Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 37 of 325
Found at i:9070154 original size:54 final size:54
Alignment explanation
Indices: 9070072--9070174 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
9070062 CGAAGCACCG
* *
9070072 CCATGATGCTTGTTTAAAGCAACACAAGCAATTTGAAGTTGGAGATTTTATCCA
1 CCATGATGCTCGTTTAAAGCAACACAAGCAATTTAAAGTTGGAGATTTTATCCA
9070126 CCATGATGCTCGTTTAAAGCAACACAAGCAATTTAAAGTTGGAGATTTT
1 CCATGATGCTCGTTTAAAGCAACACAAGCAATTTAAAGTTGGAGATTTT
9070175 GTCCTGTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (54 bp):
CCATGATGCTCGTTTAAAGCAACACAAGCAATTTAAAGTTGGAGATTTTATCCA
Found at i:9080370 original size:27 final size:27
Alignment explanation
Indices: 9080335--9080446 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
9080325 AGCATGACTG
* *
9080335 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
9080361 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
9080389 CCAGA-ACAGAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
9080416 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
9080443 CCAG
1 CCAG
9080447 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.07
27 53 0.72
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:9080426 original size:54 final size:54
Alignment explanation
Indices: 9080335--9080446 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
9080325 AGCATGACTG
* * *
9080335 CCAGAACAGATAATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
9080389 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
9080443 CCAG
1 CCAG
9080447 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:9088217 original size:27 final size:26
Alignment explanation
Indices: 9088182--9088293 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
9088172 AGCATGGCTG
* *
9088182 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
9088208 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
9088236 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
9088263 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
9088290 CCAG
1 CCAG
9088294 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:9088274 original size:54 final size:54
Alignment explanation
Indices: 9088182--9088293 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
9088172 AGCATGGCTG
* *
9088182 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
9088236 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
9088290 CCAG
1 CCAG
9088294 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:9089552 original size:22 final size:22
Alignment explanation
Indices: 9089525--9089567 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9089515 ACAGAAGAAG
* *
9089525 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
9089547 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
9089568 GAAGAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:9093584 original size:29 final size:28
Alignment explanation
Indices: 9093547--9093623 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
9093537 CGGTAATTAT
9093547 AGTTATCAGGTACTTTGTACTAGTGTTAC
1 AGTTATCAGGTACTTTGTACT-GTGTTAC
* * * *
9093576 AGTTTTCAGGCACTTTGTGCCTGTGTTAT
1 AGTTATCAGGTACTTTGT-ACTGTGTTAC
*
9093605 A-TTATCAGGTACTATGTAC
1 AGTTATCAGGTACTTTGTAC
9093624 CGGTGGTGGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.03
28 13 0.33
29 23 0.59
30 2 0.05
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.42
Consensus pattern (28 bp):
AGTTATCAGGTACTTTGTACTGTGTTAC
Found at i:9094698 original size:39 final size:39
Alignment explanation
Indices: 9094644--9094727 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
9094634 ATTTATAATT
*
9094644 TCTCTAAACTTTTGGGTCAATTTGTAAATTAGAAAAATA
1 TCTCTAAACTTTTGGGTCAAGTTGTAAATTAGAAAAATA
9094683 TCTCTAAACTTTTGGGTCAAGTTGTAAATTAGAAAAATA
1 TCTCTAAACTTTTGGGTCAAGTTGTAAATTAGAAAAATA
9094722 TCTCTA
1 TCTCTA
9094728 GAAATTTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (39 bp):
TCTCTAAACTTTTGGGTCAAGTTGTAAATTAGAAAAATA
Found at i:9095006 original size:37 final size:35
Alignment explanation
Indices: 9094963--9095061 Score: 96
Period size: 37 Copynumber: 2.7 Consensus size: 35
9094953 CTACAATATA
9094963 AATATTAAATTTAATTTAATATTATGATAA-TCAATTT
1 AATATTAAATTTAATTTAATATTAT-ATAAGT--ATTT
** *
9095000 AATATTAAATTAATAAAATAGTATTAATATAAGTATTT
1 AATATTAAATT--TAATTTAATATT-ATATAAGTATTT
9095038 AAT-TT-AATTTAATTTAATATTATA
1 AATATTAAATTTAATTTAATATTATA
9095062 CTATTAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
33 3 0.06
34 9 0.17
36 4 0.08
37 13 0.25
38 7 0.13
39 13 0.25
40 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (35 bp):
AATATTAAATTTAATTTAATATTATATAAGTATTT
Found at i:9095013 original size:20 final size:19
Alignment explanation
Indices: 9094963--9095059 Score: 59
Period size: 19 Copynumber: 5.4 Consensus size: 19
9094953 CTACAATATA
9094963 AATATTAAATT--TAATTT
1 AATATTAAATTAATAATTT
*
9094980 AATATTATGA-TAATCAATTT
1 AATATTA-AATTAAT-AATTT
**
9095000 AATATTAAATTAATAAAAT
1 AATATTAAATTAATAATTT
*
9095019 AGTATT-AATATAAGT-ATTT
1 AATATTAAAT-TAA-TAATTT
9095038 AAT-TT-AATT--TAATTT
1 AATATTAAATTAATAATTT
9095053 AATATTA
1 AATATTA
9095060 TACTATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 1 0.02
15 7 0.11
16 2 0.03
17 9 0.15
18 9 0.15
19 17 0.27
20 17 0.27
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:9095067 original size:42 final size:42
Alignment explanation
Indices: 9094995--9095077 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
9094985 TATGATAATC
* *
9094995 AATTTAATATTAAATTAATAAAATAGTATTAATATAAGTATTT
1 AATTTAATATTAAATTAATAAAATACTATTAAAATAA-TATTT
* **
9095038 AATTTAAT-TTAATTTAATATTATACTATTAAAATAATATT
1 AATTTAATATTAAATTAATAAAATACTATTAAAATAATATT
9095078 ATTTTTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 4 0.11
42 23 0.66
43 8 0.23
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (42 bp):
AATTTAATATTAAATTAATAAAATACTATTAAAATAATATTT
Found at i:9098772 original size:31 final size:31
Alignment explanation
Indices: 9098729--9098792 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
9098719 CTTTTTCATA
9098729 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
9098760 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
9098791 TT
1 TT
9098793 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:9099033 original size:25 final size:26
Alignment explanation
Indices: 9099005--9099080 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 26
9098995 GCCTAGCCTC
9099005 TTTTAATAACTGGGGCA-AAGCCCTT
1 TTTTAATAACTGGGGCATAAGCCCTT
9099030 TTTTAATAACTGGGGCATAAGCCC--
1 TTTTAATAACTGGGGCATAAGCCCTT
*
9099054 -TTTAATAACTAGGGCATAAGCCCTT
1 TTTTAATAACTGGGGCATAAGCCCTT
9099079 TT
1 TT
9099081 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
23 22 0.48
25 17 0.37
26 7 0.15
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (26 bp):
TTTTAATAACTGGGGCATAAGCCCTT
Found at i:9099152 original size:9 final size:9
Alignment explanation
Indices: 9099138--9099194 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
9099128 ATCTCGTGTG
9099138 CATATCATA
1 CATATCATA
*
9099147 CATATCATGTG
1 CATATCA--TA
9099158 CATATCATA
1 CATATCATA
* *
9099167 CATGTCATGTG
1 CATATCA--TA
9099178 CATATCATA
1 CATATCATA
9099187 CATATCAT
1 CATATCAT
9099195 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:9099157 original size:20 final size:20
Alignment explanation
Indices: 9099134--9099196 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
9099124 GAACATCTCG
9099134 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
9099154 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
9099174 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
9099194 TGT
1 TGT
9099197 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:9099261 original size:25 final size:25
Alignment explanation
Indices: 9099233--9099280 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9099223 ATATATAAAC
* * *
9099233 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
9099258 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
9099281 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:9117758 original size:16 final size:16
Alignment explanation
Indices: 9117737--9117787 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
9117727 ATTACAAGAT
9117737 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
9117753 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
9117772 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
9117788 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:9117770 original size:19 final size:21
Alignment explanation
Indices: 9117735--9117777 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
9117725 ACATTACAAG
9117735 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
9117756 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
9117775 ATC
1 ATC
9117778 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:9118370 original size:86 final size:86
Alignment explanation
Indices: 9118271--9118457 Score: 356
Period size: 86 Copynumber: 2.2 Consensus size: 86
9118261 ATGCCAAATC
*
9118271 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTACTATGTATCTGCTCTCTGTCGA
1 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTACTATGTATCTGCTCTCAGTCGA
9118336 AATGGAGATGCCAGATCTGTT
66 AATGGAGATGCCAGATCTGTT
*
9118357 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCGA
1 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTACTATGTATCTGCTCTCAGTCGA
9118422 AATGGAGATGCCAGATCTGTT
66 AATGGAGATGCCAGATCTGTT
9118443 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
9118458 TGGTGTGAGA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 99 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTACTATGTATCTGCTCTCAGTCGA
AATGGAGATGCCAGATCTGTT
Found at i:9118399 original size:45 final size:44
Alignment explanation
Indices: 9118271--9118399 Score: 108
Period size: 45 Copynumber: 3.0 Consensus size: 44
9118261 ATGCCAAATC
9118271 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATC--T
1 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTGT
* * ** * * **
9118313 A-CTATGTATCTGCTCTCTGTCGAA--AT-GGAGATGCCAGATCTGTT
1 ATCT-TGGATCTGCT-TCAGTAAAATCATATGA-AGGTTAGATCTG-T
9118357 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTG
1 ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTG
9118400 CTATGTATCT
Statistics
Matches: 61, Mismatches: 16, Indels: 17
0.65 0.17 0.18
Matches are distributed among these distances:
40 2 0.03
41 11 0.18
42 10 0.16
43 12 0.20
44 11 0.18
45 13 0.21
46 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (44 bp):
ATCTTGGATCTGCTTCAGTAAAATCATATGAAGGTTAGATCTGT
Found at i:9118412 original size:42 final size:43
Alignment explanation
Indices: 9118278--9118418 Score: 121
Period size: 43 Copynumber: 3.3 Consensus size: 43
9118268 ATCATCTTGG
*
9118278 ATCTGCT-TCAGTAAAATCATATGAAGGTTAGATCTACTATGT
1 ATCTGCTCTCAGTAAAATCATATGAAGGTTAGATCTGCTATGT
* ** * * ** * *
9118320 ATCTGCTCTCTGTCGAA--AT-GGAGATGCCAGATCTGTTATCTTGG
1 ATCTGCTCTCAGTAAAATCATATGA-AGGTTAGATCTGCTA---TGT
9118364 ATCTGCT-TCAGTAAAATCATATGAAGGTTAGATCTGCTATGT
1 ATCTGCTCTCAGTAAAATCATATGAAGGTTAGATCTGCTATGT
9118406 ATCTGCTCTCAGT
1 ATCTGCTCTCAGT
9118419 CGAAATGGAG
Statistics
Matches: 71, Mismatches: 19, Indels: 17
0.66 0.18 0.16
Matches are distributed among these distances:
40 2 0.03
41 12 0.17
42 16 0.23
43 17 0.24
44 9 0.13
45 13 0.18
46 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (43 bp):
ATCTGCTCTCAGTAAAATCATATGAAGGTTAGATCTGCTATGT
Found at i:9118440 original size:41 final size:41
Alignment explanation
Indices: 9118307--9118440 Score: 110
Period size: 41 Copynumber: 3.2 Consensus size: 41
9118297 TATGAAGGTT
* *
9118307 AGATCTACTATGTATCTGCTCTCTGTCGAAATGGAGATGCC
1 AGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCC
* * * ** * **
9118348 AGATCTGTTATCTTGGATCTGCT-TCAGT-AAAATCATATGAAGGTT
1 AGATCTGCTA---TGTATCTGCTCTCAGTCGAAAT-GGA-G-ATGCC
9118393 AGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCC
1 AGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCC
9118434 AGATCTG
1 AGATCTG
9118441 TTATCTTGGA
Statistics
Matches: 67, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
41 17 0.25
42 14 0.21
43 11 0.16
44 14 0.21
45 11 0.16
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (41 bp):
AGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCC
Found at i:9118755 original size:84 final size:84
Alignment explanation
Indices: 9118584--9119195 Score: 929
Period size: 84 Copynumber: 7.3 Consensus size: 84
9118574 ATCATCTTGG
* **
9118584 ACCCTACTGCTTAAGGGG-TTAAGGTGCATCGTCTTCGATCTGCTCCGTTACTGCTTA-GG-GAT
1 ACCCTACTGCTT-AGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
*
9118646 AAGATCTACAAATTTAACCTGTT
62 AAGATCTGCAAATTTAACCTGTT
* * * *
9118669 ACCCTACTACTTATGGGATTAAGGCGGGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
9118734 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
*
9118753 ACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTCGATCTGCTCCACTACTACTTAGGGAGATA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATA
*
9118818 AGATCTGC-----GAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
*
9118835 ACCCTACTGCTTAGGGGATTAAGACGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
9118900 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
9118919 ACCCTAAC-GCTTAGGGGATTAAGGCGAGTC-TCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 ACCCT-ACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
9118982 ATTTGCAAATTTAACCTGTT
65 ATCTGCAAATTTAACCTGTT
9119002 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
9119067 TCTACAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* *
9119086 ACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
9119151 TCTACAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
*
9119170 ACCTTACTGCTTAGGGGATTAAGGCG
1 ACCCTACTGCTTAGGGGATTAAGGCG
9119196 CTGAATTTTG
Statistics
Matches: 488, Mismatches: 25, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
79 38 0.08
81 1 0.00
82 63 0.13
83 81 0.17
84 247 0.51
85 21 0.04
87 37 0.08
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (84 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTT
Found at i:9119163 original size:251 final size:249
Alignment explanation
Indices: 9118584--9119195 Score: 932
Period size: 251 Copynumber: 2.4 Consensus size: 249
9118574 ATCATCTTGG
* **
9118584 ACCCTACTGCTTAAGGGG-TTAAGGTGCATCGTCTTCGATCTGCTCCGTTACTGCTTA-GG-GAT
1 ACCCTACTGCTT-AGGGGATTAA-G-GCA-AGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
* * *
9118646 AAGATCTACAAATTTAACCTGTTACCCTACTACTTATGGGATTAAGGCGGGTCTTCGATCTGCTC
62 AAGATCTACAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTC
*
9118711 TACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAG
127 CACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAG
*
9118776 GCGAGTCATCGTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCGAACCTGTT
192 GCGAGTCATC-TCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACGAACCTGTT
* *
9118835 ACCCTACTGCTTAGGGGATTAAGACGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
9118900 TCTGCAAATTTAACCTGTTACCCTAAC-GCTTAGGGGATTAAGGCGAGTC-TCGATCTGCTCCAC
66 TCTACAAATTTAACCTGTTACCCT-ACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCAC
*
9118963 TACTGCTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
130 TACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
* *
9119028 AGTC-T-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTAACCTGTT
195 AGTCATCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAC-----GAACCTGTT
*
9119086 ACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
9119151 TCTACAAATTTAACCTGTTACCTTACTGCTTAGGGGATTAAGGCG
66 TCTACAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
9119196 CTGAATTTTG
Statistics
Matches: 332, Mismatches: 19, Indels: 20
0.89 0.05 0.05
Matches are distributed among these distances:
246 37 0.11
248 26 0.08
249 84 0.25
250 57 0.17
251 128 0.39
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (249 bp):
ACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTACAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACT
ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
GTCATCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACGAACCTGTT
Found at i:9120149 original size:1 final size:1
Alignment explanation
Indices: 9120143--9120213 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
9120133 GGCCTCTCCA
* * * * * * * * * *
9120143 TTTTTTTTCTTTTTTCTTTTTATTTTTTTCTCTTTTTCTCTTTTTCTTTTCTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9120208 TTTTTT
1 TTTTTT
9120214 GAAATAGAAG
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:9120157 original size:8 final size:8
Alignment explanation
Indices: 9120144--9120213 Score: 65
Period size: 8 Copynumber: 8.6 Consensus size: 8
9120134 GCCTCTCCAT
9120144 TTTTTTTC
1 TTTTTTTC
9120152 -TTTTTTC
1 TTTTTTTC
9120159 TTTTTATT-
1 TTTTT-TTC
*
9120167 TTTTTCTC
1 TTTTTTTC
*
9120175 TTTTTCTCTT
1 TTTTT-T-TC
9120185 TTTCTTTTC
1 TTT-TTTTC
9120194 TTTTTTTC
1 TTTTTTTC
9120202 TTTTTTT-
1 TTTTTTTC
9120209 TTTTT
1 TTTTT
9120214 GAAATAGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
7 13 0.25
8 26 0.50
9 6 0.12
10 5 0.10
11 2 0.04
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:9120170 original size:21 final size:20
Alignment explanation
Indices: 9120143--9120213 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 20
9120133 GGCCTCTCCA
9120143 TTTTTTTTCTTTTTTCTTTT
1 TTTTTTTTCTTTTTTCTTTT
*
9120163 TATTTTTTTCTCTTTTTCTCTT
1 T-TTTTTTTCT-TTTTTCTTTT
*
9120185 TTTCTTTTCTTTTTTTCTTTT
1 TTTTTTTTC-TTTTTTCTTTT
9120206 TTTTTTTT
1 TTTTTTTT
9120214 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
20 1 0.02
21 32 0.73
22 11 0.25
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTCTTTT
Found at i:9125292 original size:24 final size:24
Alignment explanation
Indices: 9125265--9125310 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
9125255 ATATATATCA
9125265 TAAA-ATAGCACATAAAAGAAATAT
1 TAAACATAGCACATAAAA-AAATAT
*
9125289 TAAACATAGCATATAAAAAAAT
1 TAAACATAGCACATAAAAAAAT
9125311 GAAACTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.22
Consensus pattern (24 bp):
TAAACATAGCACATAAAAAAATAT
Found at i:9125829 original size:22 final size:21
Alignment explanation
Indices: 9125799--9125883 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 21
9125789 TACAAATTAA
9125799 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
9125821 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
9125842 ATCT--AAGATTTCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
9125861 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
9125880 ATCT
1 ATCT
9125884 AAGATTGCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
19 36 0.62
21 10 0.17
22 12 0.21
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:9125851 original size:19 final size:19
Alignment explanation
Indices: 9125816--9125896 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
9125806 AGATTACAAG
9125816 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
9125837 ATCATATCTAAGATTTCAT
1 ATCATATCTAAGATTGCAT
9125856 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9125875 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
9125894 ATC
1 ATC
9125897 CTTAAAGATT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 49 0.84
20 1 0.02
21 8 0.14
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:9129803 original size:21 final size:21
Alignment explanation
Indices: 9129778--9129825 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9129768 GGCTTAATGC
9129778 ATCAGCGACCACATTAATTTT
1 ATCAGCGACCACATTAATTTT
* **
9129799 ATCAGCTACCATGTTAATTTT
1 ATCAGCGACCACATTAATTTT
9129820 ACTCAG
1 A-TCAG
9129826 ATGATAGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCAGCGACCACATTAATTTT
Found at i:9131473 original size:21 final size:22
Alignment explanation
Indices: 9131447--9131488 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9131437 CACTTAATAC
*
9131447 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGCCCATGTGAG
9131468 AGGGGCAACACGCCCATGTGA
1 AGGGGCAACACGCCCATGTGA
9131489 CCATTTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.29, G:0.38, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGAG
Found at i:9140158 original size:49 final size:49
Alignment explanation
Indices: 9140096--9140211 Score: 133
Period size: 49 Copynumber: 2.4 Consensus size: 49
9140086 ACCCATAACA
* * * * * *
9140096 CCAAGCTAATTAGCAATTAATAAACCCTACGAGAAACCCACCACATACG
1 CCAATCTAGTTAGCAACTAACAAACCCTACCAGAAACCCAACACATACG
* ** * *
9140145 CCAATCTGGTTAGCAACTAACATGCCCTACCAGACACCCAACTCATACG
1 CCAATCTAGTTAGCAACTAACAAACCCTACCAGAAACCCAACACATACG
9140194 CCAATCTAGTTAGCAACT
1 CCAATCTAGTTAGCAACT
9140212 TGTAACACCC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.37, C:0.33, G:0.11, T:0.19
Consensus pattern (49 bp):
CCAATCTAGTTAGCAACTAACAAACCCTACCAGAAACCCAACACATACG
Found at i:9143809 original size:24 final size:24
Alignment explanation
Indices: 9143784--9143834 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
9143774 TGAATTTGAA
9143784 TTATTATATTTATATTTATAAAAAT
1 TTATTATATTTATATTT-TAAAAAT
* *
9143809 TTATTTTTTTTATATTTT-AAAAT
1 TTATTATATTTATATTTTAAAAAT
9143832 TTA
1 TTA
9143835 GGTCCAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
24 1 0.04
25 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTATATTTATATTTTAAAAAT
Found at i:9145034 original size:12 final size:13
Alignment explanation
Indices: 9145017--9145045 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9145007 AAAAGATAGA
9145017 ATAATTA-TTTTT
1 ATAATTACTTTTT
9145029 ATAATTACTTTTT
1 ATAATTACTTTTT
9145042 ATAA
1 ATAA
9145046 ATTTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
ATAATTACTTTTT
Found at i:9145063 original size:16 final size:16
Alignment explanation
Indices: 9145042--9145088 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
9145032 ATTACTTTTT
9145042 ATAAATTTTAAATTAA
1 ATAAATTTTAAATTAA
**
9145058 ATAAA-TTTAATATTTT
1 ATAAATTTTAA-ATTAA
9145074 ATAAATTTTAAATTA
1 ATAAATTTTAAATTA
9145089 TTTATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 5 0.19
16 16 0.62
17 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAAATTTTAAATTAA
Found at i:9145102 original size:18 final size:17
Alignment explanation
Indices: 9145058--9145104 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
9145048 TTTAAATTAA
*
9145058 ATAAATTTAA-TATTTT
1 ATAAATTAAATTATTTT
9145074 ATAAATTTTAAATTATTTAT
1 ATAAA--TTAAATTATTT-T
9145094 ATAAATTAAAT
1 ATAAATTAAAT
9145105 AAAATGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
18 10 0.38
19 5 0.19
20 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATAAATTAAATTATTTT
Found at i:9145178 original size:21 final size:21
Alignment explanation
Indices: 9145154--9145194 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9145144 TATTAAACTC
* *
9145154 ATAATTTTTAAATAAAATATA
1 ATAATTATCAAATAAAATATA
*
9145175 ATAATTATCAATTAAAATAT
1 ATAATTATCAAATAAAATAT
9145195 TTTAATTCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATTATCAAATAAAATATA
Found at i:9149901 original size:26 final size:26
Alignment explanation
Indices: 9149872--9149979 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9149862 TGGTACAAAT
9149872 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9149898 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9149924 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9149950 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9149976 TGAT
1 TGAT
9149980 GGGCATTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9151646 original size:27 final size:26
Alignment explanation
Indices: 9151606--9151746 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 26
9151596 AGGAAGCGTC
*
9151606 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
9151633 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
9151660 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* * *
9151687 CTGATGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
9151714 CTGGTGGCTCTGCCACAATATTTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
9151741 CTGGTG
1 CTGGTG
9151747 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.09
27 86 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:9151688 original size:54 final size:53
Alignment explanation
Indices: 9151606--9151746 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
9151596 AGGAAGCGTC
*
9151606 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
*
9151660 CTGGTGGCTATGCCACGATTATCTGATCTGATGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * *
9151714 CTGGTGGCTCTGCCACAATATTTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
9151747 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 6 0.08
54 73 0.92
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:9162537 original size:25 final size:24
Alignment explanation
Indices: 9162501--9162551 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
9162491 AAAAAACCGA
*
9162501 AAAACAAACAAATAA-ACAAAAAT
1 AAAACAAACAAATAATAAAAAAAT
9162524 AAAACAAAAGCAAATAATAAAAAAAT
1 AAAAC-AAA-CAAATAATAAAAAAAT
9162550 AA
1 AA
9162552 CATAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 3 0.12
25 7 0.29
26 9 0.38
ACGTcount: A:0.78, C:0.10, G:0.02, T:0.10
Consensus pattern (24 bp):
AAAACAAACAAATAATAAAAAAAT
Found at i:9165406 original size:19 final size:19
Alignment explanation
Indices: 9165382--9165442 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
9165372 AATCTTTAAG
9165382 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9165401 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
9165420 GATAT--AGTCTTAGATAT
1 GATATGCAATCTTAGATAT
9165437 GATATG
1 GATATG
9165443 ATATGATATG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 16 0.40
19 24 0.60
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9169319 original size:80 final size:80
Alignment explanation
Indices: 9169235--9169383 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
9169225 TATGGTAACC
* * * *
9169235 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
9169299 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
9169315 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
9169380 CCGG
66 CCGG
9169384 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:9169325 original size:40 final size:38
Alignment explanation
Indices: 9169276--9169383 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
9169266 ATCACGATTT
*
9169276 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
9169316 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
9169356 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
9169384 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:9177397 original size:80 final size:80
Alignment explanation
Indices: 9177313--9177461 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
9177303 TATGGTAACC
* * * *
9177313 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
9177377 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
9177393 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
9177458 CCGG
66 CCGG
9177462 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:9177403 original size:40 final size:38
Alignment explanation
Indices: 9177354--9177461 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
9177344 ATCACGATTT
*
9177354 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
9177394 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
9177434 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
9177462 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:9186837 original size:27 final size:28
Alignment explanation
Indices: 9186780--9186849 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
9186770 AAATTTGTAC
**
9186780 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
9186808 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
9186835 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
9186850 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:9186858 original size:27 final size:27
Alignment explanation
Indices: 9186780--9186861 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
9186770 AAATTTGTAC
* *
9186780 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
9186808 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
9186835 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
9186862 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:9187882 original size:21 final size:21
Alignment explanation
Indices: 9187867--9187908 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9187857 GTAGAAAATG
9187867 TAAGTTTGGTGTTAGATAAAC
1 TAAGTTTGGTGTTAGATAAAC
9187888 TAAGTTTGGTGTTAGATAAAC
1 TAAGTTTGGTGTTAGATAAAC
9187909 ATCTACTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (21 bp):
TAAGTTTGGTGTTAGATAAAC
Found at i:9193361 original size:26 final size:26
Alignment explanation
Indices: 9193328--9193439 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
9193318 AGCATGGCTG
* *
9193328 CCAGATACAGA-AATGTGACAGAGTCA
1 CCAGA-ACAGATAATGTGGCAGAGCCA
* *
9193354 CCAGATACAGATATTGTGGCAGTGCCA
1 CCAGA-ACAGATAATGTGGCAGAGCCA
*
9193381 CCAGAACAGATATATGTGGCAGGGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
9193408 CCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
9193436 CCAG
1 CCAG
9193440 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 19 0.26
27 40 0.54
28 15 0.20
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:9193591 original size:28 final size:28
Alignment explanation
Indices: 9193547--9193608 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
9193537 ATTAACCCTA
*
9193547 GGGTATAAAGGTCATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
*
9193575 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
9193603 GGGTAT
1 GGGTAT
9193609 TCTAGTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCATACATAG
Found at i:9193875 original size:16 final size:15
Alignment explanation
Indices: 9193854--9193885 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
9193844 CCAAAATACC
9193854 GGCTTTTCGGCATTTT
1 GGCTTTTCGGC-TTTT
9193870 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
9193885 G
1 G
9193886 CCGATCTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:9200172 original size:26 final size:28
Alignment explanation
Indices: 9200136--9200197 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 28
9200126 AGAGTCTAGA
9200136 TTTTTTTTAAAAACCGA-TTTTT-TTCC
1 TTTTTTTTAAAAACCGATTTTTTATTCC
**
9200162 TTTTTTTTAAAAATTGATTTTTTATTCC
1 TTTTTTTTAAAAACCGATTTTTTATTCC
9200190 TTTTTTTT
1 TTTTTTTT
9200198 TGAAAATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 15 0.47
27 5 0.16
28 12 0.38
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTTTTAAAAACCGATTTTTTATTCC
Found at i:9200184 original size:28 final size:26
Alignment explanation
Indices: 9200136--9200197 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
9200126 AGAGTCTAGA
*
9200136 TTTTTTTTAAAAACCGATTTTTTTCC
1 TTTTTTTTAAAAACCGATTTTATTCC
**
9200162 TTTTTTTTAAAAATTGATTTTTTATTCC
1 TTTTTTTTAAAAACCGA--TTTTATTCC
9200190 TTTTTTTT
1 TTTTTTTT
9200198 TGAAAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.48
28 16 0.52
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTTTTTTAAAAACCGATTTTATTCC
Found at i:9201259 original size:27 final size:27
Alignment explanation
Indices: 9201212--9201300 Score: 126
Period size: 27 Copynumber: 3.2 Consensus size: 27
9201202 GTGACAGAGT
9201212 CACCAGATACAGATATTTGTGGCAGTGC
1 CACCAGA-ACAGATATTTGTGGCAGTGC
* *
9201240 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
9201267 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
9201295 CACCAG
1 CACCAG
9201301 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
27 31 0.56
28 24 0.44
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:9201451 original size:27 final size:27
Alignment explanation
Indices: 9201408--9201464 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
9201398 TTAACCCTAG
*
9201408 GGGTATAAAGGTCATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
*
9201435 GGGTATAATGGTAATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
9201462 GGG
1 GGG
9201465 GTATTCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (27 bp):
GGGTATAAAGGTAATTTTGCATACATA
Found at i:9224949 original size:3 final size:3
Alignment explanation
Indices: 9224943--9224995 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
9224933 TCGTGTGATG
9224943 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9224991 ATA AT
1 ATA AT
9224996 GCAATGTCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9225557 original size:48 final size:48
Alignment explanation
Indices: 9225421--9225632 Score: 145
Period size: 48 Copynumber: 4.5 Consensus size: 48
9225411 ATGAAATCCC
* * * * *
9225421 GTGTAAGAACATGTCTAGGACATGGCGTCGGCATCCGAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACA-CCGATATGAGAGCCA
* * ** * ** *
9225470 GTGTAGGACCATGTCTGGGACATGGCAT-TAGCATTGATATGTGTTCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CACCGATATGAGAGCCA
9225518 GTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGAG-GCTTC-
1 GTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGAGAGC--CA
* * * * * *
9225566 GTATAAGACCATATCTAGGATATGGCATCG--A--GATGTG-GATCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGAGAGCCA
*
9225609 -TGTAAGACCATGTCTGGGTCATGG
1 GTGTAAGACCATGTCTGGGACATGG
9225633 ATTTGGTACT
Statistics
Matches: 126, Mismatches: 31, Indels: 19
0.72 0.18 0.11
Matches are distributed among these distances:
42 20 0.16
43 1 0.01
44 6 0.05
46 1 0.01
47 1 0.01
48 70 0.56
49 27 0.21
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGAGAGCCA
Found at i:9229224 original size:41 final size:41
Alignment explanation
Indices: 9229164--9229242 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
9229154 GATTTAAAGT
* *
9229164 TACCAAAGTGTAAACAGGGGCACGTATGTGCTATTCAGGGG
1 TACCAAAGTATAAACAGGGGCACGTATGTGCAATTCAGGGG
* **
9229205 TACCAAAGTATAAATAGGGGCTTGTATGTGCAATTCAG
1 TACCAAAGTATAAACAGGGGCACGTATGTGCAATTCAG
9229243 AGTATAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (41 bp):
TACCAAAGTATAAACAGGGGCACGTATGTGCAATTCAGGGG
Found at i:9231224 original size:27 final size:29
Alignment explanation
Indices: 9231194--9231249 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
9231184 GGTACTTAAA
9231194 CTATAC-CATT-TTTTT-TCAATTTGATAC
1 CTATACACATTATTTTTCTCAA-TTGATAC
*
9231221 CTATACATATTATTTTTCTCAATTGATAC
1 CTATACACATTATTTTTCTCAATTGATAC
9231250 TTAAGCTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 3 0.12
29 12 0.48
30 4 0.16
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.50
Consensus pattern (29 bp):
CTATACACATTATTTTTCTCAATTGATAC
Found at i:9231429 original size:4 final size:4
Alignment explanation
Indices: 9231422--9231464 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
9231412 ATATACATAT
9231422 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
9231465 TGTACTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:9235065 original size:21 final size:22
Alignment explanation
Indices: 9235031--9235086 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
9235021 ATAATAACTC
* *
9235031 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
9235051 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
9235073 AAAT-AATACTAAAA
1 AAATAAATATTAAAA
9235087 TAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:9235124 original size:35 final size:33
Alignment explanation
Indices: 9235050--9235124 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
9235040 TAAAAACATA
* * *
9235050 AAAATAAATATTAAAACAAATAAAAATAATACT
1 AAAATAATTCTTAAAACAAATAAAAATAATAAT
9235083 AAAATAATTCTTAAAAC-AATACACAAATTAATAAT
1 AAAATAATTCTTAAAACAAATA-A-AAA-TAATAAT
*
9235118 ATAATAA
1 AAAATAA
9235125 AAAATAGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 4 0.11
33 16 0.46
34 3 0.09
35 12 0.34
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (33 bp):
AAAATAATTCTTAAAACAAATAAAAATAATAAT
Found at i:9235827 original size:2 final size:2
Alignment explanation
Indices: 9235820--9235866 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
9235810 TAAAAAGTTA
9235820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9235862 GT AT A
1 AT AT A
9235867 ATAAGCTCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9235911 original size:23 final size:23
Alignment explanation
Indices: 9235884--9235931 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9235874 CTATGGGTGA
9235884 TGCTAGCATTCAGGGGCTTGTGC
1 TGCTAGCATTCAGGGGCTTGTGC
9235907 TGCTAGCATTCAGGGGCTTGTGC
1 TGCTAGCATTCAGGGGCTTGTGC
9235930 TG
1 TG
9235932 GCGAGTGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.35, T:0.31
Consensus pattern (23 bp):
TGCTAGCATTCAGGGGCTTGTGC
Found at i:9237321 original size:24 final size:24
Alignment explanation
Indices: 9237294--9237342 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
9237284 CATATATTTA
*
9237294 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTAAATAAAAATTAAT
9237318 TTAAAAGTTTAAATAAAAATTAAT
1 TTAAAAGTTTAAATAAAAATTAAT
9237342 T
1 T
9237343 GCTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTTTAAATAAAAATTAAT
Found at i:9237821 original size:7 final size:7
Alignment explanation
Indices: 9237809--9237848 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
9237799 AAATCTTCAA
9237809 AAAAATT
1 AAAAATT
9237816 AAAAATT
1 AAAAATT
9237823 AAAAATT
1 AAAAATT
9237830 AAAAAATT
1 -AAAAATT
9237838 AAAAA-T
1 AAAAATT
9237844 AAAAA
1 AAAAA
9237849 AAAAAACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.19
7 19 0.59
8 7 0.22
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:9237849 original size:7 final size:7
Alignment explanation
Indices: 9237808--9237854 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
9237798 AAAATCTTCA
9237808 AAAAAATT
1 AAAAAA-T
*
9237816 AAAAATT
1 AAAAAAT
*
9237823 AAAAATT
1 AAAAAAT
9237830 AAAAAAT
1 AAAAAAT
*
9237837 TAAAAAT
1 AAAAAAT
9237844 AAAAAA-
1 AAAAAAT
9237850 AAAAA
1 AAAAA
9237855 CTTAAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 5 0.14
7 25 0.71
8 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:9237849 original size:14 final size:14
Alignment explanation
Indices: 9237809--9237849 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
9237799 AAATCTTCAA
*
9237809 AAAAATTAAAAATT
1 AAAAATAAAAAATT
9237823 AAAAATTAAAAAATT
1 AAAAA-TAAAAAATT
9237838 AAAAATAAAAAA
1 AAAAATAAAAAA
9237850 AAAAACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAAAAATT
Found at i:9237860 original size:14 final size:13
Alignment explanation
Indices: 9237807--9237860 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
9237797 AAAAATCTTC
9237807 AAAAAAATTAAAA
1 AAAAAAATTAAAA
*
9237820 ATTAAAAATTAAAA
1 A-AAAAAATTAAAA
9237834 AATTAAAAA-TAAAA
1 AA--AAAAATTAAAA
9237848 AAAAAAACTTAAA
1 AAAAAAA-TTAAA
9237861 TATATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 5 0.15
13 1 0.03
14 23 0.68
15 5 0.15
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAAATTAAAA
Found at i:9237985 original size:10 final size:9
Alignment explanation
Indices: 9237965--9238009 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
9237955 AATTTGAAAG
9237965 AAAA-AAAA
1 AAAATAAAA
9237973 AAAATAGAAA
1 AAAATA-AAA
*
9237983 AAAATATAA
1 AAAATAAAA
9237992 AAAATAAAA
1 AAAATAAAA
*
9238001 AAATTAAAA
1 AAAATAAAA
9238010 TTAAACAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 4 0.12
9 19 0.59
10 9 0.28
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.13
Consensus pattern (9 bp):
AAAATAAAA
Found at i:9240999 original size:2 final size:2
Alignment explanation
Indices: 9240992--9241016 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9240982 TGTAATACTT
9240992 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9241017 TTATGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9241224 original size:22 final size:23
Alignment explanation
Indices: 9241182--9241224 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9241172 TTTCAAAAAT
*
9241182 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
9241205 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
9241225 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:9241413 original size:85 final size:79
Alignment explanation
Indices: 9241245--9241439 Score: 264
Period size: 85 Copynumber: 2.4 Consensus size: 79
9241235 ATAATTTTTT
* * * * *
9241245 TAAAATTCATGATCTTTAGCGTCGTTTTCGTGAAAAGCGCCGCTAAAGGTCATGGTCTTGCGTTT
1 TAAAAGTCATGGTCTTTAGCGGCGTTTT--TAAAAAGCGCCGCTAAACGTCATGGTCTTGCGTTT
9241310 GTAAAAAAAGCGCCGC
64 GTAAAAAAAGCGCCGC
*
9241326 TAAAGGTCATGGTCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAAACGTCATGGTCTTTAGCAGC
1 TAAAAGTCATGGTCTTTAGCGGCGTTTTTAA-AAAGCGCCGCTAAACGTCATGGTC-TT----GC
9241391 GTTTGTAAAAAAAGCGCCGC
60 GTTTGTAAAAAAAGCGCCGC
9241411 TAAAAGTCATGGTCTTTAGCGGCGTTTTT
1 TAAAAGTCATGGTCTTTAGCGGCGTTTTT
9241440 TTAAATAAAC
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
79 2 0.02
80 23 0.23
81 26 0.26
85 50 0.50
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (79 bp):
TAAAAGTCATGGTCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAACGTCATGGTCTTGCGTTTGT
AAAAAAAGCGCCGC
Found at i:9241420 original size:43 final size:43
Alignment explanation
Indices: 9241277--9241437 Score: 235
Period size: 43 Copynumber: 3.9 Consensus size: 43
9241267 CGTTTTCGTG
9241277 AAAAGCGCCGCTAAAGGTCATGGTC-TT----GCGTTTGTAAA
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAA
*
9241315 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TTAA
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAA
* * *
9241357 GAAAGCGCCGCTAAACGTCATGGTCTTTAGCAGCGTTTGTAAA
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAA
*
9241400 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT
9241438 TTTTAAATAA
Statistics
Matches: 109, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
38 25 0.23
39 2 0.02
42 38 0.35
43 44 0.40
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAA
Found at i:9247462 original size:43 final size:43
Alignment explanation
Indices: 9247399--9247565 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
9247389 AGCTCATACA
* * * * *
9247399 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACG
* * *
9247441 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACG
* * * * *
9247484 ATGCCAATGTCCCAGACCTGGTTTTACACGTAATCATAAAACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACG
*
9247527 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
9247566 CTCGGTAATC
Statistics
Matches: 105, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 5 0.05
43 100 0.95
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAACG
Found at i:9250043 original size:18 final size:19
Alignment explanation
Indices: 9250003--9250044 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
9249993 AACTAAACAT
*
9250003 ACCAT-TTTGCATATCTAT
1 ACCATATTTGCATATCTAA
9250021 A-CATATTTGCATAT-TAA
1 ACCATATTTGCATATCTAA
9250038 ACCATAT
1 ACCATAT
9250045 CAATCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (19 bp):
ACCATATTTGCATATCTAA
Found at i:9266023 original size:5 final size:5
Alignment explanation
Indices: 9266013--9266038 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9266003 ATAAATAGTA
9266013 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
9266039 CAAGAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:9267721 original size:20 final size:18
Alignment explanation
Indices: 9267696--9267747 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
9267686 TATATATATA
9267696 CATACTATACACAAAAATCT
1 CATACTATAC-C-AAAATCT
9267716 CATACT-TACCAAAATCT
1 CATACTATACCAAAATCT
9267733 CATACTA-ACCAAAAT
1 CATACTATACCAAAAT
9267748 GAGCCAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 21 0.68
18 1 0.03
19 3 0.10
20 6 0.19
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (18 bp):
CATACTATACCAAAATCT
Found at i:9268749 original size:43 final size:42
Alignment explanation
Indices: 9268643--9268751 Score: 103
Period size: 43 Copynumber: 2.6 Consensus size: 42
9268633 AAATACATAT
* * * * * **
9268643 ATCACATA-CAACGCCATTTCCCAGATATGGTCTTACATGTT
1 ATCACATATCGACGCCATGTCCCAGACAGGGTCTTACACGAA
* *
9268684 ATCACATATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAA
1 ATCACATATCGACGCC-ATGTCCCAGACAGGGTCTTACACGAA
*
9268727 ATCTCATATCGACGCCAATGTCCCA
1 ATCACATATCGACGCC-ATGTCCCA
9268752 AACATCGTCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 8 0.15
42 5 0.09
43 40 0.75
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (42 bp):
ATCACATATCGACGCCATGTCCCAGACAGGGTCTTACACGAA
Found at i:9278243 original size:43 final size:42
Alignment explanation
Indices: 9278124--9278274 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 42
9278114 TATCCTAGAT
* * * *
9278124 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCTCAGAC
1 ATGGTCTTACACGTAATCACATA-CAATGCCAATGTCCCAGAC
* * *
9278167 ATGGTCTTACACGAAAT--CATATAATGTTTCCAATGTCCCAGAT
1 ATGGTCTTACACGTAATCACATACAATG---CCAATGTCCCAGAC
*
9278210 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCAC-ATACAATGCCAATGTCCCAGAC
*
9278253 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
9278275 CTCGGTAATC
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
40 3 0.03
41 4 0.04
42 2 0.02
43 73 0.81
45 1 0.01
46 7 0.08
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATACAATGCCAATGTCCCAGAC
Found at i:9280272 original size:75 final size:75
Alignment explanation
Indices: 9280132--9280274 Score: 225
Period size: 76 Copynumber: 1.9 Consensus size: 75
9280122 CAACAAGAAT
* * * * *
9280132 TCATCTCTTATCCTTCTTCAAATTCAAATAGAAATAGAATTTCATATCTTTTGATCTTCTTATCC
1 TCATATCTTATCCTTCTTAAAATTCAAATAGAAATAAAACTTAATATCTTTTGATCTTCTTATCC
9280197 TAATTTGAAA
66 TAATTTGAAA
9280207 TCATATCTTATCCTTCTTTAAAATTCAAATAGAAATAAAACTTAATATCTTTT-ATCTTCTTATC
1 TCATATCTTATCCTTC-TTAAAATTCAAATAGAAATAAAACTTAATATCTTTTGATCTTCTTATC
9280271 CTAA
65 CTAA
9280275 CTAGAATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 30 0.48
76 32 0.52
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.44
Consensus pattern (75 bp):
TCATATCTTATCCTTCTTAAAATTCAAATAGAAATAAAACTTAATATCTTTTGATCTTCTTATCC
TAATTTGAAA
Found at i:9282293 original size:14 final size:14
Alignment explanation
Indices: 9282274--9282303 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9282264 TGATTGTTTT
9282274 TAATCTAACTTAAC
1 TAATCTAACTTAAC
*
9282288 TAATCTAATTTAAC
1 TAATCTAACTTAAC
9282302 TA
1 TA
9282304 CGAACACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAACTTAAC
Found at i:9285498 original size:19 final size:19
Alignment explanation
Indices: 9285474--9285514 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9285464 ATACATTCCG
9285474 TTTACTTATTTGTAACACT
1 TTTACTTATTTGTAACACT
9285493 TTTACTTATTTGTAACACT
1 TTTACTTATTTGTAACACT
9285512 TTT
1 TTT
9285515 TCTCTCTCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.15, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTACTTATTTGTAACACT
Found at i:9288200 original size:22 final size:20
Alignment explanation
Indices: 9288174--9288232 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
9288164 AGTTTATACA
*
9288174 TAATTTATATATTACAAATTT
1 TAATTTATATATTA-AAATCT
*
9288195 TCAATTTAAAATATTAAAATCT
1 T-AATTT-ATATATTAAAATCT
9288217 TAATTT-TATAGTTAAA
1 TAATTTATATA-TTAAA
9288233 TTGCAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 5 0.16
21 6 0.19
22 11 0.34
23 7 0.22
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATTTATATATTAAAATCT
Found at i:9290281 original size:32 final size:32
Alignment explanation
Indices: 9290215--9290282 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
9290205 TTTTTGTTAA
* *
9290215 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
9290247 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
9290279 TGTT
1 TGTT
9290283 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:9290308 original size:27 final size:27
Alignment explanation
Indices: 9290278--9290350 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
9290268 TGTCTTGATT
9290278 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
9290305 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
9290337 TTGTTGGATATTGA
1 TTGTTAGATATTGA
9290351 AATGACTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:9290330 original size:32 final size:32
Alignment explanation
Indices: 9290291--9290351 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
9290281 TTAGATATTG
9290291 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
9290323 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
9290352 ATGACTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:9291296 original size:22 final size:22
Alignment explanation
Indices: 9291264--9291310 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9291254 AAATTGTTGC
*
9291264 TATCATGTGGTGTAATATTAGT
1 TATCATATGGTGTAATATTAGT
9291286 TATCATATGGTGTAATATTAGT
1 TATCATATGGTGTAATATTAGT
9291308 TAT
1 TAT
9291311 GCACTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (22 bp):
TATCATATGGTGTAATATTAGT
Found at i:9291370 original size:68 final size:68
Alignment explanation
Indices: 9291225--9291373 Score: 192
Period size: 68 Copynumber: 2.2 Consensus size: 68
9291215 ACTTTTAATG
* * *
9291225 TGGTGTAATATTAGTTATGCACTTGGACAAAATTGTTGCTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGACAAAATTGTTGCTATCATGTGGTGTAATACTAATTATC
9291290 ATA
66 ATA
* * ** *
9291293 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGACAAAATTGTTGCTATCATGTGGTGTAATACTAATTAT-
* *
9291358 TATT
65 CATA
9291362 TGG-ATAATATTA
1 TGGTATAATATTA
9291374 TTAATTTCTA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 66 0.93
69 5 0.07
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAAAATTGTTGCTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:9291789 original size:14 final size:14
Alignment explanation
Indices: 9291770--9291822 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
9291760 CCAGAAAAGT
9291770 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
9291784 AAATCATTTTCCAAG
1 AAATCATTTTTC-AG
*
9291799 AAATTATTTTTCAG
1 AAATCATTTTTCAG
9291813 AAATCATTTT
1 AAATCATTTT
9291823 CCGAAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:9291802 original size:15 final size:14
Alignment explanation
Indices: 9291770--9291828 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
9291760 CCAGAAAAGT
*
9291770 AAATCATTTTTCAG
1 AAATCATTTTCCAG
9291784 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
* *
9291799 AAATTATTTTTCAG
1 AAATCATTTTCCAG
9291813 AAATCATTTTCC-G
1 AAATCATTTTCCAG
9291826 AAA
1 AAA
9291829 AATATTTTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
13 4 0.10
14 23 0.59
15 12 0.31
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:9291812 original size:29 final size:29
Alignment explanation
Indices: 9291770--9291836 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
9291760 CCAGAAAAGT
*
9291770 AAATCATTTTTCAGAAATCATTTTCC-AA
1 AAATTATTTTTCAGAAATCATTTTCCGAA
9291798 GAAATTATTTTTCAGAAATCATTTTCCGAA
1 -AAATTATTTTTCAGAAATCATTTTCCGAA
9291828 AAA-TATTTT
1 AAATTATTTT
9291837 ACCTGCAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 6 0.17
29 28 0.78
30 2 0.06
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (29 bp):
AAATTATTTTTCAGAAATCATTTTCCGAA
Found at i:9293253 original size:31 final size:31
Alignment explanation
Indices: 9293213--9293276 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
9293203 GATTAGAGCT
9293213 AAATAAGATGTCTTTAAAGAAGCTTCCTAAA
1 AAATAAGATGTCTTTAAAGAAGCTTCCTAAA
* *
9293244 AAATGAGATGTCTTTAAAGATGCTTCCTAAA
1 AAATAAGATGTCTTTAAAGAAGCTTCCTAAA
9293275 AA
1 AA
9293277 CCTCCAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (31 bp):
AAATAAGATGTCTTTAAAGAAGCTTCCTAAA
Found at i:9293300 original size:54 final size:54
Alignment explanation
Indices: 9293228--9293337 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
9293218 AGATGTCTTT
9293228 AAAGAAGCTTCCTAAAAAATGAGATGTCTTTAAAGATGCTTCCTAAAAACCTCC
1 AAAGAAGCTTCCTAAAAAATGAGATGTCTTTAAAGATGCTTCCTAAAAACCTCC
* *
9293282 AAAGATGCTTCCTGAAAAATGAGATGTCTTTAAAGATGCTTCCTAAAAACCTCC
1 AAAGAAGCTTCCTAAAAAATGAGATGTCTTTAAAGATGCTTCCTAAAAACCTCC
9293336 AA
1 AA
9293338 GCTGTCTATC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (54 bp):
AAAGAAGCTTCCTAAAAAATGAGATGTCTTTAAAGATGCTTCCTAAAAACCTCC
Found at i:9293702 original size:43 final size:43
Alignment explanation
Indices: 9293639--9293739 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
9293629 TTTAAAAAGG
*
9293639 CGCCGCTAAAGGTCAGGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAA
9293682 CGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAA
*
9293725 CGCCGTTAAAGGTCA
1 CGCCGCTAAAGGTCA
9293740 TAAAAATTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:9294886 original size:23 final size:23
Alignment explanation
Indices: 9294856--9295379 Score: 415
Period size: 23 Copynumber: 22.9 Consensus size: 23
9294846 CATTTAACTG
9294856 CACTTCAATTTACAGCATTTAAA
1 CACTTCAATTTACAGCATTTAAA
* *
9294879 CACTTCAATTTATAGCATTCAAA
1 CACTTCAATTTACAGCATTTAAA
*
9294902 CACTTCAATTTGCAGCACTTT-AA
1 CACTTCAATTTACAGCA-TTTAAA
* * * *
9294925 CACCTCAATTAACAACATTTATA
1 CACTTCAATTTACAGCATTTAAA
* * *
9294948 CACCTC-AGTTACAGCGA-TAAAA
1 CACTTCAATTTACAGC-ATTTAAA
* * **
9294970 CA-TCTCAATGTCCAGCAACTAAA
1 CACT-TCAATTTACAGCATTTAAA
* *
9294993 CACTTCAATTTACAGTACTTAAA
1 CACTTCAATTTACAGCATTTAAA
* * *
9295016 CACTTCAATTTGCAACATTTAAG
1 CACTTCAATTTACAGCATTTAAA
9295039 CACTTCAATTTACAGCATTTAAA
1 CACTTCAATTTACAGCATTTAAA
9295062 CACTTCAATTTACAGCACTTT-AA
1 CACTTCAATTTACAGCA-TTTAAA
* * * *
9295085 CACCTCAATTAACAACATTTATA
1 CACTTCAATTTACAGCATTTAAA
* *
9295108 CACCTCAA-TTACAGCGA-TAAAA
1 CACTTCAATTTACAGC-ATTTAAA
* * **
9295130 CA-TCTCAATGTCCAGCAACTAAA
1 CACT-TCAATTTACAGCATTTAAA
* * *
9295153 CACTTCAATTTGCAGTACTTAAA
1 CACTTCAATTTACAGCATTTAAA
* * *
9295176 CACTTCAATTTGCAACATTTAAG
1 CACTTCAATTTACAGCATTTAAA
9295199 CACTTCAATTTACAGCATTTAAA
1 CACTTCAATTTACAGCATTTAAA
* *
9295222 CATTTCAATTTACAGCATTCAAA
1 CACTTCAATTTACAGCATTTAAA
*
9295245 CACTTCAATTTGCAGCACTTT-AA
1 CACTTCAATTTACAGCA-TTTAAA
* * * *
9295268 CATTTCAATTAACAACATTTATA
1 CACTTCAATTTACAGCATTTAAA
* *
9295291 CACCTCAA-TTACAGCGA-TAAAA
1 CACTTCAATTTACAGC-ATTTAAA
* **
9295313 CA-TCTCAATTTCCAGCAACTAAA
1 CACT-TCAATTTACAGCATTTAAA
* * *
9295336 CACTTCAATTTGCAGTACTTAAA
1 CACTTCAATTTACAGCATTTAAA
* *
9295359 CACTTCAATTTGCAACATTTA
1 CACTTCAATTTACAGCATTTA
9295380 CTACTAATAT
Statistics
Matches: 394, Mismatches: 86, Indels: 42
0.75 0.16 0.08
Matches are distributed among these distances:
22 53 0.13
23 331 0.84
24 10 0.03
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.31
Consensus pattern (23 bp):
CACTTCAATTTACAGCATTTAAA
Found at i:9295131 original size:137 final size:136
Alignment explanation
Indices: 9294856--9295220 Score: 391
Period size: 137 Copynumber: 2.7 Consensus size: 136
9294846 CATTTAACTG
* * ** *
9294856 CACTTCAATTTACAGCATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAGCACT
1 CACTTCAATTTACAGAACTTAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTGCAGCA-T
* * * * * * *
9294921 TT-AACACCTCAATTAACAACATTTATACACCTCAGTTACAGCGATAAAACATCTCAATGTCCAG
65 TTAAACACTTCAATTTACAGCATTTA-ACACCTCAATTACAACGATAAAACACCTCAATGTACAG
9294985 CAACTAAA
129 CAACTAAA
* * * *
9294993 CACTTCAATTTACAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATT
1 CACTTCAATTTACAGAACTTAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTGCAGCATT
* *
9295058 TAAACACTTCAATTTACAGCACTTTAACACCTCAATTAACAAC-ATTTATACACCTCAAT-TACA
66 TAAACACTTCAATTTACAGCA-TTTAACACCTCAATT-ACAACGA-TAAAACACCTCAATGTACA
*
9295121 GCGA-TAAA
128 GCAACTAAA
* * * * *
9295129 -ACATCTCAATGTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAAC
1 CAC-T-TCAATTTACAG-AACTTAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTGCAGC
*
9295192 ATTTAAGCACTTCAATTTACAGCATTTAA
63 ATTTAAACACTTCAATTTACAGCATTTAA
9295221 ACATTTCAAT
Statistics
Matches: 193, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
135 2 0.01
136 13 0.07
137 157 0.81
138 21 0.11
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (136 bp):
CACTTCAATTTACAGAACTTAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTGCAGCATT
TAAACACTTCAATTTACAGCATTTAACACCTCAATTACAACGATAAAACACCTCAATGTACAGCA
ACTAAA
Found at i:9295162 original size:91 final size:91
Alignment explanation
Indices: 9295043--9295379 Score: 437
Period size: 91 Copynumber: 3.7 Consensus size: 91
9295033 TTTAAGCACT
* ** * * *
9295043 TCAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACACCTCAATTAACAACATTTATA
1 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
9295108 CACCTCAATTACAGCGATAAAACATC
66 CACCTCAATTACAGCGATAAAACATC
* * **
9295134 TCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTA-A
1 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
* * *
9295198 GCACTTCAATTTACAGC-ATTTAAACATT
66 -CACCTCAA-TTACAGCGA-TAAAACATC
* * * *
9295226 TCAATTTACAGC-ATTCAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACATTTAT
1 TCAATTTCCAGCAACT-AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTAT
9295290 ACACCTCAATTACAGCGATAAAACATC
65 ACACCTCAATTACAGCGATAAAACATC
* **
9295317 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTA
1 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTA
9295380 CTACTAATAT
Statistics
Matches: 208, Mismatches: 31, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
90 1 0.00
91 130 0.62
92 76 0.37
93 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (91 bp):
TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
CACCTCAATTACAGCGATAAAACATC
Found at i:9295178 original size:183 final size:182
Alignment explanation
Indices: 9294846--9295375 Score: 658
Period size: 183 Copynumber: 2.9 Consensus size: 182
9294836 CAATAAATAC
* *
9294846 CATTTAACTGCACTTCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACACTTCAA
1 CATTTAA--GCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACTT-TAACACTTCAA
** * * * * * * * *
9294910 TTTGCAGCACTTTA-ACACCTCAATTAACAAC-ATTTATACACCTCAGTTACAGCGA-TAAA-AC
63 TTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATTCCAGCAACTAAACAC
* * * ** *
9294971 ATCTCAATGTCCAGCAAC-TAAACACTTCAATTTACAGTACTTAAACACTTCAATTTGCAA
125 -T-TCAATTTGCAG-TACTTAAACACTTCAATTTACAACACTTAAACACTTCAATTTACAA
*
9295031 CATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACACCTCAATTA
1 CATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACACTTCAATTA
9295096 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT-TCCAGCAACTAAACACTTCAA
* * * *
9295161 TTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAG
130 TTTGCAGTACTTAAACACTTCAATTTACAACACTTAAACACTTCAATTTACAA
* * * * *
9295214 CATTTAAACATTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACATTTCAATTA
1 CATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACACTTCAATTA
9295279 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAA-TTCCAGCAACTAAACACTTCAA
*
9295344 TTTGCAGTACTTAAACACTTCAATTTGCAACA
130 TTTGCAGTACTTAAACACTTCAATTTACAACA
9295376 TTTACTACTA
Statistics
Matches: 308, Mismatches: 29, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
182 20 0.06
183 271 0.88
184 8 0.03
185 9 0.03
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (182 bp):
CATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACACTTCAATTA
ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTCCAGCAACTAAACACTTCAAT
TTGCAGTACTTAAACACTTCAATTTACAACACTTAAACACTTCAATTTACAA
Found at i:9295278 original size:160 final size:160
Alignment explanation
Indices: 9294856--9295238 Score: 685
Period size: 160 Copynumber: 2.4 Consensus size: 160
9294846 CATTTAACTG
* * * * * *
9294856 CACTTCAATTTACAGCATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAGCACT
1 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
*
9294921 TTAACACCTCAATTAACAACATTTATACACCTCAGTTACAGCGATAAAACATCTCAATGTCCAGC
66 TTAACACCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGC
9294986 AACTAAACACTTCAATTTACAGTACTTAAA
131 AACTAAACACTTCAATTTACAGTACTTAAA
9295016 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
1 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
9295081 TTAACACCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGC
66 TTAACACCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGC
*
9295146 AACTAAACACTTCAATTTGCAGTACTTAAA
131 AACTAAACACTTCAATTTACAGTACTTAAA
*
9295176 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACATTTCAATTTACAGCA
1 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA
9295239 TTCAAACACT
Statistics
Matches: 214, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 214 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (160 bp):
CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
TTAACACCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGC
AACTAAACACTTCAATTTACAGTACTTAAA
Found at i:9295323 original size:160 final size:160
Alignment explanation
Indices: 9294856--9295379 Score: 630
Period size: 160 Copynumber: 3.3 Consensus size: 160
9294846 CATTTAACTG
* * * * * *
9294856 CACTTCAATTTACAGCATTTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAGCACT
1 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
* * * * *
9294921 TTAACACCTCAATTAACAACATTTATACACCTCAGTTACAGCGATAAAACATCTCAATGTCCAGC
66 TAAACACCTCAATTAACAACATTTATACACCTCAATTACAACGATAAAACACCTCAATGTACAGC
9294986 AACTAAACACTTCAATTTACAGTACTTAAA
131 AACTAAACACTTCAATTTACAGTACTTAAA
9295016 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
1 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
* * * *
9295081 TTAACACCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGC
66 TAAACACCTCAATTAACAACATTTATACACCTCAATTACAACGATAAAACACCTCAATGTACAGC
*
9295146 AACTAAACACTTCAATTTGCAGTACTTAAA
131 AACTAAACACTTCAATTTACAGTACTTAAA
*
9295176 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACATTTCAATTTACAGCA-T
1 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
* ** * ** * *
9295240 TCAAACACTTCAATTTGCAGCACTTTA-ACATTTCAATTAACAAC-ATTTATACACCTCAAT-TA
66 T-AAACACCTCAATTAACAACA-TTTATACACCTCAATT-ACAACGA-TAAAACACCTCAATGTA
* * *
9295302 CAGCGA-TAAA-ACATCTCAATTTCCAGCAAC-TAAA
127 CAGCAACTAAACAC-T-TCAATTTACAG-TACTTAAA
** * * * *
9295336 CACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTA
1 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTA
9295380 CTACTAATAT
Statistics
Matches: 327, Mismatches: 30, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
158 2 0.01
159 7 0.02
160 297 0.91
161 21 0.06
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.31
Consensus pattern (160 bp):
CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACT
TAAACACCTCAATTAACAACATTTATACACCTCAATTACAACGATAAAACACCTCAATGTACAGC
AACTAAACACTTCAATTTACAGTACTTAAA
Found at i:9298881 original size:79 final size:82
Alignment explanation
Indices: 9298790--9298939 Score: 270
Period size: 79 Copynumber: 1.9 Consensus size: 82
9298780 TTATATGACT
*
9298790 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGC-G-G-TTTGCCAAAAGCG
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCCAAAAGCG
9298852 CCGCTAATGGTCTGGTC
66 CCGCTAATGGTCTGGTC
9298869 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCCAAAAGCG
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCCAAAAGCG
9298934 CCGCTA
66 CCGCTA
9298940 TTGCTATGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
79 46 0.69
80 1 0.01
81 1 0.01
82 19 0.28
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.29
Consensus pattern (82 bp):
TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCCAAAAGCG
CCGCTAATGGTCTGGTC
Found at i:9298896 original size:41 final size:41
Alignment explanation
Indices: 9298790--9298944 Score: 262
Period size: 41 Copynumber: 3.9 Consensus size: 41
9298780 TTATATGACT
*
9298790 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTC
*
9298831 TTTAGC-G-G-TTTGCCAAAAGCGCCGCTAATGGTCTGGTC
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTC
9298869 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTC
*
9298910 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCT
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCT
9298945 ATGTGTTTTA
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
38 34 0.32
39 2 0.02
40 2 0.02
41 69 0.64
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:9307112 original size:25 final size:25
Alignment explanation
Indices: 9307079--9307133 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
9307069 GATTACCTGA
*
9307079 AAAGCCTTTGTGGCGTATCATTTGG
1 AAAGCCTTTATGGCGTATCATTTGG
9307104 AAAGCCTTTATGGCGTATCATTTGG
1 AAAGCCTTTATGGCGTATCATTTGG
9307129 AAAGC
1 AAAGC
9307134 TGTCGTGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (25 bp):
AAAGCCTTTATGGCGTATCATTTGG
Found at i:9310514 original size:17 final size:18
Alignment explanation
Indices: 9310492--9310525 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9310482 CAAGCATACA
9310492 AAAGAAA-AAGAAAAATC
1 AAAGAAAGAAGAAAAATC
*
9310509 AAAGAAAGAAGTAAAAT
1 AAAGAAAGAAGAAAAAT
9310526 ATAAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.09
Consensus pattern (18 bp):
AAAGAAAGAAGAAAAATC
Found at i:9317849 original size:32 final size:32
Alignment explanation
Indices: 9317782--9317846 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
9317772 ACATTTATCA
* * * * *
9317782 TCATGTCATTATTATTACATATTTCATGGATT
1 TCATGCCATTATTATAACAAATATCATGCATT
9317814 TCATGCCATTATTATAACCAAATATCATGCATT
1 TCATGCCATTATTATAA-CAAATATCATGCATT
9317847 CATAGCACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (32 bp):
TCATGCCATTATTATAACAAATATCATGCATT
Found at i:9319498 original size:15 final size:15
Alignment explanation
Indices: 9319475--9319508 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9319465 TTGACAATTT
*
9319475 TAAAGTAAAATAAAC
1 TAAAATAAAATAAAC
*
9319490 TAAAATAAATTAAAC
1 TAAAATAAAATAAAC
9319505 TAAA
1 TAAA
9319509 GCTTAAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAATAAAATAAAC
Found at i:9320772 original size:37 final size:37
Alignment explanation
Indices: 9320712--9320907 Score: 189
Period size: 37 Copynumber: 5.3 Consensus size: 37
9320702 TCCAACCAAA
* * * *
9320712 ACACGCTAATTGCTCATAAGAGCTACTTCC-CTTGATG
1 ACACGCCAAATGCTCATAAGAGCTA-ATCCACCTGATG
*
9320749 ACATGCCAAATGCTCATAAGAGCTAATCCACCTGATG
1 ACACGCCAAATGCTCATAAGAGCTAATCCACCTGATG
* * * *
9320786 ACACGCCAAATGCTCATAGGAGCTAATCCATCAGATA
1 ACACGCCAAATGCTCATAAGAGCTAATCCACCTGATG
* * *
9320823 ACACGCCAAATTC-CTATAAGAGCTAATCCACCCGATA
1 ACACGCCAAATGCTC-ATAAGAGCTAATCCACCTGATG
* * * * * *
9320860 ACAAGCCAAATGTTCATAAAAGATAATCTACCTGATA
1 ACACGCCAAATGCTCATAAGAGCTAATCCACCTGATG
*
9320897 AAACGCCAAAT
1 ACACGCCAAAT
9320908 TAGGGAGTAT
Statistics
Matches: 133, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
36 4 0.03
37 128 0.96
38 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.22
Consensus pattern (37 bp):
ACACGCCAAATGCTCATAAGAGCTAATCCACCTGATG
Found at i:9323737 original size:16 final size:16
Alignment explanation
Indices: 9323716--9323753 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
9323706 TTTTTTAACT
*
9323716 TTTTTTCTTCCTTTTC
1 TTTTTTCTTCCTTTTA
*
9323732 TTTTTTCTTTCTTTTA
1 TTTTTTCTTCCTTTTA
9323748 TTTTTT
1 TTTTTT
9323754 TTATGTGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCTTCCTTTTA
Found at i:9338697 original size:30 final size:30
Alignment explanation
Indices: 9338661--9338720 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9338651 TTCCCGAGCC
9338661 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
9338691 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
9338721 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:9338932 original size:19 final size:19
Alignment explanation
Indices: 9338910--9338967 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
9338900 AATTTAAGTA
9338910 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
9338929 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
9338946 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
9338964 ATAT
1 ATAT
9338968 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:9338952 original size:35 final size:35
Alignment explanation
Indices: 9338913--9338979 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
9338903 TTAAGTAATA
*
9338913 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
9338948 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
9338980 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:9339371 original size:49 final size:50
Alignment explanation
Indices: 9339300--9339546 Score: 266
Period size: 49 Copynumber: 5.0 Consensus size: 50
9339290 AGCTATTGTG
* * *
9339300 AGGTCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
9339350 -GGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCT-TACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGAT-AGTT
* * * * * *
9339400 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
9339450 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTAGGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
9339500 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
9339547 CTTCAGCTAC
Statistics
Matches: 161, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
49 78 0.48
50 48 0.30
51 35 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:9346388 original size:50 final size:49
Alignment explanation
Indices: 9346169--9346391 Score: 171
Period size: 48 Copynumber: 4.7 Consensus size: 49
9346159 AAGCACATTA
* ** * * * *
9346169 TGAGAGCCATTGTAAGACCATGTCTAAGACATGGCATTGGCATTGAG--G
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGACA-CGAGATG
* *
9346217 TGAGAGCTAGTGTAAGA-CATGTTTGGGACATG-CATC-AGCTACGAGATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGA-C-ACGAGATG
** * *
9346265 T----GTTAGTGTAAGACCATGTCTGGGACATAACATCGACACG-TAT-
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGACACGAGATG
** * *
9346308 AAAGGTGTCAGTGTAAGACCATGTCTGGGACATGACATCGACACAGAGATG
1 TGA-GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGACAC-GAGATG
9346359 TGAGAGCCAGTGTAAGACCATGTCTGGGACATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATG
9346392 GCGTTGGCCT
Statistics
Matches: 140, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 12 0.09
47 14 0.10
48 53 0.38
49 1 0.01
50 30 0.21
51 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (49 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGACACGAGATG
Found at i:9350238 original size:17 final size:18
Alignment explanation
Indices: 9350211--9350246 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9350201 AATCAAATAT
9350211 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
9350229 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
9350246 A
1 A
9350247 AACAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:9355500 original size:39 final size:39
Alignment explanation
Indices: 9355446--9355525 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
9355436 GGGATAATAC
9355446 AACAGGTAACTTGATTAAAGTTAGGTGGGTTAAAACCTA
1 AACAGGTAACTTGATTAAAGTTAGGTGGGTTAAAACCTA
9355485 AACAGGTAACTTGATTAAAGTTAGGTGGGTTAAAACCTA
1 AACAGGTAACTTGATTAAAGTTAGGTGGGTTAAAACCTA
9355524 AA
1 AA
9355526 TGTCTCTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (39 bp):
AACAGGTAACTTGATTAAAGTTAGGTGGGTTAAAACCTA
Found at i:9356712 original size:19 final size:18
Alignment explanation
Indices: 9356663--9356715 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
9356653 TTTCAAAACT
9356663 TTTTCTCTTTTTTTTTTCAA
1 TTTT-TCTTTTTTTTTT-AA
*
9356683 TTTTTCCTTTTTTTGTT-A
1 TTTTT-CTTTTTTTTTTAA
9356701 TTTATTCTTTTTTTT
1 TTT-TTCTTTTTTTT
9356716 CCAAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 12 0.41
19 3 0.10
20 14 0.48
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTAA
Found at i:9371036 original size:7 final size:7
Alignment explanation
Indices: 9371026--9371055 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
9371016 GTAATTAATA
9371026 GTTAAAT
1 GTTAAAT
9371033 GTTAAAT
1 GTTAAAT
9371040 GTTAAAT
1 GTTAAAT
9371047 GTTAAAT
1 GTTAAAT
9371054 GT
1 GT
9371056 ATGTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (7 bp):
GTTAAAT
Done.