Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 120 of 126
Found at i:35941542 original size:33 final size:33
Alignment explanation
Indices: 35941500--35941565 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
35941490 TATGAGAACT
35941500 CTTAGCCCCTATCCAAAAAGCTTTGCCTATAAA
1 CTTAGCCCCTATCCAAAAAGCTTTGCCTATAAA
35941533 CTTAGCCCCTATCCAAAAAGCTTTGCCTATAAA
1 CTTAGCCCCTATCCAAAAAGCTTTGCCTATAAA
35941566 AAGAACTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.27
Consensus pattern (33 bp):
CTTAGCCCCTATCCAAAAAGCTTTGCCTATAAA
Found at i:35945416 original size:16 final size:16
Alignment explanation
Indices: 35945388--35945427 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
35945378 AATCATACAG
* *
35945388 AAAAA-AATCAAAATT
1 AAAAATAATAAAAATA
35945403 AAAAATAATAAAAATA
1 AAAAATAATAAAAATA
35945419 AAAAATAAT
1 AAAAATAAT
35945428 TTTTTATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATAATAAAAATA
Found at i:35946241 original size:31 final size:31
Alignment explanation
Indices: 35946213--35946273 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
35946203 TTTTTGAACT
* *
35946213 ATTTGAAAGTTTTCATTTAAGTTATTGAATC
1 ATTTAAAAGTTTTCATTTAAGTCATTGAATC
*
35946244 ATTTAAAAGTTTTTATTTAAGTCATTGAAT
1 ATTTAAAAGTTTTCATTTAAGTCATTGAAT
35946274 TGTTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTAAAAGTTTTCATTTAAGTCATTGAATC
Found at i:35946814 original size:29 final size:31
Alignment explanation
Indices: 35946749--35946824 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
35946739 TCAAAATTAT
* *
35946749 ACATGAATTTTGATTTAATATGTAATTTGAT
1 ACATGAATTTTGATTTAATATGCAATTTGAC
35946780 ACATGAATTTTGATTT-A-ATGCAA-TTGCAC
1 ACATGAATTTTGATTTAATATGCAATTTG-AC
*
35946809 ACATGATACTTTGATT
1 ACATGA-ATTTTGATT
35946825 GTGGTTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 3 0.08
29 12 0.30
30 9 0.22
31 16 0.40
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (31 bp):
ACATGAATTTTGATTTAATATGCAATTTGAC
Found at i:35951024 original size:2 final size:2
Alignment explanation
Indices: 35951019--35951051 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35951009 GTGTGTGAGT
35951019 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
35951052 TTGAGCAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35961313 original size:15 final size:15
Alignment explanation
Indices: 35961293--35961333 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
35961283 TTTTAAGATT
35961293 CTAATTGATTTAGAC
1 CTAATTGATTTAGAC
**
35961308 CTAATTCCTTTAGAC
1 CTAATTGATTTAGAC
35961323 CTAATTGATTT
1 CTAATTGATTT
35961334 CCAAATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (15 bp):
CTAATTGATTTAGAC
Found at i:35970098 original size:159 final size:157
Alignment explanation
Indices: 35969756--35970484 Score: 645
Period size: 159 Copynumber: 4.6 Consensus size: 157
35969746 ATCAGAGTAA
* * * * * * * * * * *
35969756 CTTGATCATGAATTATATCTAATATTGATGCAAATAGATAACAATGAAGAAGG-TAAATCCTACT
1 CTTGATCATGAATAAAATCAAATAGTCATGCAAAGAGATGACAATGAAGAAGGAAAAAGCCCATT
* * ** * * * * *
35969820 TCAAGCCCACAAGGAAGTTTATC-T--TCTATCTTATGTGGACCCACGATTCAGGTACGTGTTTC
66 TCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGACTCATGATT-AGGTACATGTTTG
**
35969882 TACTCAATAAAAC-GAACCATCTGTATAG
130 TACTCAATAAAACAGAACCATC-CAATAG
* * * * *
35969910 CTTGATGATGAATTAAATCTAATAGTCATGCGAAGAGATGACAATGAAGAAGGAAAAAGCCTATT
1 CTTGATCATGAATAAAATCAAATAGTCATGCAAAGAGATGACAATGAAGAAGGAAAAAGCCCATT
*
35969975 TCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGACTCATGATTAGGATACATGATTG
66 TCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGACTCATGATTAGG-TACATGTTTG
* * *
35970040 TACTCAATTAAACAAAATCATCCAACTAG
130 TACTCAATAAAACAGAACCATCCAA-TAG
* * * * * *
35970069 CTTGATCATTAACAAAATCAAATATTCATGCAAATAGGTGACGAAAT-AAGGAA-GATAAAATCC
1 CTTGATCATGAATAAAATCAAATAGTCATGCAAAGAGATGAC--AATGAA-GAAGGA-AAAAGCC
* * * * * *
35970132 CATTTCAAGCCCTCAAACAAGTTTA---T-CT-TATCTTATGTGGACCCATGATTCAAGTCCGTG
62 CATTTCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGACTCATGATT-AGGTACATG
* **
35970192 TTTCTACTCAATAAAACAGAACCATCTGGATAG
126 TTTGTACTCAATAAAACAGAACCATC-CAATAG
* * * * * *
35970225 CTTGGTAATGAATTAAATCTAATAGTCATGCGAAGAGATGACAATGAAGAAGGAAAAAGCCTATT
1 CTTGATCATGAATAAAATCAAATAGTCATGCAAAGAGATGACAATGAAGAAGGAAAAAGCCCATT
* **
35970290 TCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGGACTTGTGATTAGGGTACATGTTTG
66 TCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGACTCATGATTA-GGTACATGTTTG
* *
35970355 TACTCGATAAAACGGAACCATCCAAATAG
130 TACTCAATAAAACAGAACCATCC-AATAG
* * * * ** * **
35970384 CTAGATCATGAATAAAATCAAATATTCATGCAAATAGGTGATGATGAAGAAGGTAAATTCCCATT
1 CTTGATCATGAATAAAATCAAATAGTCATGCAAAGAGATGACAATGAAGAAGGAAAAAGCCCATT
** *
35970449 TCATTTCCTCAAACAAGTTTATCTTCTTCTATCTTA
66 TCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTA
35970485 CTCAGCCTCA
Statistics
Matches: 461, Mismatches: 92, Indels: 39
0.78 0.16 0.07
Matches are distributed among these distances:
154 81 0.18
155 31 0.07
156 81 0.18
157 9 0.02
158 44 0.10
159 176 0.38
160 4 0.01
161 35 0.08
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (157 bp):
CTTGATCATGAATAAAATCAAATAGTCATGCAAAGAGATGACAATGAAGAAGGAAAAAGCCCATT
TCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGACTCATGATTAGGTACATGTTTGT
ACTCAATAAAACAGAACCATCCAATAG
Found at i:35970417 original size:315 final size:313
Alignment explanation
Indices: 35969759--35970473 Score: 1024
Period size: 315 Copynumber: 2.3 Consensus size: 313
35969749 AGAGTAACTT
* * * * * * * *
35969759 GATCATGAATTATATCTAATATTGATGCAAATAGATAAC-AATGAAGAAGGT-AAATCCTACTTC
1 GATCATGAATAAAATCAAATATTCATGCAAATAGGTGACGAATGAAGAAGGTAAAATCCCATTTC
* ** *
35969822 AAGCCCACAAGGAAGTTTATCTTCTATCTTATGTGGACCCACGATTCAGGTACGTGTTTCTACTC
66 AAGCCCTCAAACAAGTTTATC-T-TATCTTATGTGGACCCACGATTCAAGTACGTGTTTCTACTC
* *
35969887 AATAAAACGAACCATCTGTATAGCTTGATGATGAATTAAATCTAATAGTCATGCGAAGAGATGAC
129 AATAAAACGAACCATCTGGATAGCTTGATAATGAATTAAATCTAATAGTCATGCGAAGAGATGAC
35969952 AATGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGA
194 AATGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGA
* * * *
35970017 CTCATGATTAGGATACATGATTGTACTCAATTAAACAAAATCATCCAACTAGCTT
259 CTCATGATTAGGATACATGATTGTACTCAATAAAACAAAACCATCCAAATAGCTA
* * *
35970072 GATCATTAACAAAATCAAATATTCATGCAAATAGGTGACGAAAT-AAGGAAGATAAAATCCCATT
1 GATCATGAATAAAATCAAATATTCATGCAAATAGGTGACG-AATGAA-GAAGGTAAAATCCCATT
* *
35970136 TCAAGCCCTCAAACAAGTTTATCTTATCTTATGTGGACCCATGATTCAAGTCCGTGTTTCTACTC
64 TCAAGCCCTCAAACAAGTTTATCTTATCTTATGTGGACCCACGATTCAAGTACGTGTTTCTACTC
*
35970201 AATAAAACAGAACCATCTGGATAGCTTGGTAATGAATTAAATCTAATAGTCATGCGAAGAGATGA
129 AATAAAAC-GAACCATCTGGATAGCTTGATAATGAATTAAATCTAATAGTCATGCGAAGAGATGA
*
35970266 CAATGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAACAAGTTTATCTTCTTCTATCTTAAGTGG
193 CAATGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGG
** * * * **
35970331 ACTTGTGATTAGGGTACATGTTTGTACTCGATAAAACGGAACCATCCAAATAGCTA
258 ACTCATGATTAGGATACATGATTGTACTCAATAAAACAAAACCATCCAAATAGCTA
* *
35970387 GATCATGAATAAAATCAAATATTCATGCAAATAGGTGATG-ATGAAGAAGGTAAATTCCCATTTC
1 GATCATGAATAAAATCAAATATTCATGCAAATAGGTGACGAATGAAGAAGGTAAAATCCCATTTC
***
35970451 ATTTCCTCAAACAAGTTTATCTT
66 AAGCCCTCAAACAAGTTTATCTT
35970474 CTTCTATCTT
Statistics
Matches: 356, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
313 70 0.20
314 50 0.14
315 208 0.58
316 28 0.08
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (313 bp):
GATCATGAATAAAATCAAATATTCATGCAAATAGGTGACGAATGAAGAAGGTAAAATCCCATTTC
AAGCCCTCAAACAAGTTTATCTTATCTTATGTGGACCCACGATTCAAGTACGTGTTTCTACTCAA
TAAAACGAACCATCTGGATAGCTTGATAATGAATTAAATCTAATAGTCATGCGAAGAGATGACAA
TGAAGAAGGAAAAAGCCTATTTCAAGTCCTCAAACAAGTTTATCTTCCTCTATCTTAAGTGGACT
CATGATTAGGATACATGATTGTACTCAATAAAACAAAACCATCCAAATAGCTA
Found at i:35978222 original size:29 final size:30
Alignment explanation
Indices: 35978184--35978255 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 30
35978174 AAAAAAACTT
*
35978184 AATAAGTCAGTGACTTAAAT-AAACTTTCG
1 AATAATTCAGTGACTTAAATAAAACTTTCG
35978213 AATAATTCAGTGACTTAAATGAAAACTTTCG
1 AATAATTCAGTGACTTAAAT-AAAACTTTCG
*
35978244 AATAGTTCAGTG
1 AATAATTCAGTG
35978256 GCCATTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 19 0.49
31 20 0.51
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (30 bp):
AATAATTCAGTGACTTAAATAAAACTTTCG
Found at i:35985185 original size:3 final size:3
Alignment explanation
Indices: 35985177--35985209 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
35985167 CTTTATGGTG
35985177 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35985210 AGATATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35985967 original size:31 final size:31
Alignment explanation
Indices: 35985918--35985993 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
35985908 TGCATGCTTG
*
35985918 AACCACAATCAAAATTTCATGTATATATTTT
1 AACCACAAACAAAATTTCATGTATATATTTT
* * * *
35985949 AACCGCAAACAAAGTTTCATGTGTATATTGT
1 AACCACAAACAAAATTTCATGTATATATTTT
*
35985980 -ACCA-AATCAAAATT
1 AACCACAAACAAAATT
35985994 CATATATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 8 0.22
30 3 0.08
31 26 0.70
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (31 bp):
AACCACAAACAAAATTTCATGTATATATTTT
Found at i:35986636 original size:54 final size:56
Alignment explanation
Indices: 35986578--35986695 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 56
35986568 TCAAAAATCA
*
35986578 ATTGTTATGGTAG-AATAATGCTTCTTTTGAAT-AATTGTTTATATATTTAAATGG
1 ATTGTTATGGTAGAAATAATACTTCTTTTGAATCAATTGTTTATATATTTAAATGG
* * * * * *
35986632 ATTGTTAT-GTTGAAATATTATTTCTTTTGAATCGATTGTTTATATGTTTAAATTG
1 ATTGTTATGGTAGAAATAATACTTCTTTTGAATCAATTGTTTATATATTTAAATGG
35986687 ATTGTTATG
1 ATTGTTATG
35986696 TAGCACATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.06
54 24 0.44
55 27 0.50
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (56 bp):
ATTGTTATGGTAGAAATAATACTTCTTTTGAATCAATTGTTTATATATTTAAATGG
Found at i:35987531 original size:4 final size:4
Alignment explanation
Indices: 35987514--35987556 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
35987504 AAATAAACGG
* *
35987514 GAAA GAAA GTAA GAAA GAAA GAAA GAAA GAGAG GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA GA
35987557 TAATATGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 31 0.91
5 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:35990623 original size:7 final size:7
Alignment explanation
Indices: 35990537--35990623 Score: 72
Period size: 7 Copynumber: 12.4 Consensus size: 7
35990527 GTTTTATGTA
*
35990537 TAAGATT
1 TAAGGTT
*
35990544 TAGGGTT
1 TAAGGTT
35990551 TAAGGTT
1 TAAGGTT
35990558 TCAA-GTT
1 T-AAGGTT
35990565 TAAGGTT
1 TAAGGTT
*
35990572 TACGGTTT
1 TAAGG-TT
35990580 TAA-GTT
1 TAAGGTT
35990586 T-AGGTTT
1 TAAGG-TT
*
35990593 TAGGGTT
1 TAAGGTT
*
35990600 TAGGGTT
1 TAAGGTT
*
35990607 TAAGTTT
1 TAAGGTT
35990614 TAAGGTT
1 TAAGGTT
35990621 TAA
1 TAA
35990624 TGTTATGAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 1 0.02
6 6 0.09
7 50 0.77
8 8 0.12
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.46
Consensus pattern (7 bp):
TAAGGTT
Found at i:35990889 original size:21 final size:21
Alignment explanation
Indices: 35990844--35990889 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
35990834 TAGGGTCCAT
*
35990844 TTGCCCCGAAGGAGTAGATTA
1 TTGCCCCGAAGGAGTAGAGTA
* * *
35990865 TTGCCCTGGAGGAGTAGAGTG
1 TTGCCCCGAAGGAGTAGAGTA
35990886 TTGC
1 TTGC
35990890 GGTGGCTCGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (21 bp):
TTGCCCCGAAGGAGTAGAGTA
Found at i:35991016 original size:45 final size:44
Alignment explanation
Indices: 35990881--35991017 Score: 175
Period size: 45 Copynumber: 3.0 Consensus size: 44
35990871 TGGAGGAGTA
* * * **
35990881 GAGTGTTGCGGTGGCTCGTCAAACTCAGCCTGATATCCTTCCCTT
1 GAGTATTGCGGTGGCTCGTCAAACTGAGGCTGATAT-CTTAGCTT
* *
35990926 GAGTATTACGGTGGCTCGTCAAACTGAGGCTGATATCTTTGGCTT
1 GAGTATTGCGGTGGCTCGTCAAACTGAGGCTGATATC-TTAGCTT
*
35990971 GAGTATTGCGGTGGCTCGTCAAACTGGGGCTGATATACTTAGCTT
1 GAGTATTGCGGTGGCTCGTCAAACTGAGGCTGATAT-CTTAGCTT
35991016 GA
1 GA
35991018 TGAGCTATGC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 79 0.98
46 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (44 bp):
GAGTATTGCGGTGGCTCGTCAAACTGAGGCTGATATCTTAGCTT
Found at i:35991644 original size:43 final size:43
Alignment explanation
Indices: 35991581--35991670 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
35991571 AACTGCACAA
* *
35991581 TTAATAACATGTCAAGATATTAATAAGAGTAAAGTAATATAAT
1 TTAATAACATGTCAACATATTAACAAGAGTAAAGTAATATAAT
* *
35991624 TTAATAACATG-CAACCATATTAACACGAGTCAAGTAATATAAT
1 TTAATAACATGTCAA-CATATTAACAAGAGTAAAGTAATATAAT
35991667 TTAA
1 TTAA
35991671 CATGTTAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 3 0.07
43 39 0.93
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (43 bp):
TTAATAACATGTCAACATATTAACAAGAGTAAAGTAATATAAT
Found at i:35992986 original size:16 final size:16
Alignment explanation
Indices: 35992965--35993014 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
35992955 TGATGGGGAT
*
35992965 ATTATTTTGGTAATTA
1 ATTATTTTGATAATTA
*
35992981 ATTATTTT-TTATATT-
1 ATTATTTTGATA-ATTA
35992996 A-TATTTTGATAATTA
1 ATTATTTTGATAATTA
35993011 ATTA
1 ATTA
35993015 GCTAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:35993212 original size:21 final size:23
Alignment explanation
Indices: 35993183--35993225 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
35993173 ATAAAAAATA
35993183 TTTAAAATTTTA-TAT-TAACTT
1 TTTAAAATTTTATTATATAACTT
*
35993204 TTTATAATTTTATTATATAACT
1 TTTAAAATTTTATTATATAACT
35993226 AATTTTACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAAAATTTTATTATATAACTT
Found at i:35993582 original size:20 final size:21
Alignment explanation
Indices: 35993557--35993599 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
35993547 TACTTACTAC
35993557 TACTAAC-AACAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
*
35993577 TACTAACTAACAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
35993598 TA
1 TA
35993600 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:35993985 original size:4 final size:4
Alignment explanation
Indices: 35993978--35994020 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
35993968 CCCTTCTTCC
*
35993978 TTCT TTCT TTCT TTCT TTCT TTCT CTTTT TTCT TTCT TT-T TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTC
35994021 CTTCAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 29 0.83
5 3 0.09
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:35999409 original size:15 final size:14
Alignment explanation
Indices: 35999391--35999437 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
35999381 AATTATGAAC
35999391 TTTTTATGTTTTTTA
1 TTTTTAT-TTTTTTA
*
35999406 TTTTTATTTATTTA
1 TTTTTATTTTTTTA
35999420 --TTTA-TTTTTTA
1 TTTTTATTTTTTTA
35999431 TTTTTAT
1 TTTTTAT
35999438 AATTTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
13 4 0.15
14 6 0.22
15 7 0.26
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:36006032 original size:16 final size:16
Alignment explanation
Indices: 36006007--36006037 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36005997 GTTCCTCCTA
36006007 ATTTAAGGAATAAAAT
1 ATTTAAGGAATAAAAT
*
36006023 ATTTATGGAATAAAA
1 ATTTAAGGAATAAAA
36006038 ATTGTGTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (16 bp):
ATTTAAGGAATAAAAT
Found at i:36007153 original size:31 final size:31
Alignment explanation
Indices: 36007104--36007163 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
36007094 TCCGGGTAAT
* * * *
36007104 TAAAATAATACAAGTATGTATTGATAGTGAC
1 TAAAATAATAAAAATATGTAATGACAGTGAC
*
36007135 TAAAATGATAAAAATATGTAATGACAGTG
1 TAAAATAATAAAAATATGTAATGACAGTG
36007164 CTCATATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (31 bp):
TAAAATAATAAAAATATGTAATGACAGTGAC
Found at i:36013354 original size:28 final size:28
Alignment explanation
Indices: 36013323--36013380 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
36013313 TTGGGGATTT
*
36013323 TGAGCTTCATATTCGGGGTTTTGGATAA
1 TGAGCTTCATATTCAGGGTTTTGGATAA
*
36013351 TGAGCTTCATATTCAGGGTTTTGGGTAA
1 TGAGCTTCATATTCAGGGTTTTGGATAA
36013379 TG
1 TG
36013381 TATAAACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (28 bp):
TGAGCTTCATATTCAGGGTTTTGGATAA
Found at i:36015382 original size:19 final size:19
Alignment explanation
Indices: 36015358--36015406 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
36015348 AAATAATTTT
* * *
36015358 AATAATTTTATATTTAAAA
1 AATAATTTTAAAATAAAAA
36015377 AATAATTTTAAAATAAAAA
1 AATAATTTTAAAATAAAAA
36015396 AATAATTTTAA
1 AATAATTTTAA
36015407 TAATTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAATTTTAAAATAAAAA
Found at i:36020803 original size:4 final size:4
Alignment explanation
Indices: 36020796--36020837 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
36020786 AAAGGTACAT
36020796 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
36020838 GCATGCATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:36022800 original size:16 final size:16
Alignment explanation
Indices: 36022779--36022810 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36022769 AAAATGCAAT
36022779 CCAACTCCTAATACAA
1 CCAACTCCTAATACAA
36022795 CCAACTCCTAATACAA
1 CCAACTCCTAATACAA
36022811 GAGTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAACTCCTAATACAA
Found at i:36029049 original size:24 final size:24
Alignment explanation
Indices: 36029013--36029060 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
36029003 GTGGTGGTGG
*
36029013 TGGTGCCGTTGCCGCTGCTGCTCC
1 TGGTGCCGGTGCCGCTGCTGCTCC
*
36029037 TGGTGCCGGTGCCGGTGCTGCTCC
1 TGGTGCCGGTGCCGCTGCTGCTCC
36029061 GGCTGCAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.00, C:0.35, G:0.38, T:0.27
Consensus pattern (24 bp):
TGGTGCCGGTGCCGCTGCTGCTCC
Found at i:36029844 original size:18 final size:18
Alignment explanation
Indices: 36029823--36029858 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36029813 ATAATCTAAC
36029823 CCTTAAATAGATTTAAGG
1 CCTTAAATAGATTTAAGG
*
36029841 CCTTAAATAGGTTTAAGG
1 CCTTAAATAGATTTAAGG
36029859 TGAATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (18 bp):
CCTTAAATAGATTTAAGG
Found at i:36038272 original size:29 final size:28
Alignment explanation
Indices: 36038168--36038273 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 28
36038158 TTTGGATGCC
* * *
36038168 CGGGGGCGAAATGGTAATTTTTG-ACTT
1 CGGGGGCAAAATGGTAATTTTGGAAATT
*
36038195 CGGGGGTAAAATGGTAATTTTGGTGAAA-T
1 CGGGGGCAAAATGGTAATTTT-G-GAAATT
**
36038224 CGGGGTTAAAAAT-G-AGATTTTGGAAAGTT
1 CGGGG-GCAAAATGGTA-ATTTTGGAAA-TT
36038253 CGGGGGCAAAATGGTAATTTT
1 CGGGGGCAAAATGGTAATTTT
36038274 TGGTGAAACT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
27 23 0.37
28 7 0.11
29 25 0.40
30 7 0.11
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (28 bp):
CGGGGGCAAAATGGTAATTTTGGAAATT
Found at i:36038303 original size:59 final size:59
Alignment explanation
Indices: 36038193--36038392 Score: 273
Period size: 59 Copynumber: 3.4 Consensus size: 59
36038183 AATTTTTGAC
* *
36038193 TTCGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTT-AAAAATGAGATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAAGGA-ATTTTGGAAAG
*
36038251 TTCGGGGGCAAAATGGTAATTTTTGGTGAAA-CTGAGGTTAAAAAAGGAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATC-GAGGTTAAAAAAGGAATTTTGGAAAG
* * *
36038310 TTTGGGGGTAAAATGGTGATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAAGGAATTTTGGAAAG
** *
36038369 TTTAGGGGTAAAAT-ATAATTTTTG
1 TTCGGGGGTAAAATGGTAATTTTTG
36038393 AATAGTTTAG
Statistics
Matches: 128, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
58 27 0.21
59 93 0.73
60 8 0.06
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (59 bp):
TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAAGGAATTTTGGAAAG
Found at i:36038321 original size:29 final size:29
Alignment explanation
Indices: 36038289--36038381 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
36038279 AAACTGAGGT
36038289 TAAAAAAGGAATTTTGGAAAGTTTGGGGG
1 TAAAAAAGGAATTTTGGAAAGTTTGGGGG
** * * * *
36038318 TAAAATGGTGATTTTTGGTGAAA--TCGAGGT
1 TAAAAAAG-GAATTTT-G-GAAAGTTTGGGGG
* *
36038348 TAAAAATGGAATTTTGGAAAGTTTAGGGG
1 TAAAAAAGGAATTTTGGAAAGTTTGGGGG
36038377 TAAAA
1 TAAAA
36038382 TATAATTTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
27 4 0.09
28 1 0.02
29 20 0.43
30 16 0.35
31 1 0.02
32 4 0.09
ACGTcount: A:0.38, C:0.01, G:0.30, T:0.31
Consensus pattern (29 bp):
TAAAAAAGGAATTTTGGAAAGTTTGGGGG
Found at i:36038352 original size:30 final size:30
Alignment explanation
Indices: 36038194--36038364 Score: 87
Period size: 29 Copynumber: 5.8 Consensus size: 30
36038184 ATTTTTGACT
*
36038194 TCGGGGGTAAAATGGT-AATTTTGGTGAAA
1 TCGGGGTTAAAATGGTGAATTTTGGTGAAA
*
36038223 TCGGGGTTAAAA--ATGAGATTTT-G-GAAA
1 TCGGGGTTAAAATGGTGA-ATTTTGGTGAAA
**
36038250 GTTCGGGGGCAAAATGGT-AATTTTTGGTGAAA
1 --TCGGGGTTAAAATGGTGAA-TTTTGGTGAAA
* **
36038282 -CTGAGGTTAAAAAAG-GAATTTT-G-GAAA
1 TC-GGGGTTAAAATGGTGAATTTTGGTGAAA
* * *
36038309 GTTTGGGGGTAAAATGGTGATTTTTGGTGAAA
1 --TCGGGGTTAAAATGGTGAATTTTGGTGAAA
*
36038341 TCGAGGTTAAAAAT-G-GAATTTTGG
1 TCGGGGTT-AAAATGGTGAATTTTGG
36038365 AAAGTTTAGG
Statistics
Matches: 104, Mismatches: 20, Indels: 36
0.65 0.12 0.22
Matches are distributed among these distances:
27 9 0.09
28 3 0.03
29 49 0.47
30 27 0.26
31 8 0.08
32 8 0.08
ACGTcount: A:0.33, C:0.04, G:0.32, T:0.32
Consensus pattern (30 bp):
TCGGGGTTAAAATGGTGAATTTTGGTGAAA
Found at i:36040074 original size:26 final size:26
Alignment explanation
Indices: 36040044--36040118 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
36040034 ATTGAGCTGA
36040044 TGTAATTGGGCTTTCTATTTGGCCTT
1 TGTAATTGGGCTTTCTATTTGGCCTT
* *
36040070 TGTAATTGGGCCTTTC-ATTCGGGCTTT
1 TGTAATTGGG-CTTTCTATT-TGGCCTT
* *
36040097 TGTAATATGGACTTTCTTTTTG
1 TGTAAT-TGGGCTTTCTATTTG
36040119 TAAATGGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
26 13 0.32
27 22 0.55
28 5 0.12
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (26 bp):
TGTAATTGGGCTTTCTATTTGGCCTT
Found at i:36040083 original size:14 final size:14
Alignment explanation
Indices: 36040044--36040084 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
36040034 ATTGAGCTGA
36040044 TGTAATTGGG-CTT
1 TGTAATTGGGCCTT
* *
36040057 TCT-ATTTGGCCTT
1 TGTAATTGGGCCTT
36040070 TGTAATTGGGCCTT
1 TGTAATTGGGCCTT
36040084 T
1 T
36040085 CATTCGGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
14 10 0.45
ACGTcount: A:0.12, C:0.15, G:0.24, T:0.49
Consensus pattern (14 bp):
TGTAATTGGGCCTT
Found at i:36040163 original size:6 final size:6
Alignment explanation
Indices: 36040154--36040238 Score: 74
Period size: 6 Copynumber: 15.0 Consensus size: 6
36040144 TTAATTCAAT
* *
36040154 TTTAAA TTT-AA -TTAAT TTTAAA TTTAAA -GTAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
** *
36040200 --TAAA TTTAAA TTTAAA AATAAA TTTAAA ATT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
36040239 CATTAATCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
4 3 0.05
5 14 0.23
6 44 0.71
7 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:36040163 original size:17 final size:16
Alignment explanation
Indices: 36040138--36040214 Score: 82
Period size: 17 Copynumber: 4.6 Consensus size: 16
36040128 ATTCATTTAA
*
36040138 TTAAGTTTAATTCAATT
1 TTAAATTTAATT-AATT
36040155 TTAAATTTAATTAATT
1 TTAAATTTAATTAATT
* *
36040171 TTAAATTTAAAGTAAAT
1 TTAAATTT-AATTAATT
* *
36040188 TTAAATTTAAGATAAAT
1 TTAAATTTAA-TTAATT
36040205 TTAAATTTAA
1 TTAAATTTAA
36040215 AAATAAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
16 14 0.26
17 40 0.74
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (16 bp):
TTAAATTTAATTAATT
Found at i:36040243 original size:12 final size:11
Alignment explanation
Indices: 36040174--36040245 Score: 54
Period size: 11 Copynumber: 6.3 Consensus size: 11
36040164 ATTAATTTTA
* *
36040174 AATTTAAAGTA
1 AATTTAAAATT
*
36040185 AATTTAAATTT
1 AATTTAAAATT
** *
36040196 AAGATAAATTT
1 AATTTAAAATT
*
36040207 AAATTTAAAAATA
1 -AATTT-AAAATT
36040220 AATTTAAAATT
1 AATTTAAAATT
36040231 AATTTAAACATT
1 AATTTAAA-ATT
36040243 AAT
1 AAT
36040246 CAAAAGTTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
11 31 0.63
12 14 0.29
13 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:36050806 original size:76 final size:76
Alignment explanation
Indices: 36050707--36050854 Score: 181
Period size: 77 Copynumber: 1.9 Consensus size: 76
36050697 TTCAGCTATA
* * * *
36050707 TTTGATGTTATACATTTTGTGCAA-ACATTTTCCTTGATTGTTTTGTAAATAAAATGAAAACTTA
1 TTTGATGTTACACATTTTGTGCAACAAATTTTCCTCGATTG-TTTGTAAAGAAAATGAAAACTTA
36050771 AACTCTTTTGTG
65 AACTCTTTTGTG
** ** * *
36050783 TTTGATGTTACATTTTTTGTGCAAGCAAATTTTCCTCGATTGTTTGTACCGGAAATGAGAACTTA
1 TTTGATGTTACACATTTTGTGCAA-CAAATTTTCCTCGATTGTTTGTAAAGAAAATGAAAACTTA
36050848 AACTCTT
65 AACTCTT
36050855 ATTCTTTTCC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
76 21 0.35
77 25 0.42
78 14 0.23
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (76 bp):
TTTGATGTTACACATTTTGTGCAACAAATTTTCCTCGATTGTTTGTAAAGAAAATGAAAACTTAA
ACTCTTTTGTG
Found at i:36055741 original size:23 final size:24
Alignment explanation
Indices: 36055675--36055741 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
36055665 GACAAACATA
*
36055675 ATTAAAATT-TTAATATATGAATAT
1 ATTAAATTTATTAATATAT-AATAT
36055699 ATTAAATTTATATAA-A-ATAA-ACT
1 ATTAAATTTAT-TAATATATAATA-T
36055722 ATT-AATTTATTAATATATAA
1 ATTAAATTTATTAATATATAA
36055742 CATGCCAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 3 0.08
22 9 0.24
23 10 0.27
24 10 0.27
25 2 0.05
26 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (24 bp):
ATTAAATTTATTAATATATAATAT
Found at i:36056944 original size:29 final size:30
Alignment explanation
Indices: 36056898--36056962 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
36056888 TATTTTTTTT
*
36056898 ATAATTTTAATGA-TTTTT-AATTTTTAAAA
1 ATAATTTTAATAATTTTTTGAA-TTTTAAAA
36056927 ATAATTTT-ATAATTTTTTTGAATTTTAAAA
1 ATAATTTTAATAA-TTTTTTGAATTTTAAAA
36056957 A-AATTT
1 ATAATTT
36056963 AAAAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.09
29 13 0.41
30 14 0.44
31 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (30 bp):
ATAATTTTAATAATTTTTTGAATTTTAAAA
Found at i:36058213 original size:7 final size:7
Alignment explanation
Indices: 36058196--36058231 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
36058186 CGAGATTTGA
36058196 GGTTTAG
1 GGTTTAG
36058203 GGTTTTA-
1 GG-TTTAG
36058210 GGTTTAG
1 GGTTTAG
36058217 GGTTTAG
1 GGTTTAG
36058224 GGTTTAG
1 GGTTTAG
36058231 G
1 G
36058232 ATTCAGGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 4 0.15
7 19 0.70
8 4 0.15
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:36058239 original size:21 final size:21
Alignment explanation
Indices: 36058196--36058240 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
36058186 CGAGATTTGA
*
36058196 GGTTTAGGGTTTTAGGTTTAG
1 GGTTTAGGGTTTTAGGTTCAG
36058217 GGTTTAGGG-TTTAGGATTCAG
1 GGTTTAGGGTTTTAGG-TTCAG
36058238 GGT
1 GGT
36058241 AAAAGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.16, C:0.02, G:0.40, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTTAGGTTCAG
Found at i:36069871 original size:7 final size:7
Alignment explanation
Indices: 36069852--36069883 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
36069842 GAGATTTTAG
36069852 GGTGGTT
1 GGTGGTT
36069859 -GTGGTT
1 GGTGGTT
36069865 GGTGGTT
1 GGTGGTT
36069872 GGTGGTT
1 GGTGGTT
36069879 GGTGG
1 GGTGG
36069884 ATCCAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.00, C:0.00, G:0.59, T:0.41
Consensus pattern (7 bp):
GGTGGTT
Found at i:36072035 original size:4 final size:4
Alignment explanation
Indices: 36072019--36072060 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
36072009 CAAACGGGCA
*
36072019 AAAG AAA- AAAG AAAG AAAA AAAG AAAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAAG AA
36072061 GAAGGAGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:36072045 original size:17 final size:17
Alignment explanation
Indices: 36072025--36072060 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
36072015 GGCAAAAGAA
36072025 AAAAGAAAGAAAAAAAG
1 AAAAGAAAGAAAAAAAG
*
36072042 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAAAAAG
36072059 AA
1 AA
36072061 GAAGGAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAAG
Found at i:36072046 original size:13 final size:13
Alignment explanation
Indices: 36072018--36072057 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
36072008 TCAAACGGGC
36072018 AAAAG-AAAAAAG
1 AAAAGAAAAAAAG
36072030 -AAAGAAAAAAAG
1 AAAAGAAAAAAAG
*
36072042 AAAAGAAAGAAAG
1 AAAAGAAAAAAAG
36072055 AAA
1 AAA
36072058 GAAGAAGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 14 0.56
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:36074373 original size:43 final size:43
Alignment explanation
Indices: 36074291--36074375 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
36074281 ATTAACATGT
* * *
36074291 TAAACTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAACTATATTACTTAACTCGTATTAATATGCTTGCATGTTAC
* *
36074334 TAAATTATATTACTTAACTCTTATTAATAT-CTTGACATGTTA
1 TAAACTATATTACTTAACTCGTATTAATATGCTTG-CATGTTA
36074376 TTAATTGTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (43 bp):
TAAACTATATTACTTAACTCGTATTAATATGCTTGCATGTTAC
Found at i:36080848 original size:9 final size:8
Alignment explanation
Indices: 36080829--36080853 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36080819 ATACTATGCC
36080829 TTTTTTCT
1 TTTTTTCT
36080837 TTTTTTCT
1 TTTTTTCT
36080845 TTTTTTCT
1 TTTTTTCT
36080853 T
1 T
36080854 GGAGAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTCT
Found at i:36084750 original size:2 final size:2
Alignment explanation
Indices: 36084743--36084773 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36084733 AAAGAAGCTT
36084743 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36084774 TCCAAAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36100321 original size:10 final size:10
Alignment explanation
Indices: 36100262--36100332 Score: 51
Period size: 10 Copynumber: 7.2 Consensus size: 10
36100252 AATCAAGATC
36100262 AATTTTTAGAT
1 AATTTTTA-AT
*
36100273 -ATTTTTACT
1 AATTTTTAAT
**
36100282 AATTTTTACC
1 AATTTTTAAT
36100292 AA-TTTT-AT
1 AATTTTTAAT
36100300 AATTTCTT-AT
1 AATTT-TTAAT
36100310 AATTTTTAAT
1 AATTTTTAAT
*
36100320 AAATTTTCAAT
1 -AATTTTTAAT
36100331 AA
1 AA
36100333 ATTTCTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
8 2 0.04
9 9 0.18
10 30 0.60
11 9 0.18
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:36101121 original size:21 final size:21
Alignment explanation
Indices: 36101082--36101127 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36101072 TAGCTTTACC
*
36101082 GATACAAGTATGATTTCTACA
1 GATACAAGTATGATATCTACA
*
36101103 GATACAAGTCATG-TATCTACC
1 GATACAAGT-ATGATATCTACA
36101124 GATA
1 GATA
36101128 TCAAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
GATACAAGTATGATATCTACA
Found at i:36106212 original size:28 final size:27
Alignment explanation
Indices: 36106147--36106375 Score: 126
Period size: 29 Copynumber: 7.9 Consensus size: 27
36106137 GAACATTCGA
36106147 GGGTAAAATGCTAATTTTTGCAAGTTTTG
1 GGGTAAAATG-TAATTTTTG-AAGTTTTG
36106176 GGGTCAAAATAG-AATTTTTAGAAG-TTTG
1 GGGT-AAAAT-GTAATTTTT-GAAGTTTTG
36106204 AGGGTAAAATGTAATTTTTGGAAGTTTTG
1 -GGGTAAAATGTAATTTTT-GAAGTTTTG
* *
36106233 GGGTTAAAATGGAATTTTTTGGA-TTTTAG
1 GGG-TAAAATGTAA-TTTTTGAAGTTTT-G
* *
36106262 GGG-AAAACGTAATTTTTGGAAGTTTCG
1 GGGTAAAATGTAATTTTT-GAAGTTTTG
** *
36106289 ATGTCAAAAATGGAATTTTTGGAA-TTTTG
1 GGGT--AAAATGTAATTTTT-GAAGTTTTG
* ** **
36106318 AGGTTAAAAACATAATTTTTGGAAGTTTCA
1 -GGGT-AAAATGTAATTTTT-GAAGTTTTG
*
36106348 AGGTCAAAAATGTAATTTTTGGAAGTTT
1 GGGT--AAAATGTAATTTTT-GAAGTTT
36106376 AGGGACCTCT
Statistics
Matches: 159, Mismatches: 24, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
26 5 0.03
27 12 0.08
28 30 0.19
29 59 0.37
30 52 0.33
31 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTAAAATGTAATTTTTGAAGTTTTG
Found at i:36106221 original size:57 final size:57
Alignment explanation
Indices: 36106145--36106379 Score: 226
Period size: 57 Copynumber: 4.1 Consensus size: 57
36106135 TTGAACATTC
* * * * *
36106145 GAGGGTAAAATGCTAATTTTTGCAAGTTTTGGGGTCAAAATAGAATTTTTAGAAGTTT
1 GAGGGTAAAACG-TAATTTTTGGAAGTTTCGAGGTCAAAATAGAATTTTTGGAAGTTT
* * * * *
36106203 GAGGGTAAAATGTAATTTTTGGAAGTTTTGGGGTTAAAATGGAATTTTTTGG-A-TTT
1 GAGGGTAAAACGTAATTTTTGGAAGTTTCGAGGTCAAAATAGAA-TTTTTGGAAGTTT
* * * * *
36106259 TAGGGGAAAACGTAATTTTTGGAAGTTTCGATGTCAAAAATGGAATTTTTGGAATTTT
1 GAGGGTAAAACGTAATTTTTGGAAGTTTCGAGGTC-AAAATAGAATTTTTGGAAGTTT
* * *
36106317 GAGGTTAAAAACATAATTTTTGGAAGTTTCAAGGTCAAAA-ATGTAATTTTTGGAAGTTT
1 GAGGGT-AAAACGTAATTTTTGGAAGTTTCGAGGTCAAAATA-G-AATTTTTGGAAGTTT
36106376 -AGGG
1 GAGGG
36106380 ACCTCTAGGG
Statistics
Matches: 150, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
56 38 0.25
57 40 0.27
58 32 0.21
59 40 0.27
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (57 bp):
GAGGGTAAAACGTAATTTTTGGAAGTTTCGAGGTCAAAATAGAATTTTTGGAAGTTT
Found at i:36106364 original size:30 final size:30
Alignment explanation
Indices: 36106151--36106375 Score: 184
Period size: 30 Copynumber: 7.7 Consensus size: 30
36106141 ATTCGAGGGT
* *
36106151 AAAATGCTAATTTTTGCAAGTTTTGGGGTC-
1 AAAATG-TAATTTTTGGAAGTTTTGAGGTCA
*
36106181 AAAATAG-AATTTTTAGAAG-TTTGAGGGT--
1 AAAAT-GTAATTTTTGGAAGTTTTGA-GGTCA
* *
36106209 AAAATGTAATTTTTGGAAGTTTTGGGGT-T
1 AAAATGTAATTTTTGGAAGTTTTGAGGTCA
* **
36106238 AAAATGGAATTTTTTGG-A-TTTT-AGG-GG
1 AAAATGTAA-TTTTTGGAAGTTTTGAGGTCA
* * *
36106265 AAAACGTAATTTTTGGAAGTTTCGATGTCA
1 AAAATGTAATTTTTGGAAGTTTTGAGGTCA
* *
36106295 AAAATGGAATTTTTGGAA-TTTTGAGGTTA
1 AAAATGTAATTTTTGGAAGTTTTGAGGTCA
** **
36106324 AAAACATAATTTTTGGAAGTTTCAAGGTCA
1 AAAATGTAATTTTTGGAAGTTTTGAGGTCA
36106354 AAAATGTAATTTTTGGAAGTTT
1 AAAATGTAATTTTTGGAAGTTT
36106376 AGGGACCTCT
Statistics
Matches: 156, Mismatches: 27, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
26 7 0.04
27 11 0.07
28 30 0.19
29 51 0.33
30 56 0.36
31 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTTGAGGTCA
Found at i:36108358 original size:17 final size:17
Alignment explanation
Indices: 36108333--36108371 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36108323 AATTTTCAAT
36108333 TTAAATTTAAAATAAAC
1 TTAAATTTAAAATAAAC
* *
36108350 TTAATTTTAAAATAAAT
1 TTAAATTTAAAATAAAC
36108367 TTAAA
1 TTAAA
36108372 CTTTGTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATAAAC
Found at i:36108890 original size:16 final size:16
Alignment explanation
Indices: 36108865--36108966 Score: 60
Period size: 16 Copynumber: 5.8 Consensus size: 16
36108855 TTAAATATTC
36108865 AGGCTGTGTGCCTAGT
1 AGGCTGTGTGCCTAGT
* *
36108881 AGGCTTTGTGCCTGTGTATT
1 AGGCTGTGTGCC----TAGT
*
36108901 CAGGCTGTGTGCCTAGC
1 -AGGCTGTGTGCCTAGT
* *
36108918 AGGCTTTGTGCCTGTGT
1 AGGCTGTGTGCCT-AGT
36108935 ATTCGGGCTGTGTGCCTAGT
1 A----GGCTGTGTGCCTAGT
*
36108955 AGGCTTTGTGCC
1 AGGCTGTGTGCC
36108967 GGTGGTCCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
16 33 0.51
17 4 0.06
20 6 0.09
21 22 0.34
ACGTcount: A:0.10, C:0.21, G:0.34, T:0.35
Consensus pattern (16 bp):
AGGCTGTGTGCCTAGT
Found at i:36108910 original size:37 final size:37
Alignment explanation
Indices: 36108860--36108966 Score: 196
Period size: 37 Copynumber: 2.9 Consensus size: 37
36108850 TGCATTTAAA
36108860 TATTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCTGTG
1 TATTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCTGTG
*
36108897 TATTCAGGCTGTGTGCCTAGCAGGCTTTGTGCCTGTG
1 TATTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCTGTG
*
36108934 TATTCGGGCTGTGTGCCTAGTAGGCTTTGTGCC
1 TATTCAGGCTGTGTGCCTAGTAGGCTTTGTGCC
36108967 GGTGGTCCAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.10, C:0.21, G:0.33, T:0.36
Consensus pattern (37 bp):
TATTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCTGTG
Found at i:36108911 original size:21 final size:21
Alignment explanation
Indices: 36108881--36108951 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
36108871 TGTGCCTAGT
*
36108881 AGGCTTTGTGCCTGTGTATTC
1 AGGCTGTGTGCCTGTGTATTC
*
36108902 AGGCTGTGTGCC----TA-GC
1 AGGCTGTGTGCCTGTGTATTC
*
36108918 AGGCTTTGTGCCTGTGTATTC
1 AGGCTGTGTGCCTGTGTATTC
*
36108939 GGGCTGTGTGCCT
1 AGGCTGTGTGCCT
36108952 AGTAGGCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 12 0.31
17 2 0.05
20 2 0.05
21 23 0.59
ACGTcount: A:0.08, C:0.21, G:0.34, T:0.37
Consensus pattern (21 bp):
AGGCTGTGTGCCTGTGTATTC
Found at i:36110701 original size:13 final size:14
Alignment explanation
Indices: 36110655--36110713 Score: 59
Period size: 13 Copynumber: 4.4 Consensus size: 14
36110645 GACCTAACTC
* *
36110655 GTTGACTATTGACA
1 GTTGACCATTGACT
* *
36110669 GTTGA-CTTTAACT
1 GTTGACCATTGACT
36110682 GTTGACCATTGACT
1 GTTGACCATTGACT
*
36110696 -TTGACCGTTGACT
1 GTTGACCATTGACT
36110709 GTTGA
1 GTTGA
36110714 ATATTGACTC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
13 21 0.58
14 15 0.42
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (14 bp):
GTTGACCATTGACT
Found at i:36110705 original size:47 final size:47
Alignment explanation
Indices: 36110654--36110744 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 47
36110644 CGACCTAACT
* * *
36110654 CGTTGACTATTGACA-GTTGACTTTAACTGTTGACCATTGACTTTGAC
1 CGTTGACTATTGA-ATATTGACTCTAACCGTTGACCATTGACTTTGAC
* * *
36110701 CGTTGACTGTTGAATATTGACTCTAACCGTTGATCGTTGACTTT
1 CGTTGACTATTGAATATTGACTCTAACCGTTGACCATTGACTTT
36110745 TACGAGAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 1 0.03
47 36 0.97
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (47 bp):
CGTTGACTATTGAATATTGACTCTAACCGTTGACCATTGACTTTGAC
Found at i:36110709 original size:27 final size:27
Alignment explanation
Indices: 36110679--36110741 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
36110669 GTTGACTTTA
* *
36110679 ACTGTTGACCATTGACTTTGACCGTTG
1 ACTGTTGACCATTGACTCTAACCGTTG
**
36110706 ACTGTTGAATATTGACTCTAACCGTTG
1 ACTGTTGACCATTGACTCTAACCGTTG
36110733 A-TCGTTGAC
1 ACT-GTTGAC
36110742 TTTTACGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (27 bp):
ACTGTTGACCATTGACTCTAACCGTTG
Found at i:36110712 original size:7 final size:7
Alignment explanation
Indices: 36110655--36110713 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
36110645 GACCTAACTC
36110655 GTTGACT
1 GTTGACT
* *
36110662 ATTGACA
1 GTTGACT
36110669 GTTGACT
1 GTTGACT
*
36110676 -TTAACT
1 GTTGACT
*
36110682 GTTGACC
1 GTTGACT
*
36110689 ATTGACT
1 GTTGACT
*
36110696 -TTGACC
1 GTTGACT
36110702 GTTGACT
1 GTTGACT
36110709 GTTGA
1 GTTGA
36110714 ATATTGACTC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
6 10 0.26
7 29 0.74
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (7 bp):
GTTGACT
Found at i:36110713 original size:20 final size:20
Alignment explanation
Indices: 36110663--36110713 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
36110653 TCGTTGACTA
*
36110663 TTGACAGTTGACTTTAACTG
1 TTGACAGTTGACTTTAACCG
*
36110683 TTGACCA-TTGACTTTGACCG
1 TTGA-CAGTTGACTTTAACCG
*
36110703 TTGACTGTTGA
1 TTGACAGTTGA
36110714 ATATTGACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.88
21 2 0.08
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGACAGTTGACTTTAACCG
Found at i:36117343 original size:7 final size:7
Alignment explanation
Indices: 36117317--36117407 Score: 53
Period size: 7 Copynumber: 13.3 Consensus size: 7
36117307 CTGACTCGAC
36117317 CCGTTGA
1 CCGTTGA
36117324 CCGTT-A
1 CCGTTGA
* *
36117330 ACTTTGA
1 CCGTTGA
36117337 CCGTTGA
1 CCGTTGA
36117344 CCAG-TGA
1 CC-GTTGA
**
36117351 CTATTGA
1 CCGTTGA
*
36117358 CAGTTGA
1 CCGTTGA
*
36117365 TCGTTGA
1 CCGTTGA
*
36117372 CCATTGA
1 CCGTTGA
*
36117379 TCGTTGA
1 CCGTTGA
*
36117386 -CTTTGA
1 CCGTTGA
*
36117392 CTGTTGA
1 CCGTTGA
*
36117399 CCATTGA
1 CCGTTGA
36117406 CC
1 CC
36117408 ATTAACTTTG
Statistics
Matches: 61, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
6 9 0.15
7 51 0.84
8 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (7 bp):
CCGTTGA
Found at i:36117398 original size:34 final size:34
Alignment explanation
Indices: 36117348--36117433 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
36117338 CGTTGACCAG
* * * *
36117348 TGACTATTGACAGTTGATCGTTGACCATTGATCGT
1 TGACTATTGACTGTTGACCATTGACCATT-AACGT
*
36117383 TGACT-TTGACTGTTGACCATTGACCATTAACTT
1 TGACTATTGACTGTTGACCATTGACCATTAACGT
*
36117416 TGACTGTTGACTGTTGAC
1 TGACTATTGACTGTTGAC
36117434 TTTTTCGAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 8 0.18
34 32 0.71
35 5 0.11
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (34 bp):
TGACTATTGACTGTTGACCATTGACCATTAACGT
Found at i:36117399 original size:27 final size:27
Alignment explanation
Indices: 36117320--36117426 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
36117310 ACTCGACCCG
* *
36117320 TTGACCGTTAACTTTGACCGTTGACCA
1 TTGACCATTAACTTTGACTGTTGACCA
* * * *
36117347 GTGACTATTGACAGTTGA-TCGTTGACCA
1 TTGACCATTAAC-TTTGACT-GTTGACCA
* * *
36117375 TTGATCGTTGACTTTGACTGTTGACCA
1 TTGACCATTAACTTTGACTGTTGACCA
36117402 TTGACCATTAACTTTGACTGTTGAC
1 TTGACCATTAACTTTGACTGTTGAC
36117427 TGTTGACTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
27 42 0.67
28 21 0.33
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (27 bp):
TTGACCATTAACTTTGACTGTTGACCA
Found at i:36118507 original size:20 final size:18
Alignment explanation
Indices: 36118482--36118518 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
36118472 TTTTGGGTTT
36118482 TTATTATACTTTATTATTTG
1 TTATTATA-TTTA-TATTTG
36118502 TTATTATATTTATATTT
1 TTATTATATTTATATTT
36118519 ATGAATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATTATATTTATATTTG
Found at i:36119438 original size:16 final size:18
Alignment explanation
Indices: 36119403--36119444 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
36119393 ATCTTCCACA
36119403 AGTTTAATATATATACTT
1 AGTTTAATATATATACTT
*
36119421 AGTTTAGTAT-TA-ACTT
1 AGTTTAATATATATACTT
36119437 AGTTTAAT
1 AGTTTAAT
36119445 TAGTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 11 0.50
17 2 0.09
18 9 0.41
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.50
Consensus pattern (18 bp):
AGTTTAATATATATACTT
Found at i:36132668 original size:2 final size:2
Alignment explanation
Indices: 36132661--36132698 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
36132651 CCCATCTTTC
36132661 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
36132699 TTTCATGACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36136208 original size:19 final size:18
Alignment explanation
Indices: 36136167--36136202 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36136157 TGAATTTTTT
*
36136167 AAATTTTTAAATTTTATA
1 AAATTTTTAAAGTTTATA
36136185 AAATTTTTAATAGTTTAT
1 AAATTTTTAA-AGTTTAT
36136203 TTAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
AAATTTTTAAAGTTTATA
Found at i:36144847 original size:12 final size:12
Alignment explanation
Indices: 36144830--36144860 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36144820 GAAATGGAGA
36144830 ATCATCATCACC
1 ATCATCATCACC
*
36144842 ATCATCATCAGC
1 ATCATCATCACC
36144854 ATCATCA
1 ATCATCA
36144861 ATATGGTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (12 bp):
ATCATCATCACC
Found at i:36151971 original size:21 final size:18
Alignment explanation
Indices: 36151947--36151987 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 18
36151937 TTTTAGATTT
36151947 ATTTTATATTAAAATTAAAAA
1 ATTTTATA-T-AAA-TAAAAA
36151968 ATTTTATATAAATAAAAA
1 ATTTTATATAAATAAAAA
36151986 AT
1 AT
36151988 ATAAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 1 0.05
21 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTATATAAATAAAAA
Found at i:36151985 original size:19 final size:21
Alignment explanation
Indices: 36151947--36151986 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
36151937 TTTTAGATTT
*
36151947 ATTTTATATTAAAATTAAAAA
1 ATTTTATATTAAAATAAAAAA
36151968 ATTTTATA-T-AAATAAAAAA
1 ATTTTATATTAAAATAAAAAA
36151987 TATAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTATATTAAAATAAAAAA
Found at i:36154145 original size:171 final size:171
Alignment explanation
Indices: 36153833--36154392 Score: 890
Period size: 171 Copynumber: 3.3 Consensus size: 171
36153823 TCAATTGATT
* * * *
36153833 TAAATTCTAAATTCATTACTAAATTAATTTAATTAAACAGTAATTAAAGAAGGTTTCTCGTTAGT
1 TAAATTATAAATTCATTACTAAATTAATCTAATCAAACAGTAATTAAAGAAGGTTTCTCGTCAGT
* *
36153898 AAAAACCTTCAACTCAGATTGATCTAGTTTCAGTGATGTGATCATTGCATAGATTAACGAAACCA
66 AAAAACCTTCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATTAACGAAACTA
36153963 AATCAGATCT-AAAATCAGTGATGTGAATAGGCCATGAAGC
131 AATCAGATCTAAAAATCAGTGATGTGAATAGGCCATGAAGC
36154003 TAAATTATAAATTCATTTACTAAATTAATCTAATCAAACAGTAATTAAAGAAGGTTTCTCGTCAG
1 TAAATTATAAATTCA-TTACTAAATTAATCTAATCAAACAGTAATTAAAGAAGGTTTCTCGTCAG
*
36154068 TAAAAACCTTCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATCAACGAAACT
65 TAAAAACCTTCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATTAACGAAACT
* *
36154133 AAATCGGATCTAAAAATCAGTGATGTGAATAGACCATGAAGC
130 AAATCAGATCTAAAAATCAGTGATGTGAATAGGCCATGAAGC
* * *
36154175 TAAATTATAAATTCATTACTAAATGAATCTAATTAAACAGTAATTAAAGAAGGTTTCACGTCAGT
1 TAAATTATAAATTCATTACTAAATTAATCTAATCAAACAGTAATTAAAGAAGGTTTCTCGTCAGT
* * *
36154240 AAAAACCTCCAACTCAGATTGATCTAGTTTCAATGATGCGATTATTGCATAGATTAACGAAACTA
66 AAAAACCTTCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATTAACGAAACTA
* * *
36154305 AATCAAATCTAAAAATCAGTGATGTGATTAGTG-CATAAAGC
131 AATCAGATCTAAAAATCAGTGATGTGAATAG-GCCATGAAGC
* * * *
36154346 TAAATTATAAATTCATTGCTCAATTAATTTAATCAAACAGTTATTAA
1 TAAATTATAAATTCATTACTAAATTAATCTAATCAAACAGTAATTAA
36154393 CAAGCTTTGT
Statistics
Matches: 360, Mismatches: 27, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
170 14 0.04
171 302 0.84
172 44 0.12
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (171 bp):
TAAATTATAAATTCATTACTAAATTAATCTAATCAAACAGTAATTAAAGAAGGTTTCTCGTCAGT
AAAAACCTTCAACTCAGATTGATCTAGTTTCAATGATGTGATCATTGCATAGATTAACGAAACTA
AATCAGATCTAAAAATCAGTGATGTGAATAGGCCATGAAGC
Found at i:36171316 original size:13 final size:13
Alignment explanation
Indices: 36171300--36171325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36171290 GCTCTTAGCT
36171300 TTTCTTCTTCTTC
1 TTTCTTCTTCTTC
36171313 TTTCTTCTTCTTC
1 TTTCTTCTTCTTC
36171326 AGTATCTGCT
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTCTTCTTC
Found at i:36174400 original size:30 final size:31
Alignment explanation
Indices: 36174361--36174428 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
36174351 CTTAACAACC
* * *
36174361 CAATGACTTAAAT-AAAACTTTCGAATTATT
1 CAATAACTTAAATGAAAACTTTCGAATAACT
*
36174391 CAATAACTTAAATGAAAACTTTTGAATAACT
1 CAATAACTTAAATGAAAACTTTCGAATAACT
36174422 CAATAAC
1 CAATAAC
36174429 CATTTCATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (31 bp):
CAATAACTTAAATGAAAACTTTCGAATAACT
Found at i:36175316 original size:16 final size:18
Alignment explanation
Indices: 36175277--36175318 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
36175267 TAAGTTTATA
36175277 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
36175294 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
36175311 A-ATTTATA
1 ATATTTATA
36175319 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:36175818 original size:18 final size:18
Alignment explanation
Indices: 36175771--36175824 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
36175761 CATTAATAGA
36175771 TATTTTTTTTAA-T-TTT
1 TATTTTTTTTAAGTATTT
36175787 TAATTATTGATTTTAAGTATTT
1 T-ATT-TT--TTTTAAGTATTT
36175809 TATTTTTTTTAAGTAT
1 TATTTTTTTTAAGTAT
36175825 ATAGTTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 3 0.09
18 12 0.38
20 8 0.25
21 4 0.12
22 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTTTTTTAAGTATTT
Found at i:36180355 original size:21 final size:19
Alignment explanation
Indices: 36180329--36180367 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
36180319 TAAATGTTTA
36180329 TATATTATATACATATATAAT
1 TATATT-TATACA-ATATAAT
*
36180350 TATATTTATTCAATATAA
1 TATATTTATACAATATAA
36180368 AATAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATTTATACAATATAAT
Found at i:36192456 original size:9 final size:9
Alignment explanation
Indices: 36192442--36192467 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
36192432 GAAAACATCA
36192442 ACTGCTGCT
1 ACTGCTGCT
36192451 ACTGCTGCT
1 ACTGCTGCT
36192460 ACTGCTGC
1 ACTGCTGC
36192468 ACAGGTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.23, T:0.31
Consensus pattern (9 bp):
ACTGCTGCT
Found at i:36193316 original size:21 final size:20
Alignment explanation
Indices: 36193274--36193319 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36193264 TAAATTAAAT
* * *
36193274 AAATAATTTATAAAAATTTA
1 AAATCATTTAAAAAAATGTA
36193294 AAATCATTTAAAAGAAATGTA
1 AAATCATTTAAAA-AAATGTA
36193315 AAATC
1 AAATC
36193320 TGATTTAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATCATTTAAAAAAATGTA
Found at i:36194161 original size:32 final size:31
Alignment explanation
Indices: 36194125--36194219 Score: 80
Period size: 32 Copynumber: 3.3 Consensus size: 31
36194115 TGATCAAATT
36194125 AAAGTACATATAGACTAATTCCACAGTTTTAC
1 AAAGTACATATAGACTAATTCCACA-TTTTAC
** * *
36194157 AAAGTAC--AGGGATTAA-T-CA-A-ATT--
1 AAAGTACATATAGACTAATTCCACATTTTAC
36194180 AAAGTACATATAGACTAATTCCACACTTTTAC
1 AAAGTACATATAGACTAATTCCACA-TTTTAC
36194212 AAAGTACA
1 AAAGTACA
36194220 GGGATTAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
23 7 0.15
25 8 0.17
26 1 0.02
27 3 0.07
28 3 0.07
29 1 0.02
30 8 0.17
32 15 0.33
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (31 bp):
AAAGTACATATAGACTAATTCCACATTTTAC
Found at i:36194181 original size:55 final size:55
Alignment explanation
Indices: 36194117--36194228 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
36194107 ATAAAAATTG
*
36194117 ATCAAATTAAAGTACATATAGACTAATTCCACAGTTTTACAAAGTACAGGGATTA
1 ATCAAATTAAAGTACATATAGACTAATTCCACACTTTTACAAAGTACAGGGATTA
36194172 ATCAAATTAAAGTACATATAGACTAATTCCACACTTTTACAAAGTACAGGGATTA
1 ATCAAATTAAAGTACATATAGACTAATTCCACACTTTTACAAAGTACAGGGATTA
36194227 AT
1 AT
36194229 AGTAGAATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (55 bp):
ATCAAATTAAAGTACATATAGACTAATTCCACACTTTTACAAAGTACAGGGATTA
Found at i:36200659 original size:23 final size:23
Alignment explanation
Indices: 36200585--36200798 Score: 151
Period size: 23 Copynumber: 9.5 Consensus size: 23
36200575 TAAACGAAAC
* * *
36200585 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
36200607 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
36200629 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
36200655 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
36200675 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
36200694 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
36200717 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
36200740 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
36200765 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
36200788 AATCAGAGAGC
1 AAACAGAGAGC
36200799 GCGCTAGTGT
Statistics
Matches: 151, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 78 0.52
24 2 0.01
25 28 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:36200693 original size:39 final size:39
Alignment explanation
Indices: 36200639--36200713 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
36200629 GGGCAACAGA
*
36200639 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
36200678 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
36200714 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:36200752 original size:48 final size:46
Alignment explanation
Indices: 36200678--36200798 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
36200668 ACAAAGTACT
* * *
36200678 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
36200724 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
36200772 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
36200799 GCGCTAGTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:36207657 original size:25 final size:23
Alignment explanation
Indices: 36207605--36207729 Score: 164
Period size: 23 Copynumber: 5.3 Consensus size: 23
36207595 ACACTAGCGC
36207605 GCTCTCTGATTAGCACTGT-GTGT
1 GCTCTCTGATTAGCACT-TCGTGT
* *
36207628 GCTCTCTGTTTAGCACATC-TCGT
1 GCTCTCTGATTAGCACTTCGT-GT
*
36207651 GCTCTCTGTTATTAGCACTGCGTGT
1 GCTCTCTG--ATTAGCACTTCGTGT
36207676 GCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTGATTAGCACTTCGTGT
*
36207699 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTCGTGT
36207722 GCTCTCTG
1 GCTCTCTG
36207730 TTGCCCAGCA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
22 2 0.02
23 69 0.77
25 18 0.20
26 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTCGTGT
Found at i:36207676 original size:48 final size:46
Alignment explanation
Indices: 36207605--36207731 Score: 184
Period size: 48 Copynumber: 2.7 Consensus size: 46
36207595 ACACTAGCGC
36207605 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACATC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACATCGT-GT
* * *
36207651 GCTCTCTGTTATTAGCACTGCGTGTGCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGTTTAGCACATCGTGT
*
36207699 GCTCTCTGATTAGCACTTTGTGTGCTCTCTGTT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTT
36207732 GCCCAGCACT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
46 30 0.42
48 41 0.57
49 1 0.01
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACATCGTGT
Found at i:36207748 original size:48 final size:44
Alignment explanation
Indices: 36207605--36207754 Score: 165
Period size: 48 Copynumber: 3.2 Consensus size: 44
36207595 ACACTAGCGC
* *
36207605 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACATCTCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTG-TTAGCACTTAT-GT
* *
36207651 GCTCTCTGTTATTAGCACTGCGTGTGCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTG-TTAGCACTT-ATGT
*
36207699 GCTCTCTGATTAGCACTTTGTGTGCTCTCTGTTGCCCAGCACTTATGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTT----AGCACTTATGT
36207747 GCTCTCTG
1 GCTCTCTG
36207755 TTCAGTACTT
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
45 2 0.02
46 29 0.32
48 51 0.57
49 8 0.09
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (44 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTAGCACTTATGT
Found at i:36207748 original size:71 final size:71
Alignment explanation
Indices: 36207605--36207776 Score: 183
Period size: 71 Copynumber: 2.4 Consensus size: 71
36207595 ACACTAGCGC
* **
36207605 GCTCTCTGATTAGCACTGT-GTGTGCTCTCTGTTTAGCACATCTCGTGCTCTCTGTTATTAGCAC
1 GCTCTCTGATTAGCACT-TCGTGTGCTCTCTGATTAGCACATCTCGTGCTCTCTGTTACCAGCAC
*
36207669 TGCGTGT
65 TGCATGT
* * *
36207676 GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCAC-TTTGTGTGCTCTCTGTTGCCCAGCA
1 GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACATCT-CGTGCTCTCTGTT-ACCAGCA
*
36207740 CT-TATGT
64 CTGCATGT
* *
36207747 GCTCTCTG-TTCAGTACTTCG-GTACTCTCTG
1 GCTCTCTGATT-AGCACTTCGTGTGCTCTCTG
36207777 TTTGTTCCGT
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
70 14 0.16
71 67 0.77
72 6 0.07
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.40
Consensus pattern (71 bp):
GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACATCTCGTGCTCTCTGTTACCAGCACT
GCATGT
Found at i:36209855 original size:23 final size:23
Alignment explanation
Indices: 36209781--36209994 Score: 142
Period size: 23 Copynumber: 9.5 Consensus size: 23
36209771 TAAACGGAAC
* * *
36209781 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
36209803 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
36209825 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
**
36209851 AAACAGAGAATACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
36209871 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
36209890 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
36209913 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
36209936 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
36209961 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
36209984 AATCAGAGAGC
1 AAACAGAGAGC
36209995 GCGCTAGTGT
Statistics
Matches: 149, Mismatches: 27, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
16 9 0.06
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 77 0.52
24 2 0.01
25 28 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:36209948 original size:48 final size:46
Alignment explanation
Indices: 36209874--36209994 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
36209864 ACAAAGTACT
* * *
36209874 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
36209920 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
36209968 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
36209995 GCGCTAGTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:36212213 original size:52 final size:52
Alignment explanation
Indices: 36212103--36212214 Score: 122
Period size: 52 Copynumber: 2.2 Consensus size: 52
36212093 TTTGTTATTT
* * **
36212103 ATTTATTTATTCATATTCATAAAATAATAAAACAAAATTAATATTATTTTAC
1 ATTTATTTATTCATATTCATAAAATAATAAAACAAAATTAAAATAAAATTAC
* *
36212155 ATTTATTTATTTATATTCATACAATAATAAATA-AATAA-TAAAATAAAATTA-
1 ATTTATTTATTCATATTCATAAAATAATAAA-ACAA-AATTAAAATAAAATTAC
36212206 ATATTATTT
1 AT-TTATTT
36212215 TATATTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
51 2 0.04
52 46 0.90
53 3 0.06
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (52 bp):
ATTTATTTATTCATATTCATAAAATAATAAAACAAAATTAAAATAAAATTAC
Found at i:36212229 original size:59 final size:62
Alignment explanation
Indices: 36212124--36212244 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 62
36212114 CATATTCATA
*
36212124 AAATAATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTCAT-ACAATAATAAAT
1 AAATAATAAAACAAAATTAATATTATTTTA-A-TTATTTATTTATATTCATAAAAATAATAAAT
*
36212187 AAATAATAAAATAAAATTAATATTATTTT-A-TATTTATTTATATTCATAAAAATAATAA
1 AAATAATAAAACAAAATTAATATTATTTTAATTATTTATTTATATTCATAAAAATAATAA
36212245 GAAAAATAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
59 17 0.31
60 9 0.16
61 1 0.02
63 28 0.51
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (62 bp):
AAATAATAAAACAAAATTAATATTATTTTAATTATTTATTTATATTCATAAAAATAATAAAT
Found at i:36216017 original size:15 final size:15
Alignment explanation
Indices: 36215992--36216038 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
36215982 ATAACTTAAA
*
36215992 TTCAACCCTTAATTT
1 TTCAACACTTAATTT
* *
36216007 TTCAATACTTATTTT
1 TTCAACACTTAATTT
*
36216022 TTCAGCACTTAATTT
1 TTCAACACTTAATTT
36216037 TT
1 TT
36216039 TAATTTATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:36216230 original size:25 final size:27
Alignment explanation
Indices: 36216201--36216262 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
36216191 TTTTTTGTGG
*
36216201 TTTTGTCCACA-TTTTCATTG-TGTTA
1 TTTTGTCCACACTTTTCATAGTTGTTA
* *
36216226 TTTTGTACACACTTTTCATAGTTTTTA
1 TTTTGTCCACACTTTTCATAGTTGTTA
*
36216253 ATTTGTCCAC
1 TTTTGTCCAC
36216263 TCCGTTTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 10 0.33
26 8 0.27
27 12 0.40
ACGTcount: A:0.19, C:0.18, G:0.10, T:0.53
Consensus pattern (27 bp):
TTTTGTCCACACTTTTCATAGTTGTTA
Found at i:36220778 original size:23 final size:23
Alignment explanation
Indices: 36220748--36220796 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
36220738 TATTTTTTTT
*
36220748 GAACCCAACAAGTGGTTCCAGTG
1 GAACCCAACAAGTGGTTCCAATG
36220771 GAACCCAACAAGTGGTTCCAATG
1 GAACCCAACAAGTGGTTCCAATG
36220794 GAA
1 GAA
36220797 AAGAGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (23 bp):
GAACCCAACAAGTGGTTCCAATG
Found at i:36220854 original size:11 final size:11
Alignment explanation
Indices: 36220838--36220862 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36220828 TTCGAGCGTC
36220838 TGTGTGTAAGG
1 TGTGTGTAAGG
36220849 TGTGTGTAAGG
1 TGTGTGTAAGG
36220860 TGT
1 TGT
36220863 TAAAGGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (11 bp):
TGTGTGTAAGG
Found at i:36223816 original size:20 final size:20
Alignment explanation
Indices: 36223793--36223836 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
36223783 CATAAATGGG
36223793 AAAATTACAAAGA-AAGAAAA
1 AAAATTACAAAGAGAA-AAAA
*
36223813 AAAA-TACAAATAGAAAAAA
1 AAAATTACAAAGAGAAAAAA
36223832 AAAAT
1 AAAAT
36223837 GCAAACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.11
Consensus pattern (20 bp):
AAAATTACAAAGAGAAAAAA
Found at i:36223820 original size:19 final size:19
Alignment explanation
Indices: 36223793--36223841 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
36223783 CATAAATGGG
*
36223793 AAAATTACAAAGA-AAGAAA
1 AAAAATACAAAGAGAA-AAA
*
36223812 AAAAATACAAATAGAAAAA
1 AAAAATACAAAGAGAAAAA
*
36223831 AAAAATGCAAA
1 AAAAATACAAA
36223842 CAATTCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.76, C:0.06, G:0.08, T:0.10
Consensus pattern (19 bp):
AAAAATACAAAGAGAAAAA
Found at i:36231452 original size:7 final size:7
Alignment explanation
Indices: 36231440--36231464 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36231430 GACTCAATTG
36231440 TAATTAT
1 TAATTAT
36231447 TAATTAT
1 TAATTAT
36231454 TAATTAT
1 TAATTAT
36231461 TAAT
1 TAAT
36231465 AAAATTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATTAT
Found at i:36234940 original size:18 final size:18
Alignment explanation
Indices: 36234917--36234951 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36234907 ACTAGAACTC
*
36234917 TAATTATAATTTAATTTA
1 TAATTATAAGTTAATTTA
*
36234935 TAATTATTAGTTAATTT
1 TAATTATAAGTTAATTT
36234952 TATTAATGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATTATAAGTTAATTTA
Found at i:36238509 original size:24 final size:25
Alignment explanation
Indices: 36238482--36238535 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 25
36238472 CATGATGCAA
36238482 TTAAATATTATAAAT-GGAA-ATAAT
1 TTAAA-ATTATAAATAGGAATATAAT
*
36238506 TT-AAATTATAAATATGAATATAAT
1 TTAAAATTATAAATAGGAATATAAT
36238530 TTAAAA
1 TTAAAA
36238536 CTTTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 9 0.35
23 5 0.19
24 9 0.35
25 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (25 bp):
TTAAAATTATAAATAGGAATATAAT
Found at i:36238516 original size:22 final size:24
Alignment explanation
Indices: 36238488--36238534 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
36238478 GCAATTAAAT
36238488 ATTATAAAT-GGAA-ATAATTTAA
1 ATTATAAATAGGAATATAATTTAA
*
36238510 ATTATAAATATGAATATAATTTAA
1 ATTATAAATAGGAATATAATTTAA
36238534 A
1 A
36238535 ACTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 3 0.14
24 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
ATTATAAATAGGAATATAATTTAA
Found at i:36239036 original size:24 final size:22
Alignment explanation
Indices: 36239009--36239052 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 22
36238999 TAATTATTTA
36239009 ATAATATTTCAGTAATTTTTTTCC
1 ATAAT-TTT-AGTAATTTTTTTCC
36239033 ATAATTTTAGTAATTTTTTT
1 ATAATTTTAGTAATTTTTTT
36239053 TACCATGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 3 0.15
24 5 0.25
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATTTTAGTAATTTTTTTCC
Found at i:36244742 original size:31 final size:31
Alignment explanation
Indices: 36244684--36244746 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
36244674 TTAACAACTC
*
36244684 AATGACTTAAATAAAAACTTTCGAATAGTTT
1 AATGACTTAAATAAAAACTTTCAAATAGTTT
* * * *
36244715 AATGGCTTAAATGAAAATTTTTAAATAGTTT
1 AATGACTTAAATAAAAACTTTCAAATAGTTT
36244746 A
1 A
36244747 GTGATCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTCAAATAGTTT
Found at i:36247766 original size:21 final size:21
Alignment explanation
Indices: 36247742--36247783 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36247732 CATAAACCCT
36247742 AAACCTTAAACATCAAACTTC
1 AAACCTTAAACATCAAACTTC
* *
36247763 AAACCTTAAACCTCGAACTTC
1 AAACCTTAAACATCAAACTTC
36247784 GAATTCCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (21 bp):
AAACCTTAAACATCAAACTTC
Found at i:36254587 original size:21 final size:20
Alignment explanation
Indices: 36254553--36254591 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36254543 TTTTTAATTT
*
36254553 AAATTTAAATTAAATAATGA
1 AAATTTAAAATAAATAATGA
36254573 AAATGTTAAAATAAATAAT
1 AAAT-TTAAAATAAATAAT
36254592 ATATATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATTTAAAATAAATAATGA
Found at i:36255799 original size:4 final size:4
Alignment explanation
Indices: 36255790--36255818 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
36255780 GCCAAGAAAA
36255790 TGCC TGCC TGCC TGCC TGCC TGCC TGCC T
1 TGCC TGCC TGCC TGCC TGCC TGCC TGCC T
36255819 CCTTGCCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.24, T:0.28
Consensus pattern (4 bp):
TGCC
Found at i:36255973 original size:8 final size:9
Alignment explanation
Indices: 36255947--36255971 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36255937 ATTATAGTAA
36255947 ATTAAAAAT
1 ATTAAAAAT
36255956 ATTAAAAAT
1 ATTAAAAAT
36255965 ATTAAAA
1 ATTAAAA
36255972 TAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:36260063 original size:118 final size:118
Alignment explanation
Indices: 36259855--36260099 Score: 463
Period size: 118 Copynumber: 2.1 Consensus size: 118
36259845 ATTTATTTAG
* * *
36259855 CATATTTGCTCTTTGTGACACAAAATAGGAGACTCGAATTACTCATAACCCTTTTTCAACTCATA
1 CATATATGTTCTTTGTGACACAAAATAGGAGACTCGAATTACTCATAACCCTTTCTCAACTCATA
36259920 AATAAGTTTTGATCATATCTGCTTTTTTTAACAATCTCATTATAGGTTTTGAT
66 AATAAGTTTTGATCATATCTGCTTTTTTTAACAATCTCATTATAGGTTTTGAT
36259973 CATATATGTTCTTTGTGACACAAAATAGGAGACTCGAATTACTCATAACCCTTTCTCAACTCATA
1 CATATATGTTCTTTGTGACACAAAATAGGAGACTCGAATTACTCATAACCCTTTCTCAACTCATA
36260038 AATAAGTTTTGATCATATCTGCTTTTTTTAACAATCTCATTATAGGTTTTGAT
66 AATAAGTTTTGATCATATCTGCTTTTTTTAACAATCTCATTATAGGTTTTGAT
36260091 CATATATGT
1 CATATATGT
36260100 ACGCCTAGAA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 124 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (118 bp):
CATATATGTTCTTTGTGACACAAAATAGGAGACTCGAATTACTCATAACCCTTTCTCAACTCATA
AATAAGTTTTGATCATATCTGCTTTTTTTAACAATCTCATTATAGGTTTTGAT
Found at i:36261140 original size:13 final size:13
Alignment explanation
Indices: 36261122--36261146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36261112 ATTAATTCAG
36261122 TTTTTGTTTGTTT
1 TTTTTGTTTGTTT
36261135 TTTTTGTTTGTT
1 TTTTTGTTTGTT
36261147 ATGCGTCGTG
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTGTTTGTTT
Found at i:36266589 original size:15 final size:16
Alignment explanation
Indices: 36266557--36266589 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
36266547 AATACCGATA
36266557 TCAATCGAATTAAAAT
1 TCAATCGAATTAAAAT
*
36266573 TCAATCG-ATTAATAT
1 TCAATCGAATTAAAAT
36266588 TC
1 TC
36266590 TTATTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (16 bp):
TCAATCGAATTAAAAT
Found at i:36270128 original size:21 final size:19
Alignment explanation
Indices: 36270094--36270141 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
36270084 TTTTAAATTC
36270094 TAAAAAATAATAATTATTT
1 TAAAAAATAATAATTATTT
*
36270113 TAAAAATATCAATAATTTTTT
1 TAAAAA-AT-AATAATTATTT
36270134 TATAAAAA
1 TA-AAAAA
36270142 ACTCTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 2 0.08
21 13 0.52
22 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAAAATAATAATTATTT
Found at i:36270174 original size:18 final size:18
Alignment explanation
Indices: 36270096--36270175 Score: 51
Period size: 18 Copynumber: 4.3 Consensus size: 18
36270086 TTAAATTCTA
36270096 AAAAATAATAATTATT-TT
1 AAAAATAATAATT-TTATT
*
36270114 AAAAATATCAATAATTTTTTT
1 -AAAA-AT-AATAATTTTATT
* *
36270135 ATAAA-AA-ACTCTTTA-T
1 AAAAATAATAAT-TTTATT
36270151 ACAAAATAATAATTTTATT
1 A-AAAATAATAATTTTATT
36270170 AAAAAT
1 AAAAAT
36270176 CATTATAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
16 4 0.08
17 8 0.17
18 11 0.23
19 9 0.19
20 7 0.15
21 9 0.19
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAATAATAATTTTATT
Found at i:36274228 original size:45 final size:46
Alignment explanation
Indices: 36274169--36274261 Score: 179
Period size: 45 Copynumber: 2.0 Consensus size: 46
36274159 GAATCATGGA
36274169 TCACTTAAATCTTCTGTAACTGTTAAAATCAGAAGTCATTAATATT
1 TCACTTAAATCTTCTGTAACTGTTAAAATCAGAAGTCATTAATATT
36274215 TCACTT-AATCTTCTGTAACTGTTAAAATCAGAAGTCATTAATATT
1 TCACTTAAATCTTCTGTAACTGTTAAAATCAGAAGTCATTAATATT
36274260 TC
1 TC
36274262 TAATTCATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 41 0.87
46 6 0.13
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (46 bp):
TCACTTAAATCTTCTGTAACTGTTAAAATCAGAAGTCATTAATATT
Found at i:36276950 original size:161 final size:161
Alignment explanation
Indices: 36276680--36276991 Score: 468
Period size: 161 Copynumber: 1.9 Consensus size: 161
36276670 ACTCTTCTTT
36276680 CTCTACAACCATCTACACCATTATAGTCCGATGACACTCTATTACACAAGAATAAACCGAGACCT
1 CTCTACAACCATCTACACCATTATAGTCCGATGACACTCTATTACACAAGAATAAACCGAGACCT
* *
36276745 TTCTTGTCATCTTTCTCTCTTTGTTGATTCCTACTACTCACATGAAGTAATAGTAGGCGAAAGGG
66 TTCTTGTCATCTTTCTCCCTTTGTTGATTCCTACTACTCACATGAAGTAATAGTACGCGAAAGGG
*
36276810 TCAAAGATTAAAAATGTTGTTCCTCTCTAAC
131 TCAAAGATAAAAAATGTTGTTCCTCTCTAAC
* * ** *
36276841 CTCTACAACCATTTACACCATTATAGTCTGATGATTCTCTATCT-CACAAGAATAAATCG-GTAC
1 CTCTACAACCATCTACACCATTATAGTCCGATGACACTCTAT-TACACAAGAATAAACCGAG-AC
* *
36276904 CTTTCTTGTCATCTTTCTCCCTTTGTTGATTCTTACTA-TCCACATGAAGTAATAGTACGCTAAA
64 CTTTCTTGTCATCTTTCTCCCTTTGTTGATTCCTACTACT-CACATGAAGTAATAGTACGCGAAA
* *
36276968 GGGTTAAATATAAAAAATGTTGTT
128 GGGTCAAAGATAAAAAATGTTGTT
36276992 GAGGAAATTA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
160 2 0.01
161 133 0.98
162 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (161 bp):
CTCTACAACCATCTACACCATTATAGTCCGATGACACTCTATTACACAAGAATAAACCGAGACCT
TTCTTGTCATCTTTCTCCCTTTGTTGATTCCTACTACTCACATGAAGTAATAGTACGCGAAAGGG
TCAAAGATAAAAAATGTTGTTCCTCTCTAAC
Found at i:36278080 original size:32 final size:32
Alignment explanation
Indices: 36278043--36278117 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
36278033 CTCCAAATTT
36278043 CAGAATTAATCCCTACAATTTAACCAATCTTG
1 CAGAATTAATCCCTACAATTTAACCAATCTTG
* ** * *
36278075 TAGAATTAGCCCCTATAGTTTAACCAATCTTG
1 CAGAATTAATCCCTACAATTTAACCAATCTTG
*
36278107 CAAAATTAATC
1 CAGAATTAATC
36278118 TAAACGACCA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (32 bp):
CAGAATTAATCCCTACAATTTAACCAATCTTG
Done.