGATCAGCACATTA
* * * * *
3639008 GCACCTTTATCATCTCTAAAACCAATATTGCTAGCCAT-GAATCAACACATTG
1 GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAG-ATCAGCACATTA
3639060 GCAACC-TTATCATCTT-TAAGAC
1 GC-ACCTTTATCAT-TTCTAAGAC
3639082 AAATGTCGCT
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
51 1 0.01
52 99 0.95
53 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (52 bp):
GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAGATCAGCACATTA
Found at i:3639057 original size:104 final size:104
Alignment explanation
Indices: 3638900--3639119 Score: 248
Period size: 104 Copynumber: 2.1 Consensus size: 104
3638890 TAATCGGCAT
* * ** * * ***
3638900 ATTGGCACCTTTATCATTTTTAAGTCCAATATTGCTGGCCTTAGATTTGCACATTAGC-ACCTTT
1 ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCTGAGATCAACACATTAGCAACC-TT
* * *
3638964 ATCAT-TTCTAAGACTAATGTCGCTAGCCTTCGATCAGCAC
65 ATCATCTT-TAAGACAAATGTCGCTAGCCTGCGATCAACAC
*
3639004 ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCATGA-ATCAACACATTGGCAACCTT
1 ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCC-TGAGATCAACACATTAGCAACCTT
* * *
3639068 ATCATCTTTAAGACAAATGTCGCTGGCCTGGGATCAATAC
65 ATCATCTTTAAGACAAATGTCGCTAGCCTGCGATCAACAC
3639108 ATTGGCACCTTT
1 ATTGGCACCTTT
3639120 GTTGTCCTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
104 90 0.93
105 7 0.07
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (104 bp):
ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCTGAGATCAACACATTAGCAACCTTA
TCATCTTTAAGACAAATGTCGCTAGCCTGCGATCAACAC
Found at i:3639104 original size:52 final size:51
Alignment explanation
Indices: 3638949--3639119 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
3638939 CTTAGATTTG
* * * *
3638949 CACATTAGCACCTTTATCAT-TTCTAAGACTAATGTCGCTAGCCTTCGATCAG
1 CACATTGGCACCTTTATCATCTT-TAAGACAAATGTCGCTAGCC-TGGATCAA
* * * * * *
3639001 CACATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCATGAATCAA
1 CACATTGGCACCTTTATCATCTTTAAGACAAATGTCGCTAGCC-TGGATCAA
*
3639053 CACATTGGCAACC-TTATCATCTTTAAGACAAATGTCGCTGGCCTGGGATCAA
1 CACATTGGC-ACCTTTATCATCTTTAAGACAAATGTCGCTAGCCT-GGATCAA
*
3639105 TACATTGGCACCTTT
1 CACATTGGCACCTTT
3639120 GTTGTCCTTA
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
51 4 0.04
52 89 0.92
53 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
CACATTGGCACCTTTATCATCTTTAAGACAAATGTCGCTAGCCTGGATCAA
Found at i:3645798 original size:23 final size:22
Alignment explanation
Indices: 3645767--3645825 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
3645757 TGAAAAAGTT
3645767 AAAAGCAAAAGCACAAAAATAA-G
1 AAAA-CAAAAGCACAAAAA-AATG
*
3645790 AAACACAAAAGAAACAAAAAAATG
1 AAA-ACAAAAG-CACAAAAAAATG
*
3645814 AAAAAAAAAGCA
1 AAAACAAAAGCA
3645826 AAGGCAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.57
24 12 0.40
ACGTcount: A:0.75, C:0.12, G:0.10, T:0.03
Consensus pattern (22 bp):
AAAACAAAAGCACAAAAAAATG
Found at i:3647430 original size:166 final size:166
Alignment explanation
Indices: 3647226--3647774 Score: 769
Period size: 169 Copynumber: 3.3 Consensus size: 166
3647216 CTCCGAAAAT
* ** * * * *
3647226 TTTTTTGGA-AGGATTTTTCTTAATTTTTAATCTTTAAAATTCATAAAATATCATTATTTATTTC
1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC
* *
3647290 ATATTAATTTTGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATTTTTGTCCTTGAAATT-
66 ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTC
*** *
3647354 TCCCTTTTTCTAGAATACGGTGTTTTCTACTCGTAAA
131 TTTTTTTTTC-AAAATACGGTGTTTTCTACTCGTAAA
3647391 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC
1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC
* * * *
3647456 ATATTAATTCACTTTTCAAAAATTAATTCATTATCATGAGTTTTTGATTTTTTTTTCCTTGAAAT
66 ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT--TATTTTTTTCCTTGAAAT
* * *
3647521 TCTTTTTTTTTCAAAATACTGTGTTTTATACTTCATAAA
129 TCTTTTTTTTTCAAAATACGGTGTTTTCTAC-TCGTAAA
* *
3647560 TTTTTTCGAGGGGATTTTTCTTGGCTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC
1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC
*
3647625 ATATTAACTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTTATTTTTTTCCTTGAAATT
66 ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAG-TTTTTTATTTTTTTCCTTGAAATT
3647690 CTTTTGTTTTTCAAAATACGGTGTTTTCTACTCCGTAAA
130 CTTTT-TTTTTCAAAATACGGTGTTTTCTACT-CGTAAA
* ** * *
3647729 TTTTTTCGAGGGGATTTTTCTTGGTTTAAAACTTTTAAAATGCATC
1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATC
3647775 TAATATTGTT
Statistics
Matches: 341, Mismatches: 35, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
165 8 0.02
166 90 0.26
168 57 0.17
169 181 0.53
170 5 0.01
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (166 bp):
TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC
ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTC
TTTTTTTTTCAAAATACGGTGTTTTCTACTCGTAAA
Found at i:3648375 original size:12 final size:13
Alignment explanation
Indices: 3648350--3648386 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
3648340 AGCAAGTCAA
3648350 AAAAAGAGAGAAG
1 AAAAAGAGAGAAG
3648363 AAAAAGAGA-AAG
1 AAAAAGAGAGAAG
*
3648375 AAAAATAGAGAA
1 AAAAAGAGAGAA
3648387 AATAGGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (13 bp):
AAAAAGAGAGAAG
Found at i:3656353 original size:156 final size:157
Alignment explanation
Indices: 3656064--3656382 Score: 631
Period size: 156 Copynumber: 2.0 Consensus size: 157
3656054 ATGTGATGCC
3656064 ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA
1 ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA
3656129 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT
66 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT
3656194 TGTCCGTTCGAAGTAGAATTCCGTGTT
131 TGTCCGTTCGAAGTAGAATTCCGTGTT
3656221 ATGG-CCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA
1 ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA
3656285 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT
66 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT
3656350 TGTCCGTTCGAAGTAGAATTCCGTGTT
131 TGTCCGTTCGAAGTAGAATTCCGTGTT
3656377 ATGGAC
1 ATGGAC
3656383 ATCGCTCTCG
Statistics
Matches: 161, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
156 156 0.97
157 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (157 bp):
ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA
AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT
TGTCCGTTCGAAGTAGAATTCCGTGTT
Found at i:3662121 original size:20 final size:20
Alignment explanation
Indices: 3662096--3662212 Score: 117
Period size: 20 Copynumber: 5.7 Consensus size: 20
3662086 ATTTTAGTAG
*
3662096 ATGTATCGATATATTGAACA
1 ATGTATCGATACATTGAACA
* * **
3662116 ATGTATCGATAAATCTAGGTAGG
1 ATGTATCGATACAT-T--GAACA
*
3662139 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAACA
* * *
3662159 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGAACA
*
3662179 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAACA
3662199 ATGTATCGATACAT
1 ATGTATCGATACAT
3662213 CTAGGTGAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
20 62 0.78
21 1 0.01
22 1 0.01
23 15 0.19
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAACA
Found at i:3663350 original size:45 final size:48
Alignment explanation
Indices: 3663242--3663350 Score: 116
Period size: 49 Copynumber: 2.3 Consensus size: 48
3663232 CAATGTGCCA
* * *
3663242 ATTCAAGGCGAGCGACATTAGGCTAAGGGAAAAGTGGACCAATGTGCTG
1 ATTCAAAGCCAGCGACATTAGGCTAA-GGAAAAGTGGACCAATATGCTG
* * *
3663291 ATTCAAAGCCAGCGACATTAGGCTAA-TAAAGGT-G-CCAATATGTTG
1 ATTCAAAGCCAGCGACATTAGGCTAAGGAAAAGTGGACCAATATGCTG
* *
3663336 ATTCAATGCTAGCGA
1 ATTCAAAGCCAGCGA
3663351 TATCAGATAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
45 22 0.42
46 1 0.02
47 5 0.10
49 24 0.46
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (48 bp):
ATTCAAAGCCAGCGACATTAGGCTAAGGAAAAGTGGACCAATATGCTG
Found at i:3663710 original size:117 final size:116
Alignment explanation
Indices: 3663461--3663821 Score: 500
Period size: 117 Copynumber: 3.1 Consensus size: 116
3663451 CATCGACTCG
* *
3663461 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGG
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCAC-GACTCGTGTGG
* * * * *
3663522 GCTTTG-AAAGGATGTCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGA-C
65 GCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACC
*
3663574 TCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGATTTGAAAAGAGTTGCCATCGACTCGTGTG
1 T-GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCA-CGACTCGTGTG
* *
3663639 GGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACC
64 GGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC
*
3663692 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGG
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCA-CGACTCGTGTGG
* * *
3663757 GCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
65 GCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC
3663809 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
3663822 GAGATGAATG
Statistics
Matches: 223, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
113 1 0.00
114 36 0.16
115 4 0.02
116 10 0.04
117 130 0.58
118 17 0.08
119 25 0.11
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (116 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACGACTCGTGTGGG
CTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC
Found at i:3663726 original size:175 final size:176
Alignment explanation
Indices: 3663410--3663821 Score: 606
Period size: 175 Copynumber: 2.4 Consensus size: 176
3663400 TTTTTTTAAA
* *
3663410 AAAAGG-TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTACCATCGACTCGTGTGGGCTTTG-A
1 AAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAA
** * * *
3663473 AAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGTC
64 AAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCC
* *
3663538 ATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTC-GTGGGCTTT
129 ACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGGTGGGCTTT
* *
3663585 GAAAGGATGCCACTGACTTGTGGGATTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAAAA
1 AAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAAAA
3663650 GAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCCAC
66 GAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCCAC
3663715 TGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTT
131 TGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCG-GTGGGCTTT
* *
3663762 AAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCA-CTGACT--TGTGGGCTTTGAA
1 AAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATC-GACTCGTGTGGGCTTTGAA
3663822 GAGATGAATG
Statistics
Matches: 216, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
174 54 0.25
175 104 0.48
176 19 0.09
177 18 0.08
178 21 0.10
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (176 bp):
AAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAAAA
GAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCCAC
TGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGGTGGGCTTT
Found at i:3663827 original size:28 final size:28
Alignment explanation
Indices: 3663461--3663821 Score: 436
Period size: 28 Copynumber: 12.5 Consensus size: 28
3663451 CATCGACTCG
*
3663461 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
3663489 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3663517 TGTGGGCTTTGAAAGGATGTCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3663545 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
*
3663575 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
3663603 TGTGGGATTTGAAAAGAGTTGCCA-TCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACT-GACT
*
3663633 CGTGTGGGCTTTGAAAAGAATGCCACTGACT
1 --TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
3663664 TGTGGGCTTTGAAAGGGTGCCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
3663692 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* **
3663720 TGTGGGCTTTGAAAAGAGTTGCCACCAACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* *
3663750 CGTGTGGGCTTTAAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTGAAAGGA-TGCCACTGACT
3663781 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
3663809 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
3663822 GAGATGAATG
Statistics
Matches: 287, Mismatches: 33, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
28 157 0.55
29 43 0.15
30 40 0.14
31 21 0.07
32 26 0.09
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:3665538 original size:21 final size:20
Alignment explanation
Indices: 3665509--3665551 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3665499 GACTAGTGTG
* *
3665509 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
3665530 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
3665550 GG
1 GG
3665552 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:3666001 original size:13 final size:13
Alignment explanation
Indices: 3665983--3666018 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3665973 ATAATCCCCC
*
3665983 TGTATCGATACAG
1 TGTATCGATACAA
3665996 TGTATCGATACAA
1 TGTATCGATACAA
3666009 TGTATCGATA
1 TGTATCGATA
3666019 TAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3668085 original size:15 final size:15
Alignment explanation
Indices: 3668065--3668095 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3668055 ATTTCGTTTG
*
3668065 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3668080 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3668095 G
1 G
3668096 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3672161 original size:13 final size:13
Alignment explanation
Indices: 3672143--3672168 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3672133 CAATTTTTTG
3672143 TGTATCGATACAT
1 TGTATCGATACAT
3672156 TGTATCGATACAT
1 TGTATCGATACAT
3672169 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3672184 original size:33 final size:33
Alignment explanation
Indices: 3672123--3672187 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3672113 TACAATCCAA
* *
3672123 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATCTTTGGTGTATCGATACAT
*
3672156 TGTATCGATAC-ATACTTTGGTGTGTCGATACA
1 TGTATCGATACAAT-CTTTGGTGTATCGATACA
3672188 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTGTATCGATACAT
Found at i:3672264 original size:20 final size:21
Alignment explanation
Indices: 3672217--3672271 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
3672207 AATCTCAATG
* *
3672217 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTGTA
*
3672238 TCATGTATCGATACAT-TGTA
1 ACATGTATCGATACATCTGTA
*
3672258 ACATGTATTGATAC
1 ACATGTATCGATAC
3672272 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (21 bp):
ACATGTATCGATACATCTGTA
Found at i:3683531 original size:8 final size:8
Alignment explanation
Indices: 3683518--3683543 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3683508 CAAAAGATGG
3683518 CATCAAAA
1 CATCAAAA
3683526 CATCAAAA
1 CATCAAAA
3683534 CATCAAAA
1 CATCAAAA
3683542 CA
1 CA
3683544 ATCCTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (8 bp):
CATCAAAA
Found at i:3684365 original size:20 final size:20
Alignment explanation
Indices: 3684340--3684456 Score: 85
Period size: 20 Copynumber: 5.7 Consensus size: 20
3684330 TTTTAACTAG
3684340 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
* **
3684360 ATGTATCGATAAATCTGGGTA
1 ATGTATCGATACAT-TGAATA
3684381 GGATGTATCGATACATTG-ATGA
1 --ATGTATCGATACATTGAAT-A
* * *
3684403 ATGTGTCGATACATT-CATCC
1 ATGTATCGATACATTGAAT-A
* * *
3684423 ATGCATCGATACAATGAAAA
1 ATGTATCGATACATTGAATA
*
3684443 ATGTATTGATACAT
1 ATGTATCGATACAT
3684457 CTAGGTAAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
20 52 0.70
21 6 0.08
22 3 0.04
23 13 0.18
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:3684520 original size:24 final size:20
Alignment explanation
Indices: 3684340--3684507 Score: 75
Period size: 20 Copynumber: 7.7 Consensus size: 20
3684330 TTTTAACTAG
*
3684340 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAAAA
* * **
3684360 ATGTATCGATAAATCTGGGTAGG
1 ATGTATCGATACAT-T--GAAAA
**
3684383 ATGTATCGATACATTGATGA
1 ATGTATCGATACATTGAAAA
* * ***
3684403 ATGTGTCGATACATTCATCC
1 ATGTATCGATACATTGAAAA
* *
3684423 ATGCATCGATACAATGAAAA
1 ATGTATCGATACATTGAAAA
*
3684443 ATGTATTGATACATCTAGGTAAAAAGTCAGA
1 ATGTATCGATACAT-T--G----AA---A-A
3684474 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
3684494 ATGTATCGATACAT
1 ATGTATCGATACAT
3684508 CTAGATAAAA
Statistics
Matches: 111, Mismatches: 23, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
20 70 0.63
21 3 0.03
22 1 0.01
23 16 0.14
24 2 0.02
27 2 0.02
28 1 0.01
30 2 0.02
31 14 0.13
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:3685878 original size:158 final size:155
Alignment explanation
Indices: 3685589--3686237 Score: 678
Period size: 157 Copynumber: 4.2 Consensus size: 155
3685579 GGTAAAATCA
* * * *
3685589 CCATCTCTAGTCTTTTTAAGTCCTTTAGGGTTGTTGGGATATTTTTACATCGAAGGTATCCCATA
1 CCATCTATATTCTTTTTAAGT-CTTTAGGGTTGTCGGGATACTTTTACATCGAAGGTATCCCATA
* * * * *
3685654 GGGACATTTTCATAA-TTTCCTAGAATCGAGTCCTAGGTTGTCACCGAGTTCACTTTTATGCCGA
65 GGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGA
* *
3685718 AGGTGGGCATTTAGGATAGCTTCATC
130 AGGTGGGCATTTAGGATAGGTTCACC
* * ** **
3685744 CCATCTTTATTCTTTTTAAGTCCTTTTAGGGTTGTCGGGATACTTTTACGTCGAATATATACCTG
1 CCATCTATATTCTTTTTAAGT-C-TTTAGGGTTGTCGGGATACTTTTACATCGAAGGTAT-CCCA
* * **
3685809 TAGGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGTT
63 TAGGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCC
**
3685874 GAAGGTGGGCATTTAGGATAGGTTCATT
128 GAAGGTGGGCATTTAGGATAGGTTCACC
* * ** *
3685902 CCATCTTTACTCTTTTTAAGTTCTTTAGGGTTGTTAGGATACTTTTACATCGAAGGTATACCCAA
1 CCATCTATATTCTTTTTAAG-TCTTTAGGGTTGTCGGGATACTTTTACATCGAAGGTAT-CCCAT
* * * * ** *
3685967 AAGGGCATTTTCGTAATTTTTCTAGAACCAAGTCCTAGGCCGTCACCGGGTCCGCTTTTATGCTG
64 AGGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCG
*
3686032 AAGGTGGGTATTTAGGATAGGTTCACC
129 AAGGTGGGCATTTAGGATAGGTTCACC
* * * * * * * * **
3686059 CCATCCATATCCTTTTTGAGTCGATTAGGGGTATC-GGACACTGTTATGTCGAAGGTAT-CCATT
1 CCATCTATATTCTTTTTAAGTC-TTTAGGGTTGTCGGGATACTTTTACATCGAAGGTATCCCA-T
* * * *
3686122 AGGGGTATTTTCAAAATTTTTC-A-AAACTGAGTTCTAGGTTGTCACCGGGTCCGCTTTTATGCC
64 AGGGGCATTTTCATAATTTTTCTAGAATC-GAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCC
* * *
3686185 AAAGGTGGGTATTTATGATAGGTTCACC
128 GAAGGTGGGCATTTAGGATAGGTTCACC
* * *
3686213 CCATCCATATCCTTTTTCAGTCTTT
1 CCATCTATATTCTTTTTAAGTCTTT
3686238 TAGGCGTATT
Statistics
Matches: 420, Mismatches: 67, Indels: 16
0.83 0.13 0.03
Matches are distributed among these distances:
153 5 0.01
154 81 0.19
155 39 0.09
156 52 0.12
157 155 0.37
158 87 0.21
159 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (155 bp):
CCATCTATATTCTTTTTAAGTCTTTAGGGTTGTCGGGATACTTTTACATCGAAGGTATCCCATAG
GGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAA
GGTGGGCATTTAGGATAGGTTCACC
Found at i:3687049 original size:13 final size:13
Alignment explanation
Indices: 3687031--3687061 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3687021 TACAATTCAT
3687031 AATGTATCAATAC
1 AATGTATCAATAC
*
3687044 AATGTATCGATAC
1 AATGTATCAATAC
3687057 AATGT
1 AATGT
3687062 GCCATGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:3687726 original size:22 final size:20
Alignment explanation
Indices: 3687687--3687729 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
3687677 GGCTCTCGTT
*
3687687 AAAAAATTTTCCCTTTGATA
1 AAAAAATTTTCCCCTTGATA
3687707 AAAAAATTTCTCCCCCTTGATA
1 AAAAAATTT-T-CCCCTTGATA
3687729 A
1 A
3687730 TCGGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAAATTTTCCCCTTGATA
Found at i:3689502 original size:22 final size:21
Alignment explanation
Indices: 3689467--3689516 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
3689457 TTTGTTGATG
*
3689467 ATTTTG-A-TGAAAAATGAGA
1 ATTTTGAAGTGAAAAATAAGA
3689486 TATTTTGAAGTGAAAAATAAGA
1 -ATTTTGAAGTGAAAAATAAGA
*
3689508 AATTTGAAG
1 ATTTTGAAG
3689517 AAATTTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:3689513 original size:21 final size:22
Alignment explanation
Indices: 3689474--3689516 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3689464 ATGATTTTGA
* *
3689474 TGAAAAATGAGATATTTTGAAG
1 TGAAAAATAAGATAATTTGAAG
3689496 TGAAAAATAAGA-AATTTGAAG
1 TGAAAAATAAGATAATTTGAAG
3689517 AAATTTAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATAAGATAATTTGAAG
Found at i:3695375 original size:19 final size:20
Alignment explanation
Indices: 3695335--3695381 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
3695325 CAGTTTGATC
**
3695335 TATCGATACAATTGTCCATG
1 TATCGATACAATTGAACATG
3695355 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
*
3695374 TATTGATA
1 TATCGATA
3695382 TTAATGTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:3695394 original size:33 final size:34
Alignment explanation
Indices: 3695352--3695415 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
3695342 ACAATTGTCC
*
3695352 ATGTATCGATACAATG-A-ACATGTATTGATATTA
1 ATGTATCGATACAAAGCATA-ATGTATTGATATTA
3695385 ATGTATCGATACAAAGCATAATGTATTGATA
1 ATGTATCGATACAAAGCATAATGTATTGATA
3695416 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 15 0.54
34 12 0.43
35 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (34 bp):
ATGTATCGATACAAAGCATAATGTATTGATATTA
Found at i:3696574 original size:462 final size:462
Alignment explanation
Indices: 3695706--3696662 Score: 1233
Period size: 462 Copynumber: 2.1 Consensus size: 462
3695696 GATCCTAATA
* ****
3695706 GTATCCCTTAGGGGCATTTTCATAA-TTTTCTAAAACCAGGTCCTAGGTTGTCATTGGGTTTGCT
1 GTATCCCTTAGGGGCATTTTCATAATTTTTC-AAAACCAAGTCCTAGGTTGTCACCAAGTTTGCT
* * *
3695770 TTTATGCTGAATGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCTTTTAAG
65 TTTATGCTGAAGGTAGATATTTACGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAAG
* * *
3695835 AGCATCAGGCACTGTTATATCAAAGGTATCCCTTAGGGGCATTTTCATAATTTTCCAAAACTGGG
130 AGCATCAGGCACTGTTATATCAAAGGTATCCCTTAAGGGCATTTTCATAATTTTCCAAAACCGAG
* * * *
3695900 TCCTAGGTTCTCACCGGGTTTGCTTTTATGCCTAACGTAGATATTTAGGATAGGTTCACCCCACC
195 TCCTAGGTTCTCACCAGGTCTGCTTTTATGCCGAACGTAGATATTTAGGATAGGTTAACCCCACC
* * * * *
3695965 CATATCCTTTTTGACTCTTTTAGAGGTATCGGGCACCATTACGTCGAAGGTACCCCCTAGGGGTA
260 CATATCCTTTTTGACTCCTTTAGAGGTATCAGACACCATTACGTCGAAGGTACCCCCTAGGAGCA
* * * * *
3696030 TTTTCGTGTTCTTTCAAAATCGAGTCCTAGGTCATCATCAAGTCTGCTTTTGTGCCAAAGGTGGG
325 TTTTCATATTCTTTCAAAACCGAGTCCTAGGTCATCACCAAGTCTGCTTTTATGCCAAAGGTGGG
*
3696095 TATTTAAGATGGGTTCGCCCCATCC-ACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTATT
390 TATTTAAGATAGGTTCGCCCCA-CCTACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTATT
**
3696159 ATGTCGAAG
454 ACATCGAAG
* *
3696168 GTATCCCTTTGGGGAATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT
1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT
* * * *
3696233 TTTTGCTGAAGGTAGATATTTAACG-TAGGTTCACCCCATCCATATCTTTTTTGAGTCCTTTACG
66 TTATGCTGAAGGTAGATATTT-ACGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAAG
* * * * * * *
3696297 GGTATCGGGCACTGTTACT-TCCAAGGTATCCCTTAAGGGCGTTTTTATAATTTTCTAAAACCGA
130 AGCATCAGGCACTGTTA-TATCAAAGGTATCCCTTAAGGGCATTTTCATAATTTTCCAAAACCGA
* * *
3696361 GTCCTAGGTTGTCATCAGGTCTGCTTTTATGCCGAGCGTAGATATTTAGGATAGGTTAACCCCAC
194 GTCCTAGGTTCTCACCAGGTCTGCTTTTATGCCGAACGTAGATATTTAGGATAGGTTAACCCCAC
* * * * * * *
3696426 CCATATCCTTTTTTAGTCCTTTAGGGGTATCAGACGCTATTACGTCGAAGGTATCCCTTAGGAGC
259 CCATATCCTTTTTGACTCCTTTAGAGGTATCAGACACCATTACGTCGAAGGTACCCCCTAGGAGC
* * *
3696491 ATTTTCATAATT-TTTCAAAACCGAGTCCTAGGT-AGTCACCGAGTCTGCTTTTATGTCGAAGGT
324 ATTTTCAT-ATTCTTTCAAAACCGAGTCCTAGGTCA-TCACCAAGTCTGCTTTTATGCCAAAGGT
* ** * * * * *
3696554 GGGTATTTAGGATAGGTTCGCCCCACCTATTTCCTTTTTGAGTCCTTTAGGGGTATCGGGCACTG
387 GGGTATTTAAGATAGGTTCGCCCCACCTACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTA
*
3696619 TTACATTGAAG
452 TTACATCGAAG
**
3696630 GTATCCCTTAGGGGCATTTTTGTAATTTTTCAA
1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAA
3696663 GAGTAGTTAT
Statistics
Matches: 422, Mismatches: 67, Indels: 12
0.84 0.13 0.02
Matches are distributed among these distances:
461 3 0.01
462 409 0.97
463 10 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (462 bp):
GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT
TTATGCTGAAGGTAGATATTTACGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAAGA
GCATCAGGCACTGTTATATCAAAGGTATCCCTTAAGGGCATTTTCATAATTTTCCAAAACCGAGT
CCTAGGTTCTCACCAGGTCTGCTTTTATGCCGAACGTAGATATTTAGGATAGGTTAACCCCACCC
ATATCCTTTTTGACTCCTTTAGAGGTATCAGACACCATTACGTCGAAGGTACCCCCTAGGAGCAT
TTTCATATTCTTTCAAAACCGAGTCCTAGGTCATCACCAAGTCTGCTTTTATGCCAAAGGTGGGT
ATTTAAGATAGGTTCGCCCCACCTACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTATTAC
ATCGAAG
Found at i:3696659 original size:154 final size:154
Alignment explanation
Indices: 3695706--3696662 Score: 1019
Period size: 154 Copynumber: 6.2 Consensus size: 154
3695696 GATCCTAATA
** * *
3695706 GTATCCCTTAGGGGCATTTTCATAA-TTTTCTAAAACC-AGGTCCTAGGTTGTCATTGGGTTTGC
1 GTATCCCTTAGGGGCATTTTCATAATTTTTC-AAAACCGA-GTCCTAGGTTGTCACCGAGTCTGC
* * * *
3695769 TTTTATGCTGAATGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCTTTTAA
64 TTTTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAG
* * * * ** *
3695834 GAGCATCAGGCACTGTTATATCAAAG
129 GGGTATCGGGCACTATTACGTCGAAG
* * * * * *
3695860 GTATCCCTTAGGGGCATTTTCATAATTTTCCAAAACTGGGTCCTAGGTTCTCACCGGGTTTGCTT
1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT
* * * * *
3695925 TTATGCCTAACGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGACTCTTTTAGAG
66 TTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGGG
*
3695990 GTATCGGGCACCATTACGTCGAAG
131 GTATCGGGCACTATTACGTCGAAG
* * * * * * ** * *
3696014 GTACCCCCTAGGGGTATTTTCGT-GTTCTTTCAAAATCGAGTCCTAGGTCATCATCAAGTCTGCT
1 GTATCCCTTAGGGGCATTTTCATAATT-TTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCT
* * * * * * * * * * * *
3696078 TTTGTGCCAAAGGTGGGTATTTAAGATGGGTTCGCCCCATCCACATCCTTTTTAACTCCTTTAGA
65 TTTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGG
* *
3696143 GGTACCGGGCACTATTATGTCGAAG
130 GGTATCGGGCACTATTACGTCGAAG
* * * * *
3696168 GTATCCCTTTGGGGAATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT
1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT
* * * * * *
3696233 TTTTGCTGAAGGTAGATATTTAACG-TAGGTTCACCCCATCCATATCTTTTTTGAGTCCTTTACG
66 TTATGCCGAAGGTAGATATTT-AGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGG
* * *
3696297 GGTATCGGGCACTGTTACTTCCAAG
130 GGTATCGGGCACTATTACGTCGAAG
* * * *
3696322 GTATCCCTTAAGGGCGTTTTTATAA-TTTTCTAAAACCGAGTCCTAGGTTGTCATC-AGGTCTGC
1 GTATCCCTTAGGGGCATTTTCATAATTTTTC-AAAACCGAGTCCTAGGTTGTCACCGA-GTCTGC
* *
3696385 TTTTATGCCG-AGCGTAGATATTTAGGATAGGTTAACCCCACCCATATCCTTTTTTAGTCCTTTA
64 TTTTATGCCGAAG-GTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTA
* * *
3696449 GGGGTATCAGACGCTATTACGTCGAAG
128 GGGGTATCGGGCACTATTACGTCGAAG
* *
3696476 GTATCCCTTAGGAGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTAGTCACCGAGTCTGCTT
1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT
* * * * * *
3696541 TTATGTCGAAGGTGGGTATTTAGGATAGGTTCGCCCCACCTATTTCCTTTTTGAGTCCTTTAGGG
66 TTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGGG
* * *
3696606 GTATCGGGCACTGTTACATTGAAG
131 GTATCGGGCACTATTACGTCGAAG
**
3696630 GTATCCCTTAGGGGCATTTTTGTAATTTTTCAA
1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAA
3696663 GAGTAGTTAT
Statistics
Matches: 665, Mismatches: 126, Indels: 24
0.82 0.15 0.03
Matches are distributed among these distances:
153 12 0.02
154 637 0.96
155 16 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (154 bp):
GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT
TTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGGG
GTATCGGGCACTATTACGTCGAAG
Found at i:3699116 original size:164 final size:164
Alignment explanation
Indices: 3698693--3699234 Score: 728
Period size: 165 Copynumber: 3.3 Consensus size: 164
3698683 ATTCCTCTTA
* *
3698693 TTTTC-AAATTACGGGGTTTTCTTCTCCGTAAATTTTTTTAGGAGGATTTTTC------TT-AAT
1 TTTTCGAAA-TACGGTGTTTTCTACTCCGTAAATTTTTTTAGG-GGATTTTTCTTGGTTTTCAAT
*
3698750 TTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATT
64 TTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATT
* * *
3698815 TTCGTGAGTTTTTGATTTTTTTCTTGAAATTCTTTCT
129 TTCATGAGTTTTTCATTTTTTTCTTGAAATTC-TCCT
* * *
3698852 TTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTTAGGAGATTTTTCTTGGTTTTCAATTT
1 TTTTCGAAATACGGTGTTTTCTACTCCGTAAATTTTTTTAGGGGATTTTTCTTGGTTTTCAATTT
*
3698917 TTAAAATTCATCAAACATCAATATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTT
66 TTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTT
* *
3698982 CATGAG-TTATCATTTTTTTCTTAAAATTCTCCT
131 CATGAGTTTTTCATTTTTTTCTTGAAATTCTCCT
*
3699015 TTTTCTGAAATATGGTGTTTTCTACTCCGTAAATTTTTTTGAGGGGATTTTTCTTGGTTTTCAAT
1 TTTTC-GAAATACGGTGTTTTCTACTCCGTAAATTTTTTT-AGGGGATTTTTCTTGGTTTTCAAT
* * * *
3699080 TTTCAAATTTCGTCAAACATCATTATTTA-CTCATATTAATTCAGTTTTCAAAAATTAATTCATT
64 TTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATT
* * *
3699144 TTCATGCGTTTTTTATTTTTTCCTTGAAATT-TCTCT
129 TTCATGAGTTTTTCATTTTTTTCTTGAAATTCTC-CT
* * *
3699180 TTTTCCGATATACGGTGTTTTCTACTTCGTAAATTTTTTCGAGGGGATTTTTCTT
1 TTTT-CGAAATACGGTGTTTTCTACTCCGTAAATTTTTT-TAGGGGATTTTTCTT
3699235 CGTTAAAAAT
Statistics
Matches: 339, Mismatches: 30, Indels: 22
0.87 0.08 0.06
Matches are distributed among these distances:
158 8 0.02
159 34 0.10
160 3 0.01
163 8 0.02
164 96 0.28
165 189 0.56
166 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (164 bp):
TTTTCGAAATACGGTGTTTTCTACTCCGTAAATTTTTTTAGGGGATTTTTCTTGGTTTTCAATTT
TTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTT
CATGAGTTTTTCATTTTTTTCTTGAAATTCTCCT
Found at i:3699300 original size:329 final size:323
Alignment explanation
Indices: 3698708--3699300 Score: 746
Period size: 329 Copynumber: 1.8 Consensus size: 323
3698698 AAATTACGGG
* *
3698708 GTTTTCTTCTCCGTAAATTTTTTTAGGAGGATTTTTCTTAATTTTTAAAATTCATCAAACATCAT
1 GTTTTCTACTCCGTAAATTTTTTTAGGAGGATTTTTCTTAATTTTCAAAATTCATCAAACATCAT
* * *
3698773 TATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCGTGAGTTTTTGATTTTTTTC
66 TATTTATCTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTCC
* *
3698838 TTGAAATTCTTTCTTTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTTAGGAGATTTTTC
131 TTGAAATTCTCTCTTTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTGAGGAGATTTTTC
* *** * * * * *
3698903 TTGGTTTTCAATTTTTAAAATTCATCAAACATCAATATTTATTTCATATTAATTCAGTTTTCAAA
196 TTCGTTAAAAATTTTTAAAATACATCAAACATCAATATTAACTACACATTAATTCAGTTTTCAAA
3698968 AATTAATTCATTTTCATGAGTTATCATTTTTTTCTTAAAATTCTCCTTTTTCTGAAATATGGT
261 AATTAATTCATTTTCATGAGTTATCATTTTTTTCTTAAAATTCTCCTTTTTCTGAAATATGGT
* *
3699031 GTTTTCTACTCCGTAAATTTTTTTGAGG-GGATTTTTCTTGGTTTTCAATTTTCAAATTTCGTCA
1 GTTTTCTACTCCGTAAATTTTTTT-AGGAGGATTTTTC------TT-AATTTTCAAAATTCATCA
* * *
3699095 AACATCATTATTTA-CTCATATTAATTCAGTTTTCAAAAATTAATTCATTTTCATGCGTTTTTTA
58 AACATCATTATTTATCTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGA
* * * *
3699159 TTTTTTCCTTGAAATT-TCTCTTTTTCCGATATACGGTGTTTTCTACTTCGTAAATTTTTTCGAG
123 TTTTTTCCTTGAAATTCTCTCTTTTT-CGAAATACGATATTTTCTACTCCGTAAATTTTTT-GAG
* * ** *** *
3699223 GGGATTTTTCTTCGTTAAAAATTTTTAGAAA-ACATCTAATGTTGTTATTAACTAC-CATTACTT
186 GAGATTTTTCTTCGTTAAAAATTTTTA-AAATACATCAAACATCAATATTAACTACACATTAATT
*
3699286 CAGTTTTGAAAAATT
250 CAGTTTTCAAAAATT
3699301 TGATTTATAT
Statistics
Matches: 225, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
323 32 0.14
324 3 0.01
328 8 0.04
329 112 0.50
330 67 0.30
331 3 0.01
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.50
Consensus pattern (323 bp):
GTTTTCTACTCCGTAAATTTTTTTAGGAGGATTTTTCTTAATTTTCAAAATTCATCAAACATCAT
TATTTATCTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTCC
TTGAAATTCTCTCTTTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTGAGGAGATTTTTC
TTCGTTAAAAATTTTTAAAATACATCAAACATCAATATTAACTACACATTAATTCAGTTTTCAAA
AATTAATTCATTTTCATGAGTTATCATTTTTTTCTTAAAATTCTCCTTTTTCTGAAATATGGT
Found at i:3701159 original size:149 final size:149
Alignment explanation
Indices: 3700954--3701240 Score: 361
Period size: 149 Copynumber: 1.9 Consensus size: 149
3700944 TTCCAAAAAT
* *
3700954 AAATAAATGTTAAATGTTTTTTAAATTTTTATATTCCTATAGGTATCCATAGGGGTA-TAAAATA
1 AAATAAATATTAAATGTTTTTTAAATTTTTATATTCCTATAGGTATCCATAGGGGTATTAAAAGA
** * *
3701018 TTTCAAAAACTTTTCATATCTTTTCGGGTGTCCATTAAGGTATGAAAT-GATTTTTTAAGAAATA
66 TTTC--AAACTTTTCATATCTTGGCGGGTGTCCATTAAGGTATGAAATACACTTTTTAAGAAA-A
3701082 ATTAAATTAACTCTCCTAACTA
128 ATTAAATTAACTCTCCTAACTA
*
3701104 AAATAAATATT-AATCG-TTTTT-AATCTTTTATATTCCTAT-GAGTATCCGTAGGGGTATTAAA
1 AAATAAATATTAAAT-GTTTTTTAAAT-TTTTATATTCCTATAG-GTATCCATAGGGGTATTAAA
* ** * *
3701165 AGATTTCAAATTTTTTGTATCTTGGCGGGTTTCCATTAAGGTATGAAATAACACTTTTTGAGAAA
63 AGATTTCAAACTTTTCATATCTTGGCGGGTGTCCATTAAGGTATGAAAT-ACACTTTTTAAGAAA
3701230 AATTAAATTAA
127 AATTAAATTAA
3701241 ACATGTGAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
148 40 0.34
149 47 0.39
150 32 0.27
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (149 bp):
AAATAAATATTAAATGTTTTTTAAATTTTTATATTCCTATAGGTATCCATAGGGGTATTAAAAGA
TTTCAAACTTTTCATATCTTGGCGGGTGTCCATTAAGGTATGAAATACACTTTTTAAGAAAAATT
AAATTAACTCTCCTAACTA
Found at i:3701522 original size:25 final size:25
Alignment explanation
Indices: 3701493--3701542 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3701483 AGTCAAACCA
3701493 AATTTGGTAGCATCGCACCACATCC
1 AATTTGGTAGCATCGCACCACATCC
3701518 AATTTGGTAGCATCGCACCACATCC
1 AATTTGGTAGCATCGCACCACATCC
3701543 CTTAGGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (25 bp):
AATTTGGTAGCATCGCACCACATCC
Found at i:3703816 original size:34 final size:37
Alignment explanation
Indices: 3703768--3703838 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 37
3703758 ACATATTGGT
*
3703768 ACCAACTCTTTTTCAAAGTCTACA-GA-GTCGGTGGCA
1 ACCAACTCTTTTTCAAAGTCCACATGAGGT-GGTGGCA
3703804 ACCAAC-C-TTTTCAAAGTCCACATGAGGTGGTGGCA
1 ACCAACTCTTTTTCAAAGTCCACATGAGGTGGTGGCA
3703839 CCCTAGTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 14 0.44
35 10 0.31
36 8 0.25
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (37 bp):
ACCAACTCTTTTTCAAAGTCCACATGAGGTGGTGGCA
Found at i:3703880 original size:31 final size:31
Alignment explanation
Indices: 3703806--3703988 Score: 163
Period size: 31 Copynumber: 5.8 Consensus size: 31
3703796 CGGTGGCAAC
** *
3703806 CAACCTTTTCAAAGTCCACATGAGGTGGTGG
1 CAACCTTTTCAAAGTCCACACAAGTTGGTGG
* ** *
3703837 CACCCTAGTCAAAGTCCATACAAGTTGGTGG
1 CAACCTTTTCAAAGTCCACACAAGTTGGTGG
* **
3703868 CAACCTTTTCAAAAG-CTTACATGAGTTGGTGG
1 CAACCTTTTC-AAAGTC-CACACAAGTTGGTGG
* * **
3703900 CAATCTTTTCGAAGTCCACATGAGTTGGTGG
1 CAACCTTTTCAAAGTCCACACAAGTTGGTGG
*
3703931 CAACCTTTAT-AAAGTCCACACGAGTTGGTGG
1 CAACCTTT-TCAAAGTCCACACAAGTTGGTGG
* *
3703962 CAACCTTTTCAAAAGCCCATACAAGTT
1 CAACCTTTTC-AAAGTCCACACAAGTT
3703989 TTAAAGTCCA
Statistics
Matches: 123, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
30 1 0.01
31 83 0.67
32 39 0.32
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (31 bp):
CAACCTTTTCAAAGTCCACACAAGTTGGTGG
Found at i:3703899 original size:63 final size:62
Alignment explanation
Indices: 3703806--3703967 Score: 175
Period size: 63 Copynumber: 2.6 Consensus size: 62
3703796 CGGTGGCAAC
* *
3703806 CAACCTTTTCAAAGTCCACATGAGGTGGTGGCACCCTAGTCAAAGTCCATACAAGTTGGTGG
1 CAACCTTTTCAAAGTCCACATGAGGTGGTGGCAACCTAGTCAAAGTCCACACAAGTTGGTGG
* * * ** * **
3703868 CAACCTTTTCAAAAG-CTTACATGAGTTGGTGGCAATCTTTTCGAAGTCCACATGAGTTGGTGG
1 CAACCTTTTC-AAAGTC-CACATGAGGTGGTGGCAACCTAGTCAAAGTCCACACAAGTTGGTGG
* *
3703931 CAACCTTTAT-AAAGTCCACACGAGTTGGTGGCAACCT
1 CAACCTTT-TCAAAGTCCACATGAGGTGGTGGCAACCT
3703968 TTTCAAAAGC
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
62 33 0.40
63 49 0.59
64 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (62 bp):
CAACCTTTTCAAAGTCCACATGAGGTGGTGGCAACCTAGTCAAAGTCCACACAAGTTGGTGG
Found at i:3704116 original size:31 final size:31
Alignment explanation
Indices: 3703987--3704178 Score: 151
Period size: 31 Copynumber: 6.3 Consensus size: 31
3703977 CCCATACAAG
*
3703987 TTTTAAAGTCCACACAAG-T--TGGCAACCTT
1 TTTTAAAGTCCACACGAGTTGGTGGCAA-CTT
** * * * * * *
3704016 TTCAAAAGCCCACTCGAGTTAGTGGTAGCCT
1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT
* * * *
3704047 TTTCAAGGTCCACATGAGCTGGTGGC-A-TT
1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT
*
3704076 TTTTCAAAGTCCACACAAGTTGGTGGCAACTT
1 TTTT-AAAGTCCACACGAGTTGGTGGCAACTT
*
3704108 TTTTAAAGTCCACACGAGTTGGTGGCAGCTT
1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT
** * *
3704139 TTTGGAAGTCCACACGAGCTGGTGGCATCTT
1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT
*
3704170 TTTCAAAGT
1 TTTTAAAGT
3704179 TGTCGCAAGG
Statistics
Matches: 125, Mismatches: 32, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
29 17 0.14
30 19 0.15
31 79 0.63
32 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (31 bp):
TTTTAAAGTCCACACGAGTTGGTGGCAACTT
Found at i:3704152 original size:92 final size:91
Alignment explanation
Indices: 3703987--3704178 Score: 239
Period size: 92 Copynumber: 2.1 Consensus size: 91
3703977 CCCATACAAG
* *
3703987 TTTT-AAAGTCCACACAAGTTGGCAACCTTTTCAAAAGCCCACTCGAGTTAGTGGTAGCCTTTTC
1 TTTTCAAAGTCCACACAAGTTGGCAACCTTTTCAAAAGCCCACACGAGTTAGTGGCAGCCTTTTC
*
3704051 AAGGTCCACATGAGCTGGTGGCAT-T
66 AAGGTCCACACGAGCTGGTGGCATCT
** * * *
3704076 TTTTCAAAGTCCACACAAGTTGGTGGCAA-CTTTTTTAAAGTCCACACGAGTTGGTGGCAGCTTT
1 TTTTCAAAGTCCACACAAG-T--TGGCAACCTTTTCAAAAGCCCACACGAGTTAGTGGCAGCCTT
*
3704140 TTGGAA-GTCCACACGAGCTGGTGGCATCT
63 TT-CAAGGTCCACACGAGCTGGTGGCATCT
3704169 TTTTCAAAGT
1 TTTTCAAAGT
3704179 TGTCGCAAGG
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
89 4 0.05
90 14 0.16
91 1 0.01
92 50 0.57
93 19 0.22
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (91 bp):
TTTTCAAAGTCCACACAAGTTGGCAACCTTTTCAAAAGCCCACACGAGTTAGTGGCAGCCTTTTC
AAGGTCCACACGAGCTGGTGGCATCT
Found at i:3704153 original size:62 final size:61
Alignment explanation
Indices: 3704046--3704178 Score: 167
Period size: 62 Copynumber: 2.2 Consensus size: 61
3704036 AGTGGTAGCC
* * * *
3704046 TTTTCAAGGTCCACATGAGCTGGTGGCATTTTTTCAAAGTCCACACAAGTTGGTGGCAACT
1 TTTTCAAAGTCCACACGAGCTGGTGGCACTTTTTCAAAGTCCACACAAGCTGGTGGCAACT
* * ** * *
3704107 TTTTTAAAGTCCACACGAGTTGGTGGCAGCTTTTTGGAAGTCCACACGAGCTGGTGGCATCT
1 TTTTCAAAGTCCACACGAGCTGGTGGCA-CTTTTTCAAAGTCCACACAAGCTGGTGGCAACT
3704169 TTTTCAAAGT
1 TTTTCAAAGT
3704179 TGTCGCAAGG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
61 24 0.40
62 36 0.60
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (61 bp):
TTTTCAAAGTCCACACGAGCTGGTGGCACTTTTTCAAAGTCCACACAAGCTGGTGGCAACT
Found at i:3708551 original size:63 final size:63
Alignment explanation
Indices: 3708431--3708614 Score: 172
Period size: 63 Copynumber: 2.9 Consensus size: 63
3708421 CGTTTGGTTG
* * * * ** * * **
3708431 GGGGGGAGGGAAGGAT-GCTGGGGAGGGACTCGTTGCACATGCCTGGCCCTCTGCATGTTAGGA
1 GGGGGGAGGGACGAATGGCT-GGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGTTAGGA
* * * * * *
3708494 GGGGGTAGGGCCGGATGGTTGGGAGGGACTCATTGCCCACACTTGGGCCTCCACATGTTTGGA
1 GGGGGGAGGGACGAATGGCTGGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGTTAGGA
* * * *
3708557 GGGGGGAGGGACGAATGGCTGGGTGGGACTCGTTGCGCACGCGTGGGCCTCCACATGT
1 GGGGGGAGGGACGAATGGCTGGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGT
3708615 GCTATCGATG
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
63 96 0.98
64 2 0.02
ACGTcount: A:0.16, C:0.21, G:0.43, T:0.20
Consensus pattern (63 bp):
GGGGGGAGGGACGAATGGCTGGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGTTAGGA
Found at i:3717564 original size:63 final size:63
Alignment explanation
Indices: 3717485--3717654 Score: 243
Period size: 63 Copynumber: 2.7 Consensus size: 63
3717475 CGTTTGGTTG
*
3717485 GGGGGGAGGGACGGATGCT-GGGAAGAGAGTCGTTGCATACGCTTAACCCTCCGCATGTTTGGA
1 GGGGGGAGGGACGGATGCTAGGG-AGAGAGTCGTTGCACACGCTTAACCCTCCGCATGTTTGGA
* * *
3717548 GGGGGGAGGGATGGATGCTAGGGAGAGAGTCGTTGCACATGCTTAGCCCTCCGCATGTTTGGA
1 GGGGGGAGGGACGGATGCTAGGGAGAGAGTCGTTGCACACGCTTAACCCTCCGCATGTTTGGA
* * * * *
3717611 GGGGGGAGGGACGGATGGTTGGGAGGGACTCGTTGCCCACGCTT
1 GGGGGGAGGGACGGATGCTAGGGAGAGAGTCGTTGCACACGCTT
3717655 GGGCCTCTGC
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 92 0.97
64 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.43, T:0.21
Consensus pattern (63 bp):
GGGGGGAGGGACGGATGCTAGGGAGAGAGTCGTTGCACACGCTTAACCCTCCGCATGTTTGGA
Found at i:3718505 original size:24 final size:24
Alignment explanation
Indices: 3718478--3718524 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3718468 TCCGCTTTAC
3718478 GAAAGAGGG-GGGACGGAA-CGAAGG
1 GAAAG-GGGAGGGAC-GAATCGAAGG
3718502 GAAAGGGGAGGGACGAATCGAAG
1 GAAAGGGGAGGGACGAATCGAAG
3718525 CGACGAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.38, C:0.09, G:0.51, T:0.02
Consensus pattern (24 bp):
GAAAGGGGAGGGACGAATCGAAGG
Found at i:3724573 original size:44 final size:44
Alignment explanation
Indices: 3724525--3724684 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
3724515 GCAGACAAAA
*
3724525 GATGAAGGGAAGTCTCCCAGGTTTGAGCTAATAGATAGACGATT
1 GATGAAGGGAAGTCTCCCAGGTCTGAGCTAATAGATAGACGATT
* ** * * * * *
3724569 GATGAAAGGAAGTCTCTTATGTCTGAGTTGATGGGTAGACGATT
1 GATGAAGGGAAGTCTCCCAGGTCTGAGCTAATAGATAGACGATT
* * * * *
3724613 GATGAAGAGAAGTCTCCCAGGACTGAGCCGACGT-G-TAGACTATT
1 GATGAAGGGAAGTCTCCCAGGTCTGAG-CTA-ATAGATAGACGATT
* * *
3724657 GATAAAGGGAAGTCTCCCGGGACTGAGC
1 GATGAAGGGAAGTCTCCCAGGTCTGAGC
3724685 CAATTGGCAA
Statistics
Matches: 91, Mismatches: 23, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
43 1 0.01
44 88 0.97
45 1 0.01
46 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (44 bp):
GATGAAGGGAAGTCTCCCAGGTCTGAGCTAATAGATAGACGATT
Found at i:3724714 original size:44 final size:44
Alignment explanation
Indices: 3724661--3724883 Score: 166
Period size: 44 Copynumber: 5.1 Consensus size: 44
3724651 ACTATTGATA
* * * *
3724661 AAGGGAAGTCTCCCGGGACTGAGCCAATTGGCAAATGAAAGATG
1 AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG
* * **
3724705 AAGGAAAGTCTC-CTAGGACTGAGCCGATAGGCAGACAAAAGATGG
1 AAGGAAAGTCTCTC-GGGACTGAGCCAATAGGCAGATGAAAGAT-G
* * * *
3724750 AAAG-AATTTTCTCGGGATTGAGCCAATAGGCAGATGAAAGATG
1 AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG
* * * * * *
3724793 AAGGGAAGTCTCTCGAGTCTGAGCCAATGGGTAGATAAAAGAT-
1 AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG
* * * * * *
3724836 -AGCGAGAAGCCTCTCGGAACTGAGCCAATGGGCAAAAGAATGATG
1 AAG-GA-AAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG
3724881 AAG
1 AAG
3724884 ATTGGAATAA
Statistics
Matches: 137, Mismatches: 34, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
42 2 0.01
43 6 0.04
44 122 0.89
45 5 0.04
46 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.17
Consensus pattern (44 bp):
AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG
Found at i:3724815 original size:88 final size:88
Alignment explanation
Indices: 3724674--3724883 Score: 224
Period size: 88 Copynumber: 2.4 Consensus size: 88
3724664 GGAAGTCTCC
* * *
3724674 CGGGACTGAGCCAATTGGCAAATGAAAGATGAAGGAAAGTCTCCTAGGACTGAGCCGATAGGCAG
1 CGGGACTGAGCCAATAGGCAAATGAAAGATGAAGGAAAGTCTCCGAGGACTGAGCCAATAGGCAG
3724739 ACAAAAGATGGAAAGAATTTTCT
66 ACAAAAGATGGAAAGAATTTTCT
* * * * * *
3724762 CGGGATTGAGCCAATAGGCAGATGAAAGATGAAGGGAAGTCTCTCGA-GTCTGAGCCAATGGGTA
1 CGGGACTGAGCCAATAGGCAAATGAAAGATGAAGGAAAGTCTC-CGAGGACTGAGCCAATAGGCA
* * ** ***
3724826 GATAAAAGATAGCGAGAAGCCTCT
65 GACAAAAGATGGAAAGAATTTTCT
* * * *
3724850 CGGAACTGAGCCAATGGGCAAAAGAATGATGAAG
1 CGGGACTGAGCCAATAGGCAAATGAAAGATGAAG
3724884 ATTGGAATAA
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 97 0.98
89 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (88 bp):
CGGGACTGAGCCAATAGGCAAATGAAAGATGAAGGAAAGTCTCCGAGGACTGAGCCAATAGGCAG
ACAAAAGATGGAAAGAATTTTCT
Found at i:3725545 original size:78 final size:78
Alignment explanation
Indices: 3725363--3725549 Score: 195
Period size: 78 Copynumber: 2.4 Consensus size: 78
3725353 GAGAAGTCTG
* ** * *
3725363 TGGGATGTG-CCCCTTATGGCCATGTGATGCATTAATACCATTTAGTGTTTGGTAAGGAAGAATA
1 TGGGAAGTGCCCCCTT-TGGCCATGTGATGCACCAATACCATATAGTATTTGGTAAGGAAGAATA
*
3725427 CGATTAGGAATGTA
65 CGATGAGGAATGTA
* * *
3725441 TGGGAAACGT-CCCCC-TTAGTCATGTGATGCACCAATACCATATGGTATTTGG-AGAGGAA-AG
1 TGGG-AA-GTGCCCCCTTTGGCCATGTGATGCACCAATACCATATAGTATTTGGTA-AGGAAGA-
*
3725502 ATATGATGAGGAATGTA
62 ATACGATGAGGAATGTA
*
3725519 TGGGAAGTGCCCCCTTTGGCCTTGTGATGCA
1 TGGGAAGTGCCCCCTTTGGCCATGTGATGCA
3725550 TTAGTATCAG
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
76 2 0.02
77 9 0.10
78 70 0.79
79 2 0.02
80 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (78 bp):
TGGGAAGTGCCCCCTTTGGCCATGTGATGCACCAATACCATATAGTATTTGGTAAGGAAGAATAC
GATGAGGAATGTA
Found at i:3726346 original size:52 final size:52
Alignment explanation
Indices: 3726290--3726391 Score: 116
Period size: 53 Copynumber: 2.0 Consensus size: 52
3726280 TTATTTTTTC
*
3726290 TTTTT-TTACCTGAACACCCTTTCAAGTTTTCATCCAAACATTGTCATTCATT
1 TTTTTCTTACATGAACACCCTTTCAAGTTTTCA-CCAAACATTGTCATTCATT
** *** * *
3726342 TTTTTCTTACATGAATGCCCTTTTGGGTTTTCACTAAGCATTGTCATTCA
1 TTTTTCTTACATGAACACCCTTTCAAGTTTTCACCAAACATTGTCATTCA
3726392 AAAAAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
52 20 0.49
53 21 0.51
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (52 bp):
TTTTTCTTACATGAACACCCTTTCAAGTTTTCACCAAACATTGTCATTCATT
Found at i:3726570 original size:19 final size:19
Alignment explanation
Indices: 3726546--3726595 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3726536 TATTTACCTT
3726546 GGAGATCTTTTTGTATTGG
1 GGAGATCTTTTTGTATTGG
*
3726565 GGAGATCATTTTGTATTGG
1 GGAGATCTTTTTGTATTGG
*
3726584 GAAGATCTTTTT
1 GGAGATCTTTTT
3726596 TAGCACTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.20, C:0.06, G:0.28, T:0.46
Consensus pattern (19 bp):
GGAGATCTTTTTGTATTGG
Found at i:3738481 original size:149 final size:150
Alignment explanation
Indices: 3738275--3738737 Score: 527
Period size: 151 Copynumber: 3.0 Consensus size: 150
3738265 GAAATCTTTT
* * * *
3738275 AATACCCATAGGAAAATAAAATATTAAAAA-AATTAATATTTATTTTCGTGAGGAGATTTAATTT
1 AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT
* * * *
3738339 CATTATTTCT-AAAAAAATCATTTCGCACCTTAATGGATACCCGAAAATATATGAAAAGTTTTTG
66 AATTATTTCTAAAAAAAATCATTTCACACCTTAATGGATACCAGAAAAGATATGAAAAGTTTTTG
*
3738403 AAATCTTTTATACCTCTACG
131 AAATCTTTTATACCCCTACG
*
3738423 AATATCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT
1 AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT
* * * *
3738488 AATTATTTCTAAAAAAAAATTATTTCATACCTTAATGGCTACTAGAAAAGATATGAAAAGTTTTT
66 AATTATTTCT-AAAAAAAATCATTTCACACCTTAATGGATACCAGAAAAGATATGAAAAGTTTTT
3738553 GAAATCTTTTATACCCCTACG
130 GAAATCTTTTATACCCCTACG
* * * **
3738574 GATACCCATAGGAATATAAAAGATTAAAAACGATCAATATTTGTTTAAATTAACGAGGAGTGAAT
1 AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTT-ATT---TTAGTGAGGA--G-AT
* * **
3738639 TTAATATTATTTATTTATTTTTGGGAAAAAAATCATTTCGTACCTTAATGGATACTCA-AAAAGA
59 TTAAT-TTA---A-TTATTTCT--AAAAAAAATCATTTCACACCTTAATGGATAC-CAGAAAAGA
**
3738703 TACAAAAAGTTTTTCGAAATCTTTTATACCCCTAC
116 TATGAAAAGTTTTT-GAAATCTTTTATACCCCTAC
3738738 TCTAATTTGA
Statistics
Matches: 268, Mismatches: 29, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
148 27 0.10
149 41 0.15
151 105 0.39
152 2 0.01
155 8 0.03
157 1 0.00
158 7 0.03
159 3 0.01
162 1 0.00
163 7 0.03
164 45 0.17
165 21 0.08
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (150 bp):
AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT
AATTATTTCTAAAAAAAATCATTTCACACCTTAATGGATACCAGAAAAGATATGAAAAGTTTTTG
AAATCTTTTATACCCCTACG
Found at i:3742229 original size:20 final size:20
Alignment explanation
Indices: 3742204--3742257 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
3742194 ATTTGCCTGC
3742204 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
**
3742224 ATGTATCGATACATTTTATA
1 ATGTATCGATACATTGAATA
3742244 ATGTATCGATACAT
1 ATGTATCGATACAT
3742258 CTGGGCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:3742315 original size:13 final size:13
Alignment explanation
Indices: 3742297--3742321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3742287 CAAAGATCAG
3742297 TGTATCGATACAA
1 TGTATCGATACAA
3742310 TGTATCGATACA
1 TGTATCGATACA
3742322 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3742403 original size:13 final size:13
Alignment explanation
Indices: 3742385--3742409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3742375 AAAAAAAAAA
3742385 TGTATCGATACAT
1 TGTATCGATACAT
3742398 TGTATCGATACA
1 TGTATCGATACA
3742410 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3743238 original size:25 final size:26
Alignment explanation
Indices: 3743191--3743239 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
3743181 CTTACATGTT
3743191 TTTCTACCTATTTTCTCTATTTTTTC
1 TTTCTACCTATTTTCTCTATTTTTTC
* *
3743217 TTTCT-CCTTTTTTCTCTCTTTTT
1 TTTCTACCTATTTTCTCTATTTTT
3743240 CAGCTGAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTCTACCTATTTTCTCTATTTTTTC
Found at i:3743750 original size:18 final size:20
Alignment explanation
Indices: 3743729--3743769 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
3743719 CAACGTATAT
3743729 AAAA-AATTCAAAATT-TAA
1 AAAATAATTCAAAATTCTAA
* *
3743747 AAAATAATTTAAATTTCTAA
1 AAAATAATTCAAAATTCTAA
3743767 AAA
1 AAA
3743770 CTAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATAATTCAAAATTCTAA
Found at i:3743978 original size:166 final size:163
Alignment explanation
Indices: 3743788--3744181 Score: 397
Period size: 164 Copynumber: 2.4 Consensus size: 163
3743778 ATGGGAGTTC
* * ** * **
3743788 AATAAAAATATTAGATGCATTTTAAAAATTTTATACCGAA-GCAAATGCCCTC-GAAAATATTTA
1 AATAAAAATATTTGATGAATTTTAAAAATTGAAAACC-AATAAAAAT-CCCTCAGAAAA-ATTTA
* * *
3743851 CAG-AG-AAGAAAACTCGGTCTCTCGGAAAAAGGAAAATTTCAACAAAAAAATTCAAAA-CTCAT
63 C-GTAGCAA-AAAACACCGTATCTCGGAAAAAGG--AATTTCAACAAAAAAA-TCAAAAGCTCAT
* * *
3743913 GAAAATGAACTAATTTTTT-ATAACTGAATTAATA-GAAATCA
123 GAAAAAGAA-TAATTTTTTGAAAACTAAATTAATATGAAAT-A
* *
3743954 AATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCCCTCTAGAAAAATTTACG
1 AATAAAAATATTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCCCTC-AGAAAAATTTACG
* **
3744019 TAGCAAAAAACACCGTATTTCGGAAAAAGGAATTTCAAGGAAAAAATCAAAAGCTCATGAAAAAG
65 TAGCAAAAAACACCGTATCTCGGAAAAAGGAATTTCAACAAAAAAATCAAAAGCTCATGAAAAAG
* *
3744084 AATGATTTTTTGAAAATTAAATTAATATGAAATA
130 AATAATTTTTTGAAAACTAAATTAATATGAAATA
* * ** * *
3744118 AATAAAAATATTTTATGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCTCAAAAAAATTTAC
1 AATAAAAATATTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCC-CTCAGAAAAATTTAC
3744182 AAAGAAGAAA
Statistics
Matches: 191, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
163 14 0.07
164 92 0.48
165 16 0.08
166 62 0.32
167 7 0.04
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (163 bp):
AATAAAAATATTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCCCTCAGAAAAATTTACGT
AGCAAAAAACACCGTATCTCGGAAAAAGGAATTTCAACAAAAAAATCAAAAGCTCATGAAAAAGA
ATAATTTTTTGAAAACTAAATTAATATGAAATA
Found at i:3744109 original size:164 final size:165
Alignment explanation
Indices: 3743872--3744181 Score: 405
Period size: 164 Copynumber: 1.9 Consensus size: 165
3743862 ACTCGGTCTC
* *
3743872 TCGGAAAAAGGAAAATTTCAACAAAAAAATTCAAAACTCATGAAAATGAACTAATTTTTTATAAC
1 TCGGAAAAAGG-AAATTTCAACAAAAAAATTCAAAACTCATGAAAAAGAACTAATTTTTTAAAAC
* * * * *
3743937 TGAATTAATA-GAAATCAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAATAAAAATC
65 TAAATTAATATGAAAT-AAATAAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC
*
3744001 C-CTCTAGAAAAATTTACGTAGCAAAAAACACCGTATT
129 CTCTC-AAAAAAATTTACGTAGCAAAAAACACCGTATT
** *
3744038 TCGGAAAAAGG-AATTTCAAGGAAAAAA-TCAAAAGCTCATGAAAAAGAA-TGATTTTTTGAAAA
1 TCGGAAAAAGGAAATTTCAACAAAAAAATTCAAAA-CTCATGAAAAAGAACTAATTTTTT-AAAA
* * **
3744100 TTAAATTAATATGAAATAAATAAAAATATTTTATGAATTTTAAAAATTAAAAATTAAGAAAAATC
64 CTAAATTAATATGAAATAAATAAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC
3744165 CTCTCAAAAAAATTTAC
129 CTCTCAAAAAAATTTAC
3744182 AAAGAAGAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
163 14 0.11
164 92 0.74
165 8 0.06
166 11 0.09
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (165 bp):
TCGGAAAAAGGAAATTTCAACAAAAAAATTCAAAACTCATGAAAAAGAACTAATTTTTTAAAACT
AAATTAATATGAAATAAATAAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCT
CTCAAAAAAATTTACGTAGCAAAAAACACCGTATT
Found at i:3746808 original size:97 final size:97
Alignment explanation
Indices: 3746629--3746818 Score: 233
Period size: 97 Copynumber: 2.0 Consensus size: 97
3746619 CCAACCCCGC
*
3746629 TCTTCCGAGGAAATACTCCAACCTCACTTTTAAACTTCTCAAAGTTTAAATCTTATTTTTGCTCA
1 TCTTCCGAGGAAATACTCCAACCTCACTTTTAAACTTCTCAAAGTTTAAATCTTATTTTCGCTCA
** * *
3746694 AATTATCATTGTCAGGGATATTCCAACCCTAT
66 AATTATCATCATCAGGGACACTCCAACCCTAT
* * * *
3746726 TCTTTCGAGGAGATACTCCAATCCT-GCTTTTAAAC-TCATCAAGGTTTAAATCTTATTTTCGC-
1 TCTTCCGAGGAAATACTCCAA-CCTCACTTTTAAACTTC-TCAAAGTTTAAATCTTATTTTCGCT
* *
3746788 CTAAATTGTCATCATTAGGGACACTCCAACC
64 C-AAATTATCATCATCAGGGACACTCCAACC
3746819 TCATTCCTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
96 3 0.04
97 73 0.92
98 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (97 bp):
TCTTCCGAGGAAATACTCCAACCTCACTTTTAAACTTCTCAAAGTTTAAATCTTATTTTCGCTCA
AATTATCATCATCAGGGACACTCCAACCCTAT
Found at i:3750833 original size:19 final size:18
Alignment explanation
Indices: 3750808--3750872 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
3750798 ATTTCAACGA
3750808 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3750826 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3750842 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3750858 TTTTGTATCGATACA
1 -TTTGTATCGATACA
3750873 ATGTATCCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:3750846 original size:32 final size:32
Alignment explanation
Indices: 3750810--3750879 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
3750800 TTCAACGATT
3750810 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3750842 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3750874 TGTATC
1 TGTATC
3750880 CCTACGAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3750847 original size:13 final size:13
Alignment explanation
Indices: 3750829--3750853 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3750819 ACATAAGTGT
3750829 TGTATCGATACAA
1 TGTATCGATACAA
3750842 TGTATCGATACA
1 TGTATCGATACA
3750854 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3750943 original size:13 final size:13
Alignment explanation
Indices: 3750925--3750949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3750915 ATTACCCAAA
3750925 TGTATCGATACAT
1 TGTATCGATACAT
3750938 TGTATCGATACA
1 TGTATCGATACA
3750950 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3751003 original size:52 final size:52
Alignment explanation
Indices: 3750958--3751086 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3750948 CACTGATCTT
*
3750958 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
3751010 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3751062 TGTATCGATACATGGAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3751087 TCATATTTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3756756 original size:13 final size:13
Alignment explanation
Indices: 3756738--3756762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3756728 CAAAGATCAG
3756738 TGTATCGATACAA
1 TGTATCGATACAA
3756751 TGTATCGATACA
1 TGTATCGATACA
3756763 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3756808 original size:19 final size:18
Alignment explanation
Indices: 3756784--3756880 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
3756774 TAGCTTACAT
3756784 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3756803 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3756816 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3756835 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3756848 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3756867 TGTATCGATACAAA
1 TGTATCGATACAAA
3756881 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 3 0.05
19 35 0.53
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3756820 original size:32 final size:32
Alignment explanation
Indices: 3756779--3756878 Score: 191
Period size: 32 Copynumber: 3.1 Consensus size: 32
3756769 GGCAGTAGCT
*
3756779 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
3756811 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
3756843 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
3756875 TACA
1 TACA
3756879 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:3756821 original size:13 final size:13
Alignment explanation
Indices: 3756803--3756859 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
3756793 ACAAAACTTA
3756803 TGTATCGATACAT
1 TGTATCGATACAT
3756816 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
3756834 ATGTATCGATACAT
1 -TGTATCGATACAT
3756848 TGTATCGATACA
1 TGTATCGATACA
3756860 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3757777 original size:58 final size:55
Alignment explanation
Indices: 3757669--3757961 Score: 197
Period size: 52 Copynumber: 5.7 Consensus size: 55
3757659 GAAGAAAAAT
* ** * * *
3757669 GCCAATGTGCTGAGGCAAGGCCAGCGACATTGGGCTTAGGAATG-TTA-AAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGACAA-A-GAAGGC
*
3757727 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAG-A--C
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC
* * *
3757779 GCCAATATGCTGATTCAAGGCCAGTGATATTGGACGTAAAGATGAC--A-AAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC
* * *
3757831 GCCAATATGCTGATTCAAGGCTAGCGATATTGGAC-T-----T-----A-AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC
* * *
3757874 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATG----AG--GGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGAAGGC
*
3757924 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
3757962 GAGGTGCCAA
Statistics
Matches: 202, Mismatches: 19, Indels: 37
0.78 0.07 0.14
Matches are distributed among these distances:
43 36 0.18
44 1 0.00
46 1 0.00
49 1 0.00
50 40 0.20
51 2 0.01
52 76 0.38
54 1 0.00
55 2 0.01
56 5 0.02
57 2 0.01
58 35 0.17
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (55 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC
Found at i:3758059 original size:92 final size:92
Alignment explanation
Indices: 3757779--3758150 Score: 546
Period size: 92 Copynumber: 4.0 Consensus size: 92
3757769 TGACAAAGAC
* * * * *
3757779 GCCAATATGCTGATTCAAGGCCAGTGATATTGGACGTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGA
*
3757844 TTCAAGGCTAGCGATATTGGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* *
3757874 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATT
*
3757939 CAAGGCCAGCGATATTGGACTTAGAGGT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
* ** *
3757967 GCCAATTTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
3758032 AAGGCCAACGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
3758059 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCACTATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
3758124 AAGGCCAGCGATATTGGGCTTAGAAGG
66 AAGGCCAGCGATATTGGACTTA-AAGG
3758151 GTTGCCACCG
Statistics
Matches: 253, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
92 133 0.53
93 81 0.32
95 32 0.13
96 7 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:3758140 original size:49 final size:49
Alignment explanation
Indices: 3757713--3758145 Score: 470
Period size: 43 Copynumber: 9.1 Consensus size: 49
3757703 CTTAGGAATG
* *
3757713 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
** *
3757762 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
3757814 GTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
3757866 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
3757909 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* ** *
3757959 TT----A-G-AGGTGCCAATTTGCTGATTCAAGGCCAGTTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
3758002 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
3758051 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
3758094 TTAAAGATGAAGGTGCCACTATGCTGATTCAAGGCCAGCGATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
3758143 TTA
1 TTA
3758146 GAAGGGTTGC
Statistics
Matches: 322, Mismatches: 40, Indels: 44
0.79 0.10 0.11
Matches are distributed among these distances:
43 110 0.34
44 1 0.00
45 2 0.01
47 2 0.01
48 3 0.01
49 82 0.25
50 38 0.12
52 84 0.26
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:3758230 original size:32 final size:33
Alignment explanation
Indices: 3758145--3758345 Score: 313
Period size: 32 Copynumber: 6.2 Consensus size: 33
3758135 TATTGGGCTT
3758145 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* **
3758178 AGAATGGTTGCCACTAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3758211 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3758242 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3758274 AAAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3758306 AGAAGGGTTGCCACCGACTTATGTGGGCTTTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3758338 AAAAGGGT
1 AGAAGGGT
3758346 GAAAGATGCC
Statistics
Matches: 156, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
31 3 0.02
32 121 0.78
33 32 0.21
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:3758390 original size:33 final size:33
Alignment explanation
Indices: 3758360--3758667 Score: 277
Period size: 31 Copynumber: 9.2 Consensus size: 33
3758350 GATGCCACAA
* *
3758360 AGTTGTGGACTTAAAAGGAACAAGGTGCCACAG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
** * *
3758393 AGTTGTGGGTTTAAAAGGGAAAAATAGTGCCACAG
1 AGTTGTGGACTTAAAA-GGAAAAA-GGTGCCACGG
* ** *
3758428 AGTTGTGGGCTTTGAA--AAGAAGGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
* * ** *
3758459 AGTCGCGGACTTTGAA--AAGAAGGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
* *
3758490 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
*
3758523 GGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
1 AGTTGTGGAC-TTAAAA-GGAAAAAG-GTGCCACGG
* ** *
3758559 AGTTGTGGGCTTTGAA--AAGAAGGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
* *
3758590 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
3758623 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACTGG
1 AGTTGTGGAC-TTAAAA-GGAAAAAG-GTGCCAC-GG
3758660 AGTTGTGG
1 AGTTGTGG
3758668 GCTTTGAAAT
Statistics
Matches: 230, Mismatches: 32, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
31 70 0.30
32 9 0.04
33 59 0.26
34 18 0.08
35 40 0.17
36 24 0.10
37 10 0.04
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.20
Consensus pattern (33 bp):
AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG
Found at i:3758472 original size:31 final size:31
Alignment explanation
Indices: 3758419--3758734 Score: 258
Period size: 31 Copynumber: 9.7 Consensus size: 31
3758409 GGGAAAAATA
* * *
3758419 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
*
3758450 GTGCCACGGAGTCGCGGACTTTGAAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
** *
3758481 GTGCCACGGAGTCGTGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTCGTGGACTTTGAA--AAGAAG
* *
3758514 GTGCCACGGGGTTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAA--G---AAG
* *
3758549 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
** *
3758581 GTGCCACGGAGTCGTGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTCGTGGACTTTGAA--AAGAAG
*
3758614 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAA--G---AAG
* * *
3758649 AGTGCCACTGGAGTTGTGGGCTTTGAAATGAAG
1 -GTGCCAC-GGAGTCGTGGACTTTGAAAAGAAG
* ** *
3758682 GTGCCACGGAATCACGGACTTTGAAAGGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
*
3758713 GTGCCATGGAGTCGTGGACTTT
1 GTGCCACGGAGTCGTGGACTTT
3758735 AAGAAGGTAT
Statistics
Matches: 232, Mismatches: 34, Indels: 38
0.76 0.11 0.12
Matches are distributed among these distances:
30 4 0.02
31 106 0.46
32 14 0.06
33 52 0.22
35 7 0.03
36 28 0.12
37 18 0.08
38 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.20
Consensus pattern (31 bp):
GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
Found at i:3758573 original size:100 final size:100
Alignment explanation
Indices: 3758450--3758741 Score: 437
Period size: 100 Copynumber: 2.9 Consensus size: 100
3758440 TGAAAAGAAG
* * *
3758450 GTGCCACGGAGTCGCGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
*
3758515 TGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGA
66 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA
3758550 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
3758615 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA
66 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA
* * ** *
3758650 GTGCCACTGGAGTTGTGGGCTTTGAAATGAAGGTGCCACGGAATCACGGACTTTGAAAGG---AA
1 GTGCCAC-GGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAA
* *
3758712 GGTGCCATGGAGTCGTGGACTTTAAGAAGG
64 GGTGCCACGGAGTTGTGGACTTTAA-AAGG
3758742 TATTTGAAGA
Statistics
Matches: 178, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
99 25 0.14
100 107 0.60
101 39 0.22
102 7 0.04
ACGTcount: A:0.30, C:0.15, G:0.35, T:0.20
Consensus pattern (100 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA
Found at i:3758585 original size:131 final size:131
Alignment explanation
Indices: 3758364--3758672 Score: 449
Period size: 131 Copynumber: 2.3 Consensus size: 131
3758354 CCACAAAGTT
* * *
3758364 GTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGTTTAAAAGGGAAAAATAGTGCCACAGA
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGCTTTAAAAGGGAAAAAGAGTGCCACAGA
** *
3758429 GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAA-AAGAAGGTGCCACGGAGT
66 GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTAAAAGAACAAGGTGCCACGGAGT
3758493 C
131 C
* *
3758494 GTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGG-CTTTAAAAGGGAAAAAGAGTGCCACAG
*
3758559 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGA
65 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTAAAA-GAACAAGGTGCCACGGA
*
3758624 GTT
129 GTC
*
3758627 GTGGACTTTAAAAGGGAAAAAGAGTGCCACTGGAGTTGTGGGCTTT
1 GTGGAC-TTAAAA-GGAACAAG-GTGCCAC-GGAGTTGT-GGCTTT
3758673 GAAATGAAGG
Statistics
Matches: 159, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
130 35 0.22
131 68 0.43
133 23 0.14
134 6 0.04
135 7 0.04
136 7 0.04
137 11 0.07
138 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (131 bp):
GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGCTTTAAAAGGGAAAAAGAGTGCCACAGA
GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTAAAAGAACAAGGTGCCACGGAGT
C
Found at i:3766568 original size:19 final size:18
Alignment explanation
Indices: 3766540--3766637 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
3766530 TAGCTTACAT
*
3766540 TGTATTGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3766559 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
3766572 TGTATCAATACAACACTTA
1 TGTATCGATACAA-ACTTA
3766591 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3766604 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
3766624 TGTATCGATACAAA
1 TGTATCGATACAAA
3766638 TCGTTGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 22 0.35
20 13 0.21
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3766576 original size:32 final size:32
Alignment explanation
Indices: 3766535--3766635 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
3766525 GGCAGTAGCT
* *
3766535 TACATTGTATTGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
3766567 TACATTGTATCAATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
3766599 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
3766632 TACA
1 TACA
3766636 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:3766577 original size:13 final size:13
Alignment explanation
Indices: 3766559--3766615 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
3766549 ACAAAACTTA
3766559 TGTATCGATACAT
1 TGTATCGATACAT
*
3766572 TGTATCAATACAACACTT
1 TGTATCGAT---ACA--T
3766590 ATGTATCGATACAT
1 -TGTATCGATACAT
3766604 TGTATCGATACA
1 TGTATCGATACA
3766616 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3768232 original size:20 final size:20
Alignment explanation
Indices: 3768207--3768328 Score: 91
Period size: 20 Copynumber: 5.5 Consensus size: 20
3768197 TTTTAACTAG
3768207 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
3768227 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
3768258 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
3768278 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
3768298 ATCTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
3768318 ATGTTTCGATA
1 ATGTATCGATA
3768329 TATCTGGGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
20 56 0.70
21 1 0.01
22 1 0.01
23 2 0.03
28 2 0.03
29 1 0.01
30 2 0.03
31 15 0.19
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:3769179 original size:245 final size:245
Alignment explanation
Indices: 3768749--3769234 Score: 963
Period size: 245 Copynumber: 2.0 Consensus size: 245
3768739 AAATAAGCTT
3768749 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT
1 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT
3768814 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA
66 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA
3768879 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG
131 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG
3768944 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGATCCTC
196 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGATCCTC
3768994 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT
1 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT
*
3769059 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTGCCCCTCTTTGGCCGTTGCTGAGTATCA
66 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA
3769124 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG
131 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG
3769189 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGAT
196 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGAT
3769235 GCGCCGTATG
Statistics
Matches: 240, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 240 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (245 bp):
AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT
AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA
GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG
GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGATCCTC
Found at i:3769589 original size:28 final size:28
Alignment explanation
Indices: 3769470--3770066 Score: 780
Period size: 28 Copynumber: 20.9 Consensus size: 28
3769460 TTTTTTAAAA
*
3769470 GGTGCCACTAACTTGTGTGGGCTTTGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
* * *
3769501 AGTTGCCATTGACTCGTGTGGGCTTTGAAAAAA
1 -GGTGCCACTGACT--TGTGGGCTTTG--AAAG
* * *
3769534 GTTACCACTGGCTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
3769563 AGTGCCACTGACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
3769591 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
3769619 GGTGCCACTAACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3769647 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3769675 GGTGCCACTGACTTGTAGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3769703 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
3769731 GGTGCCACTAACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
3769759 GATGCCACTTACTGGTGGGCTTTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTT-GAAAG
*
3769788 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3769816 GGTGCCACTGACTTGTGGGCTTTGAAAAA
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
3769845 AGTGCCATTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
** *
3769873 GGTGTTACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
3769901 GATGCCACTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3769929 GGTGCCACTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3769957 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3769985 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
3770013 GGTGCCACTGATTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3770041 GGTGCCATTGACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
3770067 GAGATGAGCG
Statistics
Matches: 505, Mismatches: 56, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
28 386 0.76
29 72 0.14
30 11 0.02
31 1 0.00
32 31 0.06
33 4 0.01
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:3771165 original size:8 final size:8
Alignment explanation
Indices: 3771149--3771218 Score: 65
Period size: 8 Copynumber: 8.8 Consensus size: 8
3771139 GACCCCTTTC
3771149 TGTTTTTT
1 TGTTTTTT
*
3771157 TG-TTATT
1 TGTTTTTT
*
3771164 T-TTTCTT
1 TGTTTTTT
*
3771171 GGTTTTTT
1 TGTTTTTT
3771179 TGTTTTTT
1 TGTTTTTT
3771187 TGTTTTTTT
1 TG-TTTTTT
3771196 TGTTTTTT
1 TGTTTTTT
3771204 CATGTTTTTT
1 --TGTTTTTT
3771214 T-TTTT
1 TGTTTT
3771219 GGTATAAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
7 13 0.25
8 23 0.44
9 8 0.15
10 8 0.15
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.83
Consensus pattern (8 bp):
TGTTTTTT
Found at i:3771185 original size:9 final size:9
Alignment explanation
Indices: 3771152--3771215 Score: 67
Period size: 10 Copynumber: 6.9 Consensus size: 9
3771142 CCCTTTCTGT
*
3771152 TTTTTTGTTA
1 TTTTTT-TTG
3771162 TTTTTTCTTG
1 TTTTTT-TTG
*
3771172 GTTTTTTTG
1 TTTTTTTTG
3771181 -TTTTTTTG
1 TTTTTTTTG
3771189 TTTTTTTTG
1 TTTTTTTTG
*
3771198 TTTTTTCATG
1 TTTTTT-TTG
3771208 TTTTTTTT
1 TTTTTTTT
3771216 TTTGGTATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
8 8 0.17
9 18 0.38
10 21 0.45
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Done.