Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 50 of 185
Found at i:14122153 original size:16 final size:15
Alignment explanation
Indices: 14122122--14122163 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
14122112 ACAAAATCAA
*
14122122 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
14122137 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
14122153 ATAAAAATTAA
1 ATAAAAGTTAA
14122164 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:14122243 original size:38 final size:39
Alignment explanation
Indices: 14122200--14122282 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 39
14122190 AAAAAGTCAG
14122200 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTTT
*
14122238 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTTT
14122277 TTATAA
1 TTATAA
14122283 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 32 0.74
39 11 0.26
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (39 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTTT
Found at i:14122392 original size:60 final size:60
Alignment explanation
Indices: 14122316--14122437 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
14122306 ATACTAAACT
* * * * * *
14122316 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATT-AATTATAAAATAATTAC
*
14122376 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
14122436 AA
1 AA
14122438 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.07
60 50 0.93
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:14122514 original size:27 final size:24
Alignment explanation
Indices: 14122478--14122712 Score: 226
Period size: 22 Copynumber: 9.8 Consensus size: 24
14122468 ATATCCCCAC
14122478 ATTACAATATTCATACAAAATTACAA
1 ATTACAATATTCATACAAAA-TA-AA
14122504 TATTACAATATTCATAC-AAA-AAA
1 -ATTACAATATTCATACAAAATAAA
*
14122527 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATACAAAA-TA-AA
*
14122553 TATTACAATATTCATACAAAA-CAA
1 -ATTACAATATTCATACAAAATAAA
*
14122577 A-TATAATATTCATACAAAATTATAAA
1 ATTACAATATTCATAC-AAA--ATAAA
14122603 ATTACAATATTCATAC-AAA-AAA
1 ATTACAATATTCATACAAAATAAA
*
14122625 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCATACAAAA-TA-AA
14122651 TATTACAATATTCATAC-AAA-AAA
1 -ATTACAATATTCATACAAAATAAA
*
14122674 ATTATAATATTCATAC-AAAT---
1 ATTACAATATTCATACAAAATAAA
14122694 -TTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
14122713 AATTACTAAT
Statistics
Matches: 181, Mismatches: 10, Indels: 41
0.78 0.04 0.18
Matches are distributed among these distances:
19 14 0.08
20 3 0.02
22 64 0.35
23 15 0.08
24 4 0.02
25 5 0.03
26 13 0.07
27 63 0.35
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (24 bp):
ATTACAATATTCATACAAAATAAA
Found at i:14122555 original size:49 final size:49
Alignment explanation
Indices: 14122482--14122703 Score: 349
Period size: 49 Copynumber: 4.5 Consensus size: 49
14122472 CCCCACATTA
*
14122482 CAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTG
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
14122531 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAACAAATAT-
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAA-AAAT-TG
*
14122581 -AATATTCATACAAAATTATAAAATTACAATATTCATACAAAAAAATTG
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
* *
14122629 CAATATTCATACAAAACTATAATATTACAATATTCATACAAAAAAATTA
1 CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
* * *
14122678 TAATATTCATACAAATTTACAATATT
1 CAATATTCATACAAAATTATAATATT
14122704 CATACAAAAA
Statistics
Matches: 160, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 150 0.94
50 4 0.03
51 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (49 bp):
CAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTG
Found at i:14122740 original size:41 final size:44
Alignment explanation
Indices: 14122493--14122740 Score: 170
Period size: 49 Copynumber: 5.4 Consensus size: 44
14122483 AATATTCATA
* * * *
14122493 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 CAAAACTATAATA-TACAATATTCATACAAAAAAATT---ATAAT-ATC
*
14122542 CAAAATTATAATATTACAATATTCATACAAAACAAA-TATAATATTC
1 CAAAACTATAATA-TACAATATTCATACAAAA-AAATTATAATA-TC
* * * *
14122588 ATACAAAATTATAAAATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 ---CAAAACTATAATA-TACAATATTCATACAAAAAAATT---ATAAT-ATC
*
14122640 CAAAACTATAATATTACAATATTCATACAAAAAAATTATAATATT
1 CAAAACTATAATA-TACAATATTCATACAAAAAAATTATAATATC
* *
14122685 C-ATAC-A-AATTTACAATATTCATAC-AAAAAATTACT-A-ATC
1 CAAAACTATAATATACAATATTCATACAAAAAAATTA-TAATATC
14122724 CAAAACTATAA-ATACAA
1 CAAAACTATAATATACAA
14122741 ATTTAATTAT
Statistics
Matches: 170, Mismatches: 15, Indels: 36
0.77 0.07 0.16
Matches are distributed among these distances:
39 3 0.02
40 13 0.08
41 21 0.12
42 5 0.03
43 1 0.01
44 3 0.02
45 4 0.02
46 9 0.05
48 3 0.02
49 99 0.58
50 3 0.02
52 5 0.03
53 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (44 bp):
CAAAACTATAATATACAATATTCATACAAAAAAATTATAATATC
Found at i:14122826 original size:22 final size:21
Alignment explanation
Indices: 14122751--14122837 Score: 90
Period size: 22 Copynumber: 4.2 Consensus size: 21
14122741 ATTTAATTAT
*
14122751 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
* * *
14122773 --AACATTACAAGATTCATA-
1 AAAAAATTAAAATATTCATAC
*
14122791 AAAAAATTATAATATTCATAC
1 AAAAAATTAAAATATTCATAC
14122812 AAAAAAGTTAAAATATTCATAC
1 AAAAAA-TTAAAATATTCATAC
14122834 AAAA
1 AAAA
14122838 TTCTAATCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
19 14 0.25
20 17 0.31
21 6 0.11
22 18 0.33
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:14122838 original size:83 final size:81
Alignment explanation
Indices: 14122589--14122838 Score: 197
Period size: 83 Copynumber: 3.0 Consensus size: 81
14122579 ATAATATTCA
* **
14122589 TACAAAATT-ATA-AAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAAT
1 TACAATATTCATACAAATTACAATATTCAT--AAAAAAATTATAATATTCATAC--AA--A-AA-
* *
14122652 ATTACAATATTCATACAAAAAAAT
58 ATTAAAATATTCATACAAAATAAT
* * * * *
14122676 TATAATATTCATACAAATTTACAATATTCATACAAAAAATTACT-A-ATCCAAAACTATAAA-TA
1 TACAATATTCATACAAA-TTACAATATTCATA-AAAAAATTA-TAATATTC-ATACAAAAAATTA
* *
14122738 CAAAT-TTAATTATAAAATAAT
62 -AAATATTCA-TACAAAATAAT
*
14122759 TACAATATTCATACAACATTACAAGATTCATAAAAAAATTATAATATTCATACAAAAAAGTTAAA
1 TACAATATTCATACAA-ATTACAATATTCATAAAAAAATTATAATATTCATACAAAAAA-TTAAA
14122824 ATATTCATACAAAAT
64 ATATTCATACAAAAT
14122839 TCTAATCTAA
Statistics
Matches: 129, Mismatches: 20, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
81 1 0.01
82 22 0.17
83 55 0.43
84 8 0.06
87 8 0.06
88 7 0.05
89 15 0.12
90 13 0.10
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.31
Consensus pattern (81 bp):
TACAATATTCATACAAATTACAATATTCATAAAAAAATTATAATATTCATACAAAAAATTAAAAT
ATTCATACAAAATAAT
Found at i:14123010 original size:11 final size:11
Alignment explanation
Indices: 14122994--14123081 Score: 50
Period size: 11 Copynumber: 7.2 Consensus size: 11
14122984 AATACATTAC
*
14122994 CTTTTTTTTTT
1 CTTTTTTCTTT
14123005 CTTTTTTCTTT
1 CTTTTTTCTTT
14123016 CTTCTTCTTCTTCT
1 CTT-TT-TTCTT-T
14123030 CTTCTTCTTCTTGT
1 CTT-TT-TTCTT-T
*
14123044 CCTTCTCTTCTTCT
1 -CTT-TTTTCTT-T
* *
14123058 CTTTTCTCTCT
1 CTTTTTTCTTT
*
14123069 CTTTTTTTTTT
1 CTTTTTTCTTT
14123080 CT
1 CT
14123082 CTACCGTGTG
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
11 24 0.38
12 6 0.10
13 8 0.13
14 20 0.32
15 5 0.08
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:14123020 original size:3 final size:3
Alignment explanation
Indices: 14123014--14123057 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
14123004 TCTTTTTTCT
* *
14123014 TTC TTC TTC TTC TTC -TC TTC TTC TTC TTG TCC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
14123058 CTTTTCTCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:14123032 original size:14 final size:14
Alignment explanation
Indices: 14123010--14123064 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
14123000 TTTTTCTTTT
14123010 TTCTT-TCTTCTTC
1 TTCTTCTCTTCTTC
14123023 TTCTTCTCTTCTTC
1 TTCTTCTCTTCTTC
*
14123037 TTCTTGTCCTTC-TC
1 TTCTTCT-CTTCTTC
14123051 TTCTTCTCTT-TTC
1 TTCTTCTCTTCTTC
14123064 T
1 T
14123065 CTCTCTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 11 0.30
14 22 0.59
15 4 0.11
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (14 bp):
TTCTTCTCTTCTTC
Found at i:14123034 original size:17 final size:17
Alignment explanation
Indices: 14123010--14123071 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 17
14123000 TTTTTCTTTT
14123010 TTCT-TTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTC
14123026 TTCTCTTCTTCTTCTTGTCC
1 TTCTCTTCTTCTTC-T-T-C
14123046 TTCTCTTCTTC-TCTT-
1 TTCTCTTCTTCTTCTTC
14123061 TTCTCTCTCTT
1 TTCTCT-TCTT
14123072 TTTTTTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 10 0.24
18 2 0.05
19 3 0.07
20 12 0.29
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.65
Consensus pattern (17 bp):
TTCTCTTCTTCTTCTTC
Found at i:14124251 original size:31 final size:30
Alignment explanation
Indices: 14124210--14124276 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
14124200 AATTTTAAAT
*
14124210 TTTAAAAGTACAAGAACTAAAATTAATTAA
1 TTTAAAAGTACAAAAACTAAAATTAATTAA
*
14124240 TTTAAATAGTACAAAAATTAAAATTAATTAA
1 TTTAAA-AGTACAAAAACTAAAATTAATTAA
*
14124271 ATTAAA
1 TTTAAA
14124277 GTATATGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (30 bp):
TTTAAAAGTACAAAAACTAAAATTAATTAA
Found at i:14128213 original size:19 final size:17
Alignment explanation
Indices: 14128198--14128291 Score: 54
Period size: 17 Copynumber: 5.5 Consensus size: 17
14128188 ATTTTAATAG
14128198 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
14128215 TTTAATACTT--ATCTAAA
1 TTTAATA-TTAAAT-TAAA
* **
14128232 --TAGTATTTGATT-AA
1 TTTAATATTAAATTAAA
* *
14128246 TTTAATATTAAAGTGATTA
1 TTTAATATTAAA-TTA-AA
*
14128265 TCTTAATATTAAGTTAAA
1 T-TTAATATTAAATTAAA
14128283 TTTAATATT
1 TTTAATATT
14128292 TATCTTGTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
14 4 0.07
15 5 0.09
16 11 0.19
17 20 0.34
18 4 0.07
19 4 0.07
20 10 0.17
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:14129809 original size:17 final size:16
Alignment explanation
Indices: 14129787--14129819 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
14129777 CGAGTGAGAC
14129787 CATAAATATTAATTAAT
1 CATAAATATT-ATTAAT
14129804 CATAAATATTATTAAT
1 CATAAATATTATTAAT
14129820 TAATATTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
CATAAATATTATTAAT
Found at i:14141375 original size:29 final size:29
Alignment explanation
Indices: 14141351--14141479 Score: 125
Period size: 29 Copynumber: 4.5 Consensus size: 29
14141341 AGTATCAAAA
*
14141351 ACTCTGTACCGGTGTTATATTTATCAGGT
1 ACTCTGTACCGGTGTTATATTTATCAGAT
* * * *
14141380 ACTTTGTACCAGTATTATATTTATCAGGT
1 ACTCTGTACCGGTGTTATATTTATCAGAT
* * *
14141409 ACTTTGTACCGGTGTTATA-GTATCAGAC
1 ACTCTGTACCGGTGTTATATTTATCAGAT
* * * *
14141437 ATTCTATATCGGTGTTATATTTATCAGGT
1 ACTCTGTACCGGTGTTATATTTATCAGAT
* *
14141466 GCTATGTACCGGTG
1 ACTCTGTACCGGTG
14141480 ATGGATACCA
Statistics
Matches: 79, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 21 0.27
29 58 0.73
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
ACTCTGTACCGGTGTTATATTTATCAGAT
Found at i:14141669 original size:5 final size:5
Alignment explanation
Indices: 14141661--14141700 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
14141651 TGAAATGGAA
* *
14141661 ATGAG ATGAT ATGAG ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
14141701 GAATTATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (5 bp):
ATGAT
Found at i:14145652 original size:36 final size:31
Alignment explanation
Indices: 14145583--14145649 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
14145573 CTTTAGTATA
14145583 TTGTTAAATAAGGTAATGTAATTCATGATTT
1 TTGTTAAATAAGGTAATGTAATTCATGATTT
14145614 TTGTTAAATAAGGTAATGTAATTCATGATTT
1 TTGTTAAATAAGGTAATGTAATTCATGATTT
*
14145645 GTGTT
1 TTGTT
14145650 TTGAAGTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (31 bp):
TTGTTAAATAAGGTAATGTAATTCATGATTT
Found at i:14147709 original size:25 final size:23
Alignment explanation
Indices: 14147655--14147711 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
14147645 AAAAACTAAA
* *
14147655 AATATATATAAATATACATATTTT
1 AATATGTA-AAATATACATATTAT
*
14147679 AATATGTAAAATATATATATATAT
1 AATATGTAAAATATACATAT-TAT
14147703 AAGTATGTA
1 AA-TATGTA
14147712 TATAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.39
24 11 0.39
25 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (23 bp):
AATATGTAAAATATACATATTAT
Found at i:14148365 original size:23 final size:22
Alignment explanation
Indices: 14148322--14148379 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
14148312 AAAGGATATC
* *
14148322 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14148343 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
14148366 TGCATATCATATCT
1 TACAAATCATATCT
14148380 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14149301 original size:100 final size:99
Alignment explanation
Indices: 14149163--14149449 Score: 466
Period size: 100 Copynumber: 2.9 Consensus size: 99
14149153 TGCAACGCTA
* * * * *
14149163 GGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACACCACCAAGGAAGTAAGATTC
1 GGGAAACAAGATTCGC-ATC-GTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTC
*
14149228 GTCGTTGTGGCTTCAATCTATTTAACAACAATGTTG
64 GCCGTTGTGGCTTCAATCTATTTAACAACAATGTTG
14149264 GGGAAACAAGATTCGCAGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCG
1 GGGAAACAAGATTCGCA-TCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCG
*
14149329 CCGTTGTGGCTTCAATCTATTTAACTACAATGTTG
65 CCGTTGTGGCTTCAATCTATTTAACAACAATGTTG
*
14149364 GAGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCG
1 GGGAAACAAGATTCG-CATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCG
14149429 CCGTTGTGGCTTCAATCTATT
65 CCGTTGTGGCTTCAATCTATT
14149450 CCACTGTAAT
Statistics
Matches: 176, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
100 157 0.89
101 19 0.11
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (99 bp):
GGGAAACAAGATTCGCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGC
CGTTGTGGCTTCAATCTATTTAACAACAATGTTG
Found at i:14149425 original size:50 final size:50
Alignment explanation
Indices: 14149185--14149454 Score: 236
Period size: 50 Copynumber: 5.4 Consensus size: 50
14149175 TCGCTACCTT
* * * * *
14149185 TAGCTTTAATCTGTTCCACTACACCACCAAGGAAGTAAGATTCGTCGTTG
1 TAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
* ** * ** *** ** * *
14149235 TGGCTTCAATCTATTTAACAACAATGTTGGGGAAACAAGATTCGCAGTCG
1 TAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
*
14149285 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
1 TAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
* ** ** ** ** * *
14149335 TGGCTTCAATCTATTTAACTACAATG-TTGGAGAAACAAGATTCGCCATCG
1 TAGCTTCAATCTATTCCACTACACCGCCAGG-GAAGTAAGATTCGCCGTTG
*
14149385 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
1 TAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
*
14149435 TGGCTTCAATCTATTCCACT
1 TAGCTTCAATCTATTCCACT
14149455 GTAATGCCAA
Statistics
Matches: 160, Mismatches: 58, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
49 2 0.01
50 156 0.98
51 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
TAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
Found at i:14149652 original size:44 final size:44
Alignment explanation
Indices: 14149604--14149804 Score: 151
Period size: 44 Copynumber: 4.8 Consensus size: 44
14149594 TACTGCTTAA
* * *
14149604 GGAGATAAGA-TCTATAATTTTCAACCTACTCCACTGCT-ATTCAG
1 GGAGATAAGATTC-ACAATCTTCAACCTACTCCACTGCTGA-CCAG
* * *
14149648 GGAGATAGGATTCACAATCTTCAACCTATTCCATTGCTGACCAG
1 GGAGATAAGATTCACAATCTTCAACCTACTCCACTGCTGACCAG
* *
14149692 GGAGATAGGATTCAC---C-T--A--T--TCCACTACTGACCAG
1 GGAGATAAGATTCACAATCTTCAACCTACTCCACTGCTGACCAG
* * *
14149726 GAAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGACCAG
1 GGAGATAAGA-TTCACAATCTTCAACCTACTCCACTGCTGACCAG
* *
14149770 GGAGATAGGACTT-ACAATCTTCAACCTATTCCACT
1 GGAGATAAGA-TTCACAATCTTCAACCTACTCCACT
14149805 ACTTTCCAAG
Statistics
Matches: 133, Mismatches: 11, Indels: 26
0.78 0.06 0.15
Matches are distributed among these distances:
34 24 0.18
35 2 0.02
36 1 0.01
37 1 0.01
38 2 0.02
40 2 0.02
41 1 0.01
42 1 0.01
44 96 0.72
45 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
GGAGATAAGATTCACAATCTTCAACCTACTCCACTGCTGACCAG
Found at i:14149710 original size:34 final size:34
Alignment explanation
Indices: 14149671--14149735 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
14149661 ACAATCTTCA
* * *
14149671 ACCTATTCCATTGCTGACCAGGGAGATAGGATTC
1 ACCTATTCCACTACTGACCAGGAAGATAGGATTC
14149705 ACCTATTCCACTACTGACCAGGAAGATAGGA
1 ACCTATTCCACTACTGACCAGGAAGATAGGA
14149736 CTTACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (34 bp):
ACCTATTCCACTACTGACCAGGAAGATAGGATTC
Found at i:14149818 original size:44 final size:44
Alignment explanation
Indices: 14149705--14149825 Score: 181
Period size: 44 Copynumber: 2.8 Consensus size: 44
14149695 GATAGGATTC
14149705 ACCTATTCCACTACTGACC-AGGAAGATAGGACTTACAATCTTCA
1 ACCTATTCCACTACTGACCAAGG-AGATAGGACTTACAATCTTCA
* *
14149749 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
1 ACCTATTCCACTACTGACCAAGGAGATAGGACTTACAATCTTCA
** *
14149793 ACCTATTCCACTACTTTCCAAGGAGACAGGACT
1 ACCTATTCCACTACTGACCAAGGAGATAGGACT
14149826 ACTATCTCCG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 67 0.97
45 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
ACCTATTCCACTACTGACCAAGGAGATAGGACTTACAATCTTCA
Found at i:14151726 original size:23 final size:23
Alignment explanation
Indices: 14151674--14151728 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
14151664 AAAAACTAAA
* *
14151674 AATATATATAAATATACATATTTT
1 AATATGTA-AAATATACATATTAT
*
14151698 AATATGTAAAATATATATA-TAT
1 AATATGTAAAATATACATATTAT
14151720 AAGTATGTA
1 AA-TATGTA
14151729 TATAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 16 0.59
24 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (23 bp):
AATATGTAAAATATACATATTAT
Found at i:14162742 original size:20 final size:18
Alignment explanation
Indices: 14162712--14162765 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
14162702 AAATTACAAA
*
14162712 AAAAATCAAAATATTTTT
1 AAAATTCAAAATATTTTT
*
14162730 CAAAATTTTAAAATAATTTTT
1 -AAAA-TTCAAAAT-ATTTTT
14162751 AAAATTCAAAATATT
1 AAAATTCAAAATATT
14162766 AATAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 11 0.37
20 10 0.33
21 6 0.20
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTCAAAATATTTTT
Found at i:14165311 original size:11 final size:11
Alignment explanation
Indices: 14165297--14165371 Score: 58
Period size: 11 Copynumber: 7.4 Consensus size: 11
14165287 ATTTTTTAAA
14165297 TTTTAAAATAT
1 TTTTAAAATAT
14165308 TTTTAAAATACT
1 TTTTAAAATA-T
**
14165320 TTTT--TTTAT
1 TTTTAAAATAT
14165329 TTTT---A-AT
1 TTTTAAAATAT
14165336 -TTTAAAATA-
1 TTTTAAAATAT
14165345 TTTTAAAATAT
1 TTTTAAAATAT
14165356 TTTTAAAATACT
1 TTTTAAAATA-T
14165368 TTTT
1 TTTT
14165372 TTAATTTTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
6 3 0.06
7 2 0.04
9 6 0.11
10 12 0.23
11 20 0.38
12 10 0.19
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:14165378 original size:21 final size:20
Alignment explanation
Indices: 14165328--14165386 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
14165318 CTTTTTTTTA
14165328 TTTTTAA-TTTTAAAATATT
1 TTTTTAATTTTTAAAATATT
***
14165347 TTAAAATATTTTTAAAATACTT
1 TTTTTA-ATTTTTAAAATA-TT
14165369 TTTTTAATTTTTAAAATA
1 TTTTTAATTTTTAAAATA
14165387 AATTTTTGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 3 0.10
20 1 0.03
21 22 0.71
22 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATATT
Found at i:14165392 original size:21 final size:21
Alignment explanation
Indices: 14165354--14165393 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14165344 ATTTTAAAAT
**
14165354 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
14165375 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
14165394 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:14165400 original size:22 final size:20
Alignment explanation
Indices: 14165353--14165407 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
14165343 TATTTTAAAA
* *
14165353 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
14165373 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
14165396 TATTTATTAAAA
1 TATTT-TTAAAA
14165408 AATGGGCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:14166892 original size:30 final size:30
Alignment explanation
Indices: 14166858--14167169 Score: 205
Period size: 30 Copynumber: 10.4 Consensus size: 30
14166848 TCATCGACAA
*
14166858 ATGAAAAGAGATGGCTTCGGCTATCGATAT
1 ATGAAAAGGGATGGCTTCGGCTATCGATAT
** *
14166888 ATGAAAAGGGATAACTTCGGCTATCAAT-T
1 ATGAAAAGGGATGGCTTCGGCTATCGATAT
* * * *
14166917 ATGAAAAGGGATGG-TGACGACCATC-AAATT
1 ATGAAAAGGGATGGCT-TCGGCTATCGATA-T
14166947 ATGAAAAGGGATGGCTTCGGCTATCG-TAT
1 ATGAAAAGGGATGGCTTCGGCTATCGATAT
*
14166976 AATGAAAAGGGATGGCTTCGGCTATCGATCT
1 -ATGAAAAGGGATGGCTTCGGCTATCGATAT
* * *
14167007 ATGAAAAAGGATAGCTTCGGCTATCAAT-T
1 ATGAAAAGGGATGGCTTCGGCTATCGATAT
* * ** *
14167036 ATGAAAAAGGATGG-TGACAACCA-CTGA-AT
1 ATGAAAAGGGATGGCT-TCGGCTATC-GATAT
* * * *
14167065 AATGAAAAGGGATGG-TAACGACCATC-AAATT
1 -ATGAAAAGGGATGGCT-TCGGCTATCGATA-T
* *
14167096 ATGAAAAAGGATAGCTTCGGCTATCGA-ACT
1 ATGAAAAGGGATGGCTTCGGCTATCGATA-T
** * * *
14167126 ATGAAAAAGGGATAACTTCGGTTATCAATTT
1 ATG-AAAAGGGATGGCTTCGGCTATCGATAT
14167157 ATGAAAAGGGATG
1 ATGAAAAGGGATG
14167170 TGTTAACCAT
Statistics
Matches: 225, Mismatches: 39, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
28 4 0.02
29 40 0.18
30 150 0.67
31 31 0.14
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGGCTATCGATAT
Found at i:14167036 original size:89 final size:89
Alignment explanation
Indices: 14166858--14167169 Score: 278
Period size: 89 Copynumber: 3.5 Consensus size: 89
14166848 TCATCGACAA
* **
14166858 ATGAAAAGAGATGGCTTCGGCTATCG-ATATATGAAAAGGGATAACTTCGGCTATCAATTATGAA
1 ATGAAAAGGGATGGCTTCGGCTATCGAATA-ATGAAAAGGGATGGCTTCGGCTATCAATTATGAA
* * * * *
14166922 AAGGGAT-GGTGACGACCATCAAATT
65 AAAGGATAGCT-TCGGCTATCAAATT
* *
14166947 ATGAAAAGGGATGGCTTCGGCTATCGTATAATGAAAAGGGATGGCTTCGGCTATCGATCTATGAA
1 ATGAAAAGGGATGGCTTCGGCTATCGAATAATGAAAAGGGATGGCTTCGGCTATCAAT-TATGAA
14167012 AAAGGATAGCTTCGGCTATC-AATT
65 AAAGGATAGCTTCGGCTATCAAATT
* * ** * * * *
14167036 ATGAAAAAGGATGG-TGACAACCA-CTGAATAATGAAAAGGGATGG-TAACGACCATCAAATTAT
1 ATGAAAAGGGATGGCT-TCGGCTATC-GAATAATGAAAAGGGATGGCT-TCGGCTATC-AATTAT
* *
14167098 GAAAAAGGATAGCTTCGGCTATCGAACT
62 GAAAAAGGATAGCTTCGGCTATCAAATT
** * *
14167126 ATGAAAAAGGGATAACTTCGGTTATC-AATTTATGAAAAGGGATG
1 ATG-AAAAGGGATGGCTTCGGCTATCGAA-TAATGAAAAGGGATG
14167170 TGTTAACCAT
Statistics
Matches: 182, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
88 3 0.02
89 120 0.66
90 31 0.17
91 26 0.14
92 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (89 bp):
ATGAAAAGGGATGGCTTCGGCTATCGAATAATGAAAAGGGATGGCTTCGGCTATCAATTATGAAA
AAGGATAGCTTCGGCTATCAAATT
Found at i:14167070 original size:119 final size:119
Alignment explanation
Indices: 14166857--14167169 Score: 414
Period size: 119 Copynumber: 2.6 Consensus size: 119
14166847 ATCATCGACA
* * *
14166857 AATGAAAAGAGATGGCTTCGGCTATCGATATATGAAAAGGGATAACTTCGGCTATCAATTATGAA
1 AATGAAAAGGGATGGCTTCGGCTATCGATCTATGAAAAAGGATAACTTCGGCTATCAATTATGAA
* * * * * **
14166922 AAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCT-TCGGCTATCGTAT
66 AAGGGATGGTGACAACCATCAAATAATGAAAAGGGATGG-TAACGACCATCAAAT
*
14166976 AATGAAAAGGGATGGCTTCGGCTATCGATCTATGAAAAAGGATAGCTTCGGCTATCAATTATGAA
1 AATGAAAAGGGATGGCTTCGGCTATCGATCTATGAAAAAGGATAACTTCGGCTATCAATTATGAA
* *
14167041 AAAGGATGGTGACAACCA-CTGAATAATGAAAAGGGATGGTAACGACCATCAAAT
66 AAGGGATGGTGACAACCATC-AAATAATGAAAAGGGATGGTAACGACCATCAAAT
* * * * *
14167095 TATGAAAAAGGATAGCTTCGGCTATCGAACTATGAAAAAGGGATAACTTCGGTTATCAATTTATG
1 AATGAAAAGGGATGGCTTCGGCTATCGATCTATGAAAAA-GGATAACTTCGGCTATCAA-TTATG
14167160 AAAAGGGATG
64 AAAAGGGATG
14167170 TGTTAACCAT
Statistics
Matches: 170, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
118 2 0.01
119 137 0.81
120 17 0.10
121 14 0.08
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (119 bp):
AATGAAAAGGGATGGCTTCGGCTATCGATCTATGAAAAAGGATAACTTCGGCTATCAATTATGAA
AAGGGATGGTGACAACCATCAAATAATGAAAAGGGATGGTAACGACCATCAAAT
Found at i:14169158 original size:18 final size:19
Alignment explanation
Indices: 14169137--14169178 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
14169127 ATTAATAGAA
* *
14169137 TAAAATATAAT-TATATTT
1 TAAAATAAAATATATATTC
14169155 TAAAAATAAAATATATATTC
1 T-AAAATAAAATATATATTC
14169175 TAAA
1 TAAA
14169179 CTCAAATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.60
20 7 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATAAAATATATATTC
Found at i:14169173 original size:20 final size:19
Alignment explanation
Indices: 14169138--14169178 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14169128 TTAATAGAAT
* *
14169138 AAAATATAATTATATTTTA
1 AAAATAAAATTATATTCTA
14169157 AAAATAAAATATATATTCTA
1 AAAATAAAAT-TATATTCTA
14169177 AA
1 AA
14169179 CTCAAATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAAAATTATATTCTA
Found at i:14172689 original size:41 final size:41
Alignment explanation
Indices: 14172644--14172737 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
14172634 GACTTTAAGT
*
14172644 CTAGCAAGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
14172685 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
14172726 CTAGCAGGCTAA
1 CTAGCAGGCTAA
14172738 TATGTATTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:14173680 original size:26 final size:28
Alignment explanation
Indices: 14173633--14173684 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
14173623 TACGAAGCAC
14173633 ACAAACAAGCAGCAAAACAAAGAAAAAA
1 ACAAACAAGCAGCAAAACAAAGAAAAAA
14173661 ACAAA-AAG-AGCAACAA-AAAGAAAA
1 ACAAACAAGCAGCAA-AACAAAGAAAA
14173685 TAGGACAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.57
27 5 0.22
28 5 0.22
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (28 bp):
ACAAACAAGCAGCAAAACAAAGAAAAAA
Found at i:14177503 original size:18 final size:19
Alignment explanation
Indices: 14177474--14177509 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
14177464 TGATATGGCC
14177474 AAAATCACTTTTTCACTTA
1 AAAATCACTTTTTCACTTA
14177493 AAAATCA-TTTTTCACTT
1 AAAATCACTTTTTCACTT
14177510 TGGCATGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATCACTTTTTCACTTA
Found at i:14182145 original size:42 final size:43
Alignment explanation
Indices: 14182084--14182201 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 43
14182074 GATTTGAGAT
*
14182084 TTACATGTAAGACCATGTCTGGGACATTGGCATCG-T-ATATAA
1 TTACATATAAGACCATGTCTGGGACATTGGCATCGATAAT-TAA
* * *
14182126 TTACGTATAAGACCTTGTCTGGGACAGTGGCATCGATAATTAA
1 TTACATATAAGACCATGTCTGGGACATTGGCATCGATAATTAA
* * *
14182169 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTACATATAAGACCATGTCTGGGACATTGGCAT
14182202 TGTACAGGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 31 0.48
43 31 0.48
44 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
TTACATATAAGACCATGTCTGGGACATTGGCATCGATAATTAA
Found at i:14182189 original size:43 final size:42
Alignment explanation
Indices: 14182045--14182201 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
14182035 TGTGACATCG
* *
14182045 TGTAAGACCACGTCTAGGACGTTGGCCTCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-A-A-TTACA
* * *
14182089 TGTAAGACCATGTCTGGGACATTGGCATCG-TATATAATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATAT-TAATTACA
* **
14182131 TATAAGACCTTGTCTGGGACAG-TGGCATCGATAATTAATTACA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGAT-ATTAATTACA
14182174 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
14182202 TGTACAGGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 31 0.33
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTAATTACA
Found at i:14185202 original size:41 final size:41
Alignment explanation
Indices: 14185145--14185236 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 41
14185135 GTTGTTTAAC
*
14185145 TAGTAAGGATTAATTATT-ATGTTGTTCTCGTAATTAATTTA
1 TAGTAAGGATTAATTATTGA-GTTGTTCTCATAATTAATTTA
*
14185186 TAGTAAGGATTAATTATTGAGTTGTTTTCATAATTAATTTA
1 TAGTAAGGATTAATTATTGAGTTGTTCTCATAATTAATTTA
14185227 TAGCTAAGGA
1 TAG-TAAGGA
14185237 AAGATCGGTG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 40 0.85
42 7 0.15
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (41 bp):
TAGTAAGGATTAATTATTGAGTTGTTCTCATAATTAATTTA
Found at i:14189653 original size:23 final size:23
Alignment explanation
Indices: 14189625--14189669 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14189615 GTTCAAAATT
*
14189625 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
14189648 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
14189670 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:14189756 original size:24 final size:24
Alignment explanation
Indices: 14189718--14190017 Score: 153
Period size: 24 Copynumber: 12.8 Consensus size: 24
14189708 TGAATTGGAT
* *
14189718 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
14189743 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
14189767 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* **
14189787 AATTCTAAAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
14189812 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
14189836 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
14189857 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** ** *
14189881 AATTTAAAATAATGTTA-ACAATG
1 AATTTAAAATAATAATATATGATA
14189904 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
14189927 AA-TTACAAATAATAAAATATTATA
1 AATTTA-AAATAATAATATATGATA
* **
14189951 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * * *
14189975 CACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
14189997 AATTTAATAATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
14190018 AACATTCAAA
Statistics
Matches: 205, Mismatches: 48, Indels: 43
0.69 0.16 0.15
Matches are distributed among these distances:
20 5 0.02
21 13 0.06
22 26 0.13
23 59 0.29
24 85 0.41
25 16 0.08
26 1 0.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:14189822 original size:69 final size:69
Alignment explanation
Indices: 14189749--14190008 Score: 181
Period size: 69 Copynumber: 3.7 Consensus size: 69
14189739 AATAAATTTG
* * *
14189749 AAATAATAATACAT-ATAAAATTTAAAAATTTTGATGAT-AATTCTAAAATA-ATCATACGTGAT
1 AAATAATAATACATAAT-AAATTTAAAAATATTAATGATAAATT-TAAAATAGAT-ATACATGAT
14189811 AAATCCA
63 AAATCCA
* * *
14189818 AAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATACATGATAAA
1 AAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATACATGATAAA
**
14189883 TTTA
66 TCCA
** * * * * * * *
14189887 AAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAA-TTACAAATA-ATAAAATATTA
1 AAATAATAATACATAATAAATTT-AAA-AATATTAATGATAAATTTA-AAATAGAT-ATACATGA
*
14189949 TAAATCTA
62 TAAATCCA
* * * * * *
14189957 AAATAATAATATACAATACACTTAGATAATATTAATGATTAATTTAATAATA
1 AAATAATAATACATAATAAATTTA-AAAATATTAATGATAAATTTAA-AATA
14190009 ATAAGTATAA
Statistics
Matches: 152, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
68 9 0.06
69 66 0.43
70 61 0.40
71 16 0.11
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (69 bp):
AAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATACATGATAAA
TCCA
Found at i:14190817 original size:22 final size:21
Alignment explanation
Indices: 14190792--14190867 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 21
14190782 TACAAATTAA
14190792 ATCTCTAAGATTACAAAATCTT
1 ATCTCTAAGATTAC-AAATCTT
* *
14190814 ATCTTCTAAGATTGCATATCTT
1 ATC-TCTAAGATTACAAATCTT
* *
14190836 A--TCTAAGATTGC--ATATT
1 ATCTCTAAGATTACAAATCTT
*
14190853 ATATCTAAGATTACA
1 ATCTCTAAGATTACA
14190868 TATCCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
17 5 0.11
19 21 0.46
22 10 0.22
23 10 0.22
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (21 bp):
ATCTCTAAGATTACAAATCTT
Found at i:14190825 original size:23 final size:22
Alignment explanation
Indices: 14190795--14190839 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14190785 AAATTAAATC
14190795 TCTAAGATTACAAAATCTTATCT
1 TCTAAGATTAC-AAATCTTATCT
* *
14190818 TCTAAGATTGCATATCTTATCT
1 TCTAAGATTACAAATCTTATCT
14190840 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (22 bp):
TCTAAGATTACAAATCTTATCT
Found at i:14190842 original size:19 final size:20
Alignment explanation
Indices: 14190818--14190871 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
14190808 AATCTTATCT
14190818 TCTAAGATTGCATATCT-TA
1 TCTAAGATTGCATATCTATA
14190837 TCTAAGATTGCATAT-TATA
1 TCTAAGATTGCATATCTATA
*
14190856 TCTAAGATTACATATC
1 TCTAAGATTGCATATC
14190872 CTTTTTCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (20 bp):
TCTAAGATTGCATATCTATA
Found at i:14191308 original size:41 final size:42
Alignment explanation
Indices: 14191263--14191345 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
14191253 AGAAATTTAT
14191263 AAATTTTGG-GG-G-CCTAACTAA-AATTTTTAAAGAATTTTCAA
1 AAATTTTGGAGGCGTCCTAAC-AAGAA-TTTTAAA-AATTTTCAA
*
14191304 AAATTTTGGAGGCGTCCTTACAAGAATTTTAAAAATTTTCAA
1 AAATTTTGGAGGCGTCCTAACAAGAATTTTAAAAATTTTCAA
14191346 GTAAAAAGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
41 9 0.24
42 11 0.30
43 10 0.27
44 7 0.19
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (42 bp):
AAATTTTGGAGGCGTCCTAACAAGAATTTTAAAAATTTTCAA
Found at i:14200993 original size:13 final size:13
Alignment explanation
Indices: 14200941--14201025 Score: 55
Period size: 13 Copynumber: 6.4 Consensus size: 13
14200931 TGAATAAATA
*
14200941 AAATGATTATATG
1 AAATGGTTATATG
* *
14200954 CATTGGTTATATAG
1 AAATGGTTATAT-G
* * *
14200968 AAGTAGATATATG
1 AAATGGTTATATG
14200981 AAATGGTTATATG
1 AAATGGTTATATG
*
14200994 -AATCAGTTATATG
1 AAAT-GGTTATATG
* *
14201007 AAAATAGATATATG
1 -AAATGGTTATATG
14201021 AAATG
1 AAATG
14201026 AAACATTGGA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
12 3 0.05
13 32 0.58
14 17 0.31
15 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:14201003 original size:40 final size:40
Alignment explanation
Indices: 14200941--14201026 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
14200931 TGAATAAATA
* ** *
14200941 AAATGATTATATGCATTGGTTATAT-AGAAGTAGATATATG
1 AAATGATTATATGAATCAGTTATATGA-AAATAGATATATG
*
14200981 AAATGGTTATATGAATCAGTTATATGAAAATAGATATATG
1 AAATGATTATATGAATCAGTTATATGAAAATAGATATATG
14201021 AAATGA
1 AAATGA
14201027 AACATTGGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (40 bp):
AAATGATTATATGAATCAGTTATATGAAAATAGATATATG
Found at i:14201011 original size:27 final size:26
Alignment explanation
Indices: 14200948--14201009 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
14200938 ATAAAATGAT
* *
14200948 TATATGCATTGGTTATATAGAAGTAGA
1 TATATGAAATGGTTATAT-GAAGTAGA
*
14200975 TATATGAAATGGTTATATGAA-TCAGT
1 TATATGAAATGGTTATATGAAGT-AGA
14201001 TATATGAAA
1 TATATGAAA
14201010 ATAGATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 14 0.45
27 16 0.52
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.37
Consensus pattern (26 bp):
TATATGAAATGGTTATATGAAGTAGA
Found at i:14201947 original size:30 final size:30
Alignment explanation
Indices: 14201913--14201969 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14201903 GCCGCATGAT
14201913 CGTGTGTCACACACCATTGTTTGGCACGAC
1 CGTGTGTCACACACCATTGTTTGGCACGAC
* **
14201943 CGTGTGTTACACACGGTTGTTTGGCAC
1 CGTGTGTCACACACCATTGTTTGGCAC
14201970 AACCATGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (30 bp):
CGTGTGTCACACACCATTGTTTGGCACGAC
Found at i:14203459 original size:23 final size:23
Alignment explanation
Indices: 14203433--14203484 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
14203423 AGGCTGAAAA
* *
14203433 TGCTAAAAATCTATTTGTTACAG
1 TGCTAAAAATCTATTTGTTAAAC
* *
14203456 TGCTGAAAATGTATTTGTTAAAC
1 TGCTAAAAATCTATTTGTTAAAC
14203479 TGCTAA
1 TGCTAA
14203485 GAAGGAAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (23 bp):
TGCTAAAAATCTATTTGTTAAAC
Found at i:14211925 original size:44 final size:44
Alignment explanation
Indices: 14211875--14211963 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
14211865 ATATATCTGA
*
14211875 CAAGTTCGCTAAATCTGACATCAATATATACATGTAGAAGGTCC
1 CAAGTTCGCTAAATCTGACATCAATATATACATGTAGAAGATCC
14211919 CAAGTTCGCTAAATCTGACATCAATATATACATGTAGAAGATCC
1 CAAGTTCGCTAAATCTGACATCAATATATACATGTAGAAGATCC
14211963 C
1 C
14211964 GAAGCTTAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (44 bp):
CAAGTTCGCTAAATCTGACATCAATATATACATGTAGAAGATCC
Found at i:14217904 original size:29 final size:30
Alignment explanation
Indices: 14217849--14217906 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
14217839 ATTGCTTTAA
14217849 TATAAATATATATAATTATTATTTAACATT
1 TATAAATATATATAATTATTATTTAACATT
* *
14217879 TATAATTA-ATATAA-TATTTTTATAACAT
1 TATAAATATATATAATTATTATT-TAACAT
14217907 AATATATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
TATAAATATATATAATTATTATTTAACATT
Found at i:14228602 original size:36 final size:39
Alignment explanation
Indices: 14228557--14228629 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 39
14228547 ATTCATCTAT
* * *
14228557 TTAATTTAAACCCCCAATCTATT-TT-TT-TTAAAAACC
1 TTAAATTAAACCCCAAATCCATTATTCTTCTTAAAAACC
14228593 TTAAATTAAACCCCAAATCCATTATTCTTCTTAAAAA
1 TTAAATTAAACCCCAAATCCATTATTCTTCTTAAAAA
14228630 ATCCCTAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 20 0.65
37 2 0.06
38 2 0.06
39 7 0.23
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (39 bp):
TTAAATTAAACCCCAAATCCATTATTCTTCTTAAAAACC
Found at i:14241623 original size:27 final size:27
Alignment explanation
Indices: 14241593--14241770 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
14241583 ATATTGAGCC
* *
14241593 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
14241620 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
14241647 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
14241675 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
14241702 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
14241729 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
14241756 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14241771 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14241732 original size:82 final size:81
Alignment explanation
Indices: 14241614--14241769 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
14241604 TGCTATATAA
* *
14241614 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCA
14241679 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
14241696 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
14241760 CACTTAGTGC
65 CACTTAGTGC
14241770 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGCCGCATGG
Found at i:14249848 original size:27 final size:27
Alignment explanation
Indices: 14249818--14249995 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
14249808 ATATTGAGCC
* *
14249818 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
14249845 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
14249872 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
14249900 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
14249927 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
14249954 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
14249981 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14249996 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14249957 original size:82 final size:81
Alignment explanation
Indices: 14249839--14249994 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
14249829 TGCTATATAA
* *
14249839 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCA
14249904 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
14249921 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
14249985 CACTTAGTGC
65 CACTTAGTGC
14249995 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGCCGCATGG
Found at i:14251523 original size:23 final size:24
Alignment explanation
Indices: 14251492--14251537 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14251482 TCCTCCCTTA
14251492 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
14251514 TTTTAATTCACTTCTTTTATTTTC
1 TTTT-ATTCACTCCTTTTATTTTC
14251538 CAATCCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 6 0.30
25 5 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:14258237 original size:57 final size:57
Alignment explanation
Indices: 14258149--14258264 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
14258139 AACCACAAGC
14258149 TAAAAAGTTAGCAATATCAGCAAACCAAGGGGTATTAAGAACATGATTTACCTTTAG
1 TAAAAAGTTAGCAATATCAGCAAACCAAGGGGTATTAAGAACATGATTTACCTTTAG
*
14258206 TAAAAAGTTAGCAATATCAGCAAACCAAGGGGTATTATGAACATGATTTACCTTTAG
1 TAAAAAGTTAGCAATATCAGCAAACCAAGGGGTATTAAGAACATGATTTACCTTTAG
14258263 TA
1 TA
14258265 TGTGTTCATC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (57 bp):
TAAAAAGTTAGCAATATCAGCAAACCAAGGGGTATTAAGAACATGATTTACCTTTAG
Found at i:14274531 original size:12 final size:13
Alignment explanation
Indices: 14274514--14274545 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
14274504 TAATTTATAA
14274514 AAAAAATTTAA-T
1 AAAAAATTTAATT
14274526 AAAAAATTTAATT
1 AAAAAATTTAATT
14274539 AAAAAAT
1 AAAAAAT
14274546 AATACTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAATTTAATT
Found at i:14276524 original size:18 final size:20
Alignment explanation
Indices: 14276485--14276527 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
14276475 GTTGGGAAAA
14276485 TTATCTAATTGAAAATTTAAT
1 TTATCTAATT-AAAATTTAAT
14276506 TTATCTAATT-AAA-TTAAT
1 TTATCTAATTAAAATTTAAT
14276524 TTAT
1 TTAT
14276528 GGATAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
21 10 0.45
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATCTAATTAAAATTTAAT
Found at i:14292639 original size:14 final size:15
Alignment explanation
Indices: 14292620--14292660 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
14292610 GCTATGCATG
14292620 CAAAATATAAAAA-A
1 CAAAATATAAAAAGA
14292634 CAAAATA-AAAAAGA
1 CAAAATATAAAAAGA
*
14292648 CATAATAGTAAAA
1 CAAAATA-TAAAA
14292661 TGTGAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.22
14 14 0.61
16 4 0.17
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (15 bp):
CAAAATATAAAAAGA
Found at i:14301664 original size:19 final size:19
Alignment explanation
Indices: 14301640--14301676 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14301630 TTTTTTGAGG
*
14301640 TTTTTTTTGCGCTTTTTAC
1 TTTTTTTTCCGCTTTTTAC
*
14301659 TTTTTTTTCCGTTTTTTA
1 TTTTTTTTCCGCTTTTTA
14301677 AAGAATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.05, C:0.14, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTTTTTTCCGCTTTTTAC
Found at i:14319763 original size:37 final size:37
Alignment explanation
Indices: 14319698--14319806 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
14319688 TACGTATGAT
* *
14319698 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
14319733 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
14319770 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
14319807 TAAAGCTATC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 10 0.14
36 3 0.04
37 56 0.81
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:14319823 original size:46 final size:46
Alignment explanation
Indices: 14319770--14320038 Score: 367
Period size: 46 Copynumber: 5.6 Consensus size: 46
14319760 TAAGTGTAGC
* **
14319770 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
14319816 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
14319862 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
14319914 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
14319960 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
14320012 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
14320039 AGTACTCAAA
Statistics
Matches: 202, Mismatches: 9, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
46 112 0.55
48 1 0.00
49 2 0.01
50 1 0.00
52 86 0.43
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:14319889 original size:52 final size:52
Alignment explanation
Indices: 14319813--14320032 Score: 326
Period size: 52 Copynumber: 4.3 Consensus size: 52
14319803 TAGCTAAAGC
* *
14319813 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
14319866 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
14319918 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
14319964 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
14320016 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
14320033 ATCAGAAGTA
Statistics
Matches: 151, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
46 43 0.28
49 1 0.01
52 89 0.59
53 18 0.12
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:14319935 original size:98 final size:98
Alignment explanation
Indices: 14319770--14320038 Score: 466
Period size: 98 Copynumber: 2.7 Consensus size: 98
14319760 TAAGTGTAGC
* * ** *
14319770 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACT
14319835 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
14319869 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
*
14319934 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
14319967 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
14320032 GATCAGA
66 GATCAGA
14320039 AGTACTCAAA
Statistics
Matches: 163, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 154 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:14323217 original size:49 final size:50
Alignment explanation
Indices: 14323162--14323365 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
14323152 TTCGTTTTCT
*
14323162 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
14323211 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
14323260 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
14323318 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
14323366 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:14323332 original size:58 final size:59
Alignment explanation
Indices: 14323246--14323364 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
14323236 TACACGAAAT
14323246 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
14323304 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
14323363 CA
1 CA
14323365 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:14323345 original size:28 final size:28
Alignment explanation
Indices: 14323255--14323345 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
14323245 TCACATATCA
14323255 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
14323283 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
14323313 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
14323341 CTTAC
1 CTTAC
14323346 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:14324681 original size:37 final size:37
Alignment explanation
Indices: 14324616--14324724 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
14324606 TACGTATGAT
* *
14324616 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
14324651 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
14324688 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
14324725 TAAAGCTATC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 10 0.14
36 3 0.04
37 56 0.81
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:14324741 original size:46 final size:46
Alignment explanation
Indices: 14324688--14324956 Score: 367
Period size: 46 Copynumber: 5.6 Consensus size: 46
14324678 TAAGTGTAGC
* **
14324688 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
14324734 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
14324780 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
14324832 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
14324878 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
14324930 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
14324957 AGTACTCAAA
Statistics
Matches: 202, Mismatches: 9, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
46 112 0.55
48 1 0.00
49 2 0.01
50 1 0.00
52 86 0.43
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:14324807 original size:52 final size:52
Alignment explanation
Indices: 14324731--14324950 Score: 326
Period size: 52 Copynumber: 4.3 Consensus size: 52
14324721 TAGCTAAAGC
* *
14324731 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
14324784 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
14324836 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
14324882 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
14324934 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
14324951 ATCAGAAGTA
Statistics
Matches: 151, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
46 43 0.28
49 1 0.01
52 89 0.59
53 18 0.12
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:14324853 original size:98 final size:98
Alignment explanation
Indices: 14324688--14324956 Score: 466
Period size: 98 Copynumber: 2.7 Consensus size: 98
14324678 TAAGTGTAGC
* * ** *
14324688 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACT
14324753 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
14324787 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
*
14324852 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
14324885 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
14324950 GATCAGA
66 GATCAGA
14324957 AGTACTCAAA
Statistics
Matches: 163, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 154 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:14330913 original size:8 final size:8
Alignment explanation
Indices: 14330900--14330952 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
14330890 CCGTAAAAAT
14330900 TAAAATAA
1 TAAAATAA
14330908 TAAAATAA
1 TAAAATAA
*
14330916 TAATAT-A
1 TAAAATAA
*
14330923 TCCATAAATAT
1 T--A-AAATAA
14330934 TAAAATAA
1 TAAAATAA
14330942 TAAAATAA
1 TAAAATAA
14330950 TAA
1 TAA
14330953 CTTACTCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 2 0.05
8 29 0.78
9 2 0.05
10 3 0.08
11 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAATAA
Found at i:14330920 original size:34 final size:34
Alignment explanation
Indices: 14330882--14330952 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
14330872 AATACGACCT
*
14330882 TAATATATCCGTAAAAATTAAAATAATAAAATAA
1 TAATATATCCATAAAAATTAAAATAATAAAATAA
*
14330916 TAATATATCCATAAATATTAAAATAATAAAATAA
1 TAATATATCCATAAAAATTAAAATAATAAAATAA
14330950 TAA
1 TAA
14330953 CTTACTCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (34 bp):
TAATATATCCATAAAAATTAAAATAATAAAATAA
Found at i:14331271 original size:27 final size:27
Alignment explanation
Indices: 14331241--14331294 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
14331231 ATGAAATGGA
14331241 AGTAAAATTCATTATGTATGTATGCTT
1 AGTAAAATTCATTATGTATGTATGCTT
14331268 AGTAAAATTCATTATGTATGTATGCTT
1 AGTAAAATTCATTATGTATGTATGCTT
14331295 TGTATATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (27 bp):
AGTAAAATTCATTATGTATGTATGCTT
Found at i:14335739 original size:22 final size:22
Alignment explanation
Indices: 14335711--14335784 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
14335701 ACCATAACTG
14335711 AAAGATGCTATGACATCATGAT
1 AAAGATGCTATGACATCATGAT
* *
14335733 AAAGATGAATAAGA-A-CATAGAT
1 AAAGATG-CTATGACATCAT-GAT
**
14335755 GAAAGATGCTATGACATCACCAT
1 -AAAGATGCTATGACATCATGAT
14335778 AAAGATG
1 AAAGATG
14335785 AGTAAATGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
21 3 0.07
22 22 0.54
23 14 0.34
24 2 0.05
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (22 bp):
AAAGATGCTATGACATCATGAT
Found at i:14335761 original size:45 final size:45
Alignment explanation
Indices: 14335687--14335785 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
14335677 GCTATACGCC
* * * **
14335687 TAAAAATGAGTAAGACCATAACTGAAAGATGCTATGACATCATGA
1 TAAAGATGAATAAGAACATAACTGAAAGATGCTATGACATCACCA
14335732 TAAAGATGAATAAGAACATAGA-TGAAAGATGCTATGACATCACCA
1 TAAAGATGAATAAGAACATA-ACTGAAAGATGCTATGACATCACCA
14335777 TAAAGATGA
1 TAAAGATGA
14335786 GTAAATGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (45 bp):
TAAAGATGAATAAGAACATAACTGAAAGATGCTATGACATCACCA
Found at i:14335938 original size:18 final size:18
Alignment explanation
Indices: 14335908--14335971 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
14335898 ATTAGGCATA
14335908 ATTTTAGTA-AATTTTATT
1 ATTTTA-TATAATTTTATT
*
14335926 ATTTTATATAATTTAGTGTT
1 ATTTTATATAATTT--TATT
* *
14335946 AATTTTACATAATTTTACT
1 -ATTTTATATAATTTTATT
14335965 ATTTTAT
1 ATTTTAT
14335972 GCAATGTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
17 2 0.05
18 17 0.46
19 2 0.05
20 3 0.08
21 13 0.35
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTATATAATTTTATT
Found at i:14337401 original size:15 final size:16
Alignment explanation
Indices: 14337371--14337402 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14337361 TTGTATTTCA
14337371 TTGCATTTAGGTTAAT
1 TTGCATTTAGGTTAAT
14337387 TTGCATTTA-GTTAAT
1 TTGCATTTAGGTTAAT
14337402 T
1 T
14337403 AATTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (16 bp):
TTGCATTTAGGTTAAT
Found at i:14347456 original size:24 final size:24
Alignment explanation
Indices: 14347404--14347563 Score: 92
Period size: 25 Copynumber: 6.5 Consensus size: 24
14347394 GTACATGTAT
* *
14347404 GCTCATACGAGCTCTAAACCGGTAT
1 GCTCATACGAGCTGTAAA-CGGTAA
*
14347429 GCTCTTACGAGCTGTAAACGGTAA
1 GCTCATACGAGCTGTAAACGGTAA
* *
14347453 GCTCCT-CTGAGCTGAATAACGGTAA
1 GCTCATAC-GAGCTGTA-AACGGTAA
* * * *
14347478 GCTCCTCCAAGCTGAATAACGGTAA
1 GCTCATACGAGCTGTA-AACGGTAA
* * * **
14347503 ACTCCT-CTAAGCTAAATAACGGTAA
1 GCTCATAC-GAGCTGTA-AACGGTAA
*
14347528 GCTCATACGAGTTG-AGTAACGGTAA
1 GCTCATACGAGCTGTA--AACGGTAA
14347553 GCTCATACGAG
1 GCTCATACGAG
14347564 ATTAAATTGG
Statistics
Matches: 116, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.01
24 19 0.16
25 94 0.81
26 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGCTGTAAACGGTAA
Found at i:14347479 original size:25 final size:25
Alignment explanation
Indices: 14347437--14347556 Score: 136
Period size: 25 Copynumber: 4.8 Consensus size: 25
14347427 ATGCTCTTAC
*
14347437 GAGCTGTA-AACGGTAAGCTCCTCT
1 GAGCTGAATAACGGTAAGCTCCTCT
*
14347461 GAGCTGAATAACGGTAAGCTCCTCC
1 GAGCTGAATAACGGTAAGCTCCTCT
* *
14347486 AAGCTGAATAACGGTAAACTCCTCT
1 GAGCTGAATAACGGTAAGCTCCTCT
* * *
14347511 AAGCTAAATAACGGTAAGCTCATAC-
1 GAGCTGAATAACGGTAAGCTCCT-CT
* *
14347536 GAGTTGAGTAACGGTAAGCTC
1 GAGCTGAATAACGGTAAGCTC
14347557 ATACGAGATT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
24 7 0.09
25 74 0.90
26 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCCTCT
Found at i:14347548 original size:50 final size:50
Alignment explanation
Indices: 14347423--14347552 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
14347413 AGCTCTAAAC
* * * * * * *
14347423 CGGTATGCTCTTACGAGCTGTA-AACGGTAAGCTCCTCTGAGCTGAATAA
1 CGGTAAGCTCATACAAGCTGAATAACGGTAAACTCCTCTAAGCTAAATAA
* *
14347472 CGGTAAGCTCCTCCAAGCTGAATAACGGTAAACTCCTCTAAGCTAAATAA
1 CGGTAAGCTCATACAAGCTGAATAACGGTAAACTCCTCTAAGCTAAATAA
* * *
14347522 CGGTAAGCTCATACGAGTTGAGTAACGGTAA
1 CGGTAAGCTCATACAAGCTGAATAACGGTAA
14347553 GCTCATACGA
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 17 0.25
50 50 0.75
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (50 bp):
CGGTAAGCTCATACAAGCTGAATAACGGTAAACTCCTCTAAGCTAAATAA
Found at i:14356054 original size:25 final size:25
Alignment explanation
Indices: 14355960--14356079 Score: 100
Period size: 25 Copynumber: 4.8 Consensus size: 25
14355950 GTTACCAATG
* * * * *
14355960 TCAGCTCGTATGAGCTTACTGATAC
1 TCAGCTCGAAGGAGCTTACCGTTAT
* * *
14355985 TCAGCTCGCATGAGCTTACTGTTAT
1 TCAGCTCGAAGGAGCTTACCGTTAT
* *
14356010 CCAGCTCGGAGGAGCTTACCGTTAT
1 TCAGCTCGAAGGAGCTTACCGTTAT
*
14356035 TCAGCTCGAAGGAGCTTACCATT-T
1 TCAGCTCGAAGGAGCTTACCGTTAT
* *
14356059 ACAGCTCGTAA-GAGCATACCG
1 TCAGCTCG-AAGGAGCTTACCG
14356080 ATTCAGAGCT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
24 16 0.20
25 65 0.80
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (25 bp):
TCAGCTCGAAGGAGCTTACCGTTAT
Found at i:14361957 original size:25 final size:24
Alignment explanation
Indices: 14361915--14361992 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
14361905 GGGATTACCA
* *
14361915 ATTTCATCTTGTATGAGCTTATCG
1 ATTTCAGCTCGTATGAGCTTATCG
14361939 ATTTGCAGCTCGTGA-GAGCTTATCG
1 ATTT-CAGCTCGT-ATGAGCTTATCG
*
14361964 ATTCTCAGCTCGTATGAGCTTACCG
1 ATT-TCAGCTCGTATGAGCTTATCG
14361989 ATTT
1 ATTT
14361993 ACATCTCATG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 6 0.13
25 39 0.83
26 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
ATTTCAGCTCGTATGAGCTTATCG
Found at i:14362016 original size:50 final size:50
Alignment explanation
Indices: 14361925--14362030 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
14361915 ATTTCATCTT
* * * * ** *
14361925 GTATGAGCTTATCGATTTGCAGCTCGTGAGAGCTTATCGATTC-TCAGCTC
1 GTATGAGCTTACCGATTTACAGCTCATGAAAGCAGACCGATTCAT-AGCTC
*
14361975 GTATGAGCTTACCGATTTACATCTCATGAAAGCAGACCGATTCATAGCTC
1 GTATGAGCTTACCGATTTACAGCTCATGAAAGCAGACCGATTCATAGCTC
*
14362025 GAATGA
1 GTATGA
14362031 CCATACATGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
GTATGAGCTTACCGATTTACAGCTCATGAAAGCAGACCGATTCATAGCTC
Found at i:14363151 original size:15 final size:16
Alignment explanation
Indices: 14363131--14363160 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14363121 TGGTACCTTG
14363131 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
14363146 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
14363161 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:14381052 original size:11 final size:11
Alignment explanation
Indices: 14381038--14381062 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14381028 GAAGAGAATG
14381038 GAAAAAAAAAA
1 GAAAAAAAAAA
14381049 GAAAAAAAAAA
1 GAAAAAAAAAA
14381060 GAA
1 GAA
14381063 GGAAAGTTAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:14386269 original size:20 final size:20
Alignment explanation
Indices: 14386230--14386270 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14386220 ATTCATGAAG
*
14386230 TTAAAAAAATAAATCTTAAT
1 TTAAAAAAATAAATCGTAAT
14386250 TTAAAGAAAATAAA-CGTAAT
1 TTAAA-AAAATAAATCGTAAT
14386270 T
1 T
14386271 ATCTACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TTAAAAAAATAAATCGTAAT
Found at i:14398206 original size:18 final size:17
Alignment explanation
Indices: 14398173--14398211 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14398163 TTGTATAAAT
14398173 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
14398191 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
14398208 TGTG
1 TGTG
14398212 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:14398472 original size:23 final size:23
Alignment explanation
Indices: 14398437--14398534 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
14398427 AGTGTTATTG
*
14398437 ATCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
14398460 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
14398483 CT-AGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14398505 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14398528 ATCAGTG
1 ATCAGTG
14398535 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:14398510 original size:45 final size:45
Alignment explanation
Indices: 14398442--14398527 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
14398432 TATTGATCAA
* *
14398442 TGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATCTAG
1 TGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATCTAG
14398487 TGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 TGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
14398528 ATCAGTGTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.34
Consensus pattern (45 bp):
TGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATCTAG
Found at i:14420722 original size:29 final size:28
Alignment explanation
Indices: 14420648--14420945 Score: 258
Period size: 29 Copynumber: 10.2 Consensus size: 28
14420638 GTGTGCTAAA
* *
14420648 CGATGGTCAAAACCATCCCTTTTCTTTAAT
1 CGATGGTC-AAACCATCCCTTTTC-ATATT
14420678 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTC-AAACCATCCCTTTTCATATT
*
14420707 CAATGGTCAAAGCCATCCCTTTTCATATT
1 CGATGGTCAAA-CCATCCCTTTTCATATT
*
14420736 TGATGGTCAAAACCATCCCTTTTCATATT
1 CGATGGTC-AAACCATCCCTTTTCATATT
* * ** *
14420765 TGATAGTCGTCACCATCCCTTTACATATT
1 CGATGGTC-AAACCATCCCTTTTCATATT
*
14420794 CGATGGTCATCACCATCCCTTTTCATATT
1 CGATGGTCA-AACCATCCCTTTTCATATT
* * * * *
14420823 TGATAGTTGAAACCATCCATTTTCTTTAATT
1 CGAT-GGTCAAACCATCCCTTTTC-AT-ATT
* *
14420854 -GATGGTCGAAGCCATCCCTTTTCACATT
1 CGATGGTC-AAACCATCCCTTTTCATATT
** *
14420882 TAATGGTCATCACCATCCCTTTTCATA-T
1 CGATGGTCA-AACCATCCCTTTTCATATT
* *
14420910 CTAATGGTCGAAACCATCCGTTTTCATATT
1 C-GATGGTC-AAACCATCCCTTTTCATATT
14420940 CGATGG
1 CGATGG
14420946 GTGTCGATAC
Statistics
Matches: 221, Mismatches: 35, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
28 8 0.04
29 161 0.73
30 49 0.22
31 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (28 bp):
CGATGGTCAAACCATCCCTTTTCATATT
Found at i:14420758 original size:58 final size:57
Alignment explanation
Indices: 14420649--14420945 Score: 290
Period size: 58 Copynumber: 5.1 Consensus size: 57
14420639 TGTGCTAAAC
* * * *
14420649 GATGGTCAAAACCATCCCTTTTCTTTAATCGATGGTCGAAACCATCCCTTTTCATATTC
1 GATGGTC-AAACCATCCCTTTTC-ATATTTGATGGTCGAAACCATCCCTTTTCATATTT
* *
14420708 AATGGTCAAAGCCATCCCTTTTCATATTTGATGGTCAAAACCATCCCTTTTCATATTT
1 GATGGTCAAA-CCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTT
* ** * * *
14420766 GATAGTCGTCACCATCCCTTTACATATTCGATGGTC-ATCACCATCCCTTTTCATATTT
1 GATGGTC-AAACCATCCCTTTTCATATTTGATGGTCGA-AACCATCCCTTTTCATATTT
* * * * * * *
14420824 GATAGTTGAAACCATCCATTTTCTTTAATTGATGGTCGAAGCCATCCCTTTTCACATTT
1 GAT-GGTCAAACCATCCCTTTTC-ATATTTGATGGTCGAAACCATCCCTTTTCATATTT
* * * * * *
14420883 AATGGTCATCACCATCCCTTTTCATATCTAATGGTCGAAACCATCCGTTTTCATATTC
1 GATGGTCA-AACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTT
14420941 GATGG
1 GATGG
14420946 GTGTCGATAC
Statistics
Matches: 191, Mismatches: 40, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
57 1 0.01
58 128 0.67
59 61 0.32
60 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (57 bp):
GATGGTCAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTT
Found at i:14420895 original size:117 final size:116
Alignment explanation
Indices: 14420680--14420945 Score: 313
Period size: 117 Copynumber: 2.3 Consensus size: 116
14420670 TCTTTAATCG
* *
14420680 ATGGTCGAAACCATCCCTTTTCATATTCAATGGTCAAAGCCATCCCTTTTCATATTTGATGGTCA
1 ATGGTCGAAACCATCCCTTTTCATATTCAATGGTCAAAGCCATCCATTTTCATAATTGATGGTCA
* * * *
14420745 AAACCATCCCTTTTCATATTTGATAGTCGTCACCATCCCTTTACATAT-TCG
66 AAACCATCCCTTTTCACATTTAATAGTCATCACCATCCCTTTACATATCT-A
* ** * * *
14420796 ATGGTC-ATCACCATCCCTTTTCATATTTGATAGTTGAAA-CCATCCATTTTCTTTAATTGATGG
1 ATGGTCGA-AACCATCCCTTTTCATATTCAAT-GGTCAAAGCCATCCATTTTC-ATAATTGATGG
* * * *
14420859 TCGAAGCCATCCCTTTTCACATTTAATGGTCATCACCATCCCTTTTCATATCTA
63 TCAAAACCATCCCTTTTCACATTTAATAGTCATCACCATCCCTTTACATATCTA
* *
14420913 ATGGTCGAAACCATCCGTTTTCATATTCGATGG
1 ATGGTCGAAACCATCCCTTTTCATATTCAATGG
14420946 GTGTCGATAC
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
115 1 0.01
116 38 0.30
117 84 0.67
118 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (116 bp):
ATGGTCGAAACCATCCCTTTTCATATTCAATGGTCAAAGCCATCCATTTTCATAATTGATGGTCA
AAACCATCCCTTTTCACATTTAATAGTCATCACCATCCCTTTACATATCTA
Found at i:14423436 original size:50 final size:50
Alignment explanation
Indices: 14423361--14423537 Score: 248
Period size: 50 Copynumber: 3.7 Consensus size: 50
14423351 ATTTGGGTAA
14423361 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
14423411 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
14423461 AGAGGTCCCATGTAAGACCATG--T----C-T---GTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
14423501 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGT
14423538 CTGGGACATG
Statistics
Matches: 111, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
40 35 0.32
42 1 0.01
43 1 0.01
44 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
50 70 0.63
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:14423489 original size:40 final size:40
Alignment explanation
Indices: 14423445--14423526 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
14423435 TGGGACATGG
* *
14423445 TGTTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGTTGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
14423485 TGTTGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
1 TGTTGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
14423525 TG
1 TG
14423527 GGACATGGCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TGTTGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
Found at i:14423541 original size:14 final size:14
Alignment explanation
Indices: 14423522--14423549 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14423512 ATAAGACCAT
14423522 GTCTGGGACATGGC
1 GTCTGGGACATGGC
14423536 GTCTGGGACATGGC
1 GTCTGGGACATGGC
14423550 ATGGACACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.43, T:0.21
Consensus pattern (14 bp):
GTCTGGGACATGGC
Found at i:14433411 original size:14 final size:14
Alignment explanation
Indices: 14433392--14433425 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
14433382 CGCCTCCCTT
14433392 GAGTACGATCCTGG
1 GAGTACGATCCTGG
14433406 GAGTACGATCCTGG
1 GAGTACGATCCTGG
14433420 GAGTAC
1 GAGTAC
14433426 TCACCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (14 bp):
GAGTACGATCCTGG
Found at i:14436393 original size:63 final size:63
Alignment explanation
Indices: 14436321--14436446 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
14436311 ATTTACTAAT
* *
14436321 CTCACGTAATACCTTTTAACATTTTGGAGAAATAAGGTAGGCAAGGGAAGGAGAAATAAAGAG
1 CTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAAATAAAGAG
*
14436384 CTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAGATAAAGAG
1 CTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAAATAAAGAG
14436447 GTGATCTTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.21
Consensus pattern (63 bp):
CTCACGTAATACCTTCTAACATTTTGGAAAAATAAGGTAGGCAAGGGAAGGAGAAATAAAGAG
Found at i:14442690 original size:21 final size:21
Alignment explanation
Indices: 14442664--14442703 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14442654 ACACACCAAC
14442664 AGAAGCTCATCAGAGTTGAAT
1 AGAAGCTCATCAGAGTTGAAT
* *
14442685 AGAAGCTCGTGAGAGTTGA
1 AGAAGCTCATCAGAGTTGA
14442704 TCCACCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (21 bp):
AGAAGCTCATCAGAGTTGAAT
Found at i:14445435 original size:67 final size:68
Alignment explanation
Indices: 14445301--14445703 Score: 409
Period size: 68 Copynumber: 6.0 Consensus size: 68
14445291 TTAGAGTTAG
* * * * **
14445301 CGATTTAAGATCGCGCTTCTATCTTACAGTCCGTTGATTTAAGATCACAACTAACCTACATAGCA
1 CGATTTAAGATCGTGTTTCTATCTTATAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
14445366 TGC
66 TGC
* * * * * *
14445369 CGACTTAAGATTGTATTTCT-TCTTACAGTCCATTGATTTAAGATCATGGCTAACCTACATAACA
1 CGATTTAAGATCGTGTTTCTATCTTATAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
14445433 TGC
66 TGC
* * * * * * *
14445436 CGATTTAAGATTGTGCTTCTATATTATAGTCCAGTGATTTGAGATCACGGCTAGCCTGCATAGCA
1 CGATTTAAGATCGTGTTTCTATCTTATAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
*
14445501 TGT
66 TGC
* ** * * * * * *
14445504 CAATTTAAGATCACGCTTCTATCTTA-AATCCGTT-ACTTTAAAATCATGACTAACCTACATAGC
1 CGATTTAAGATCGTGTTTCTATCTTATAGTCCATTGA-TTTAAGATCACGGCTAACCTACATAGC
*
14445567 ACGC
65 ATGC
*
14445571 CGATTTAAGATCGTGTTTCTATCTTATAGTCCGCTT-ATTTAAGATCACGGCTAACCTACATAGC
1 CGATTTAAGATCGTGTTTCTATCTTATAGTCC-ATTGATTTAAGATCACGGCTAACCTACATAGC
14445635 ATGC
65 ATGC
* ** * * * * *
14445639 CGATTTAAAATCACGTTTTTATCTTATAGTCCATTGATTTAATATCACAGCTAGCCTAAATAGCA
1 CGATTTAAGATCGTGTTTCTATCTTATAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
14445704 GTTTTCTCAG
Statistics
Matches: 273, Mismatches: 57, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
66 1 0.00
67 111 0.41
68 158 0.58
69 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (68 bp):
CGATTTAAGATCGTGTTTCTATCTTATAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCA
TGC
Found at i:14445544 original size:135 final size:135
Alignment explanation
Indices: 14445301--14445664 Score: 392
Period size: 135 Copynumber: 2.7 Consensus size: 135
14445291 TTAGAGTTAG
* * * * **
14445301 CGATTTAAGATCGCGCTTCTATCTTACAGTCCGTTGATTTAAGATCACAACTAACCTACATAGCA
1 CGATTTAAGATCGTGCTTCTATATTATAGTCCGCTGATTTAAGATCACGGCTAACCTACATAGCA
* * * ***** * * * *
14445366 TGCCGACTTAAGATTGTATTTCT-TCTTACAGTCCATTGA-TTTAAGATCATGGCTAACCTACAT
66 TGCCAATTTAAAATCACGCTTCTATCTTA-AATCCGTT-ACTTTAAAATCATGACTAACCTACAT
*
14445429 AACATGC
129 AACACGC
* * * *
14445436 CGATTTAAGATTGTGCTTCTATATTATAGTCCAG-TGATTTGAGATCACGGCTAGCCTGCATAGC
1 CGATTTAAGATCGTGCTTCTATATTATAGTCC-GCTGATTTAAGATCACGGCTAACCTACATAGC
* *
14445500 ATGTCAATTTAAGATCACGCTTCTATCTTAAATCCGTTACTTTAAAATCATGACTAACCTACATA
65 ATGCCAATTTAAAATCACGCTTCTATCTTAAATCCGTTACTTTAAAATCATGACTAACCTACATA
*
14445565 GCACGC
130 ACACGC
* * *
14445571 CGATTTAAGATCGTGTTTCTATCTTATAGTCCGCTTATTTAAGATCACGGCTAACCTACATAGCA
1 CGATTTAAGATCGTGCTTCTATATTATAGTCCGCTGATTTAAGATCACGGCTAACCTACATAGCA
* * *
14445636 TGCCGATTTAAAATCACGTTTTTATCTTA
66 TGCCAATTTAAAATCACGCTTCTATCTTA
14445665 TAGTCCATTG
Statistics
Matches: 190, Mismatches: 35, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
134 2 0.01
135 182 0.96
136 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (135 bp):
CGATTTAAGATCGTGCTTCTATATTATAGTCCGCTGATTTAAGATCACGGCTAACCTACATAGCA
TGCCAATTTAAAATCACGCTTCTATCTTAAATCCGTTACTTTAAAATCATGACTAACCTACATAA
CACGC
Found at i:14445668 original size:203 final size:203
Alignment explanation
Indices: 14445303--14445695 Score: 522
Period size: 203 Copynumber: 1.9 Consensus size: 203
14445293 AGAGTTAGCG
* * * *
14445303 ATTTAAGATCGCGCTTCTATCTTACAGTCCGTTGATTTAAGATCACAACTAACCTACATAGCATG
1 ATTTAAGATCACGCTTCTATCTTACAATCCGTTGATTTAAAATCACAACTAACCTACATAGCACG
* *
14445368 CCGACTTAAGATTGTATTTCTTCTTACAGTCCATTGATTTAAGATCATGGCTAACCTACATAACA
66 CCGACTTAAGATCGTATTTCTTCTTACAGTCCATTGATTTAAGATCACGGCTAACCTACATAACA
* *** * *
14445433 TGCCGATTTAAGATTGTGCTTCTATATTATAGTCCAGTGATTTGAGATCACGGCTAGCCTGCATA
131 TGCCGATTTAAAATCACGCTTCTATATTATAGTCCAGTGATTTAAGATCACAGCTAGCCTGCATA
14445498 GCATGTCA
196 GCATGTCA
**
14445506 ATTTAAGATCACGCTTCTATCTTA-AATCCGTT-ACTTTAAAATCATGACTAACCTACATAGCAC
1 ATTTAAGATCACGCTTCTATCTTACAATCCGTTGA-TTTAAAATCACAACTAACCTACATAGCAC
* * * *
14445569 GCCGATTTAAGATCGTGTTTCTATCTTATAGTCCGCTT-ATTTAAGATCACGGCTAACCTACATA
65 GCCGACTTAAGATCGTATTTCT-TCTTACAGTCC-ATTGATTTAAGATCACGGCTAACCTACATA
* * * * * *
14445633 GCATGCCGATTTAAAATCACGTTTTTATCTTATAGTCCATTGATTTAATATCACAGCTAGCCT
128 ACATGCCGATTTAAAATCACGCTTCTATATTATAGTCCAGTGATTTAAGATCACAGCTAGCCT
14445696 AAATAGCAGT
Statistics
Matches: 163, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
201 1 0.01
202 51 0.31
203 109 0.67
204 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (203 bp):
ATTTAAGATCACGCTTCTATCTTACAATCCGTTGATTTAAAATCACAACTAACCTACATAGCACG
CCGACTTAAGATCGTATTTCTTCTTACAGTCCATTGATTTAAGATCACGGCTAACCTACATAACA
TGCCGATTTAAAATCACGCTTCTATATTATAGTCCAGTGATTTAAGATCACAGCTAGCCTGCATA
GCATGTCA
Found at i:14459072 original size:21 final size:21
Alignment explanation
Indices: 14459048--14459090 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
14459038 TAGATACTTA
*
14459048 TGCACAAA-TTTAATTTCTAAT
1 TGCA-AAACTTTAATATCTAAT
14459069 TGCAAAACTTTAATATCTAAT
1 TGCAAAACTTTAATATCTAAT
14459090 T
1 T
14459091 TTCAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
TGCAAAACTTTAATATCTAAT
Found at i:14462153 original size:27 final size:27
Alignment explanation
Indices: 14462122--14462199 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
14462112 ATAGGTTGAG
*
14462122 AAGCTTTAAGAAACCTAAAAATAGAGA
1 AAGCTTTAAAAAACCTAAAAATAGAGA
* *
14462149 AAGCTTAAAAAAATCTAAAAATA-A-A
1 AAGCTTTAAAAAACCTAAAAATAGAGA
* *
14462174 ACAG-GTTAATAAACC-AAAAATAGAGA
1 A-AGCTTTAAAAAACCTAAAAATAGAGA
14462200 TAAGATATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
24 7 0.17
25 10 0.24
26 4 0.10
27 20 0.49
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.18
Consensus pattern (27 bp):
AAGCTTTAAAAAACCTAAAAATAGAGA
Found at i:14462893 original size:30 final size:29
Alignment explanation
Indices: 14462859--14462918 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
14462849 TTTATTTTTT
*
14462859 TAAAGTAAGGTTTTTTAAGGA-TAGGGTTTA
1 TAAAGTAAGGTTATTT--GGATTAGGGTTTA
*
14462889 TAAAGTATGGTTATTTGGATTAGGGTTTA
1 TAAAGTAAGGTTATTTGGATTAGGGTTTA
14462918 T
1 T
14462919 GGTTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 10 0.37
30 14 0.52
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (29 bp):
TAAAGTAAGGTTATTTGGATTAGGGTTTA
Found at i:14463343 original size:15 final size:15
Alignment explanation
Indices: 14463323--14463352 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14463313 TACTGATAGC
*
14463323 GCGTCCAGTTGGAAG
1 GCGTCCAGCTGGAAG
14463338 GCGTCCAGCTGGAAG
1 GCGTCCAGCTGGAAG
14463353 CACTTTCAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (15 bp):
GCGTCCAGCTGGAAG
Found at i:14463436 original size:16 final size:16
Alignment explanation
Indices: 14463415--14463448 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14463405 TTTTTTCAAT
*
14463415 AGTGCGTCCAGTTGGA
1 AGTGCGTCCAGCTGGA
14463431 AGTGCGTCCAGCTGGA
1 AGTGCGTCCAGCTGGA
14463447 AG
1 AG
14463449 CGCTTTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (16 bp):
AGTGCGTCCAGCTGGA
Found at i:14463449 original size:96 final size:98
Alignment explanation
Indices: 14463317--14463521 Score: 317
Period size: 96 Copynumber: 2.1 Consensus size: 98
14463307 CAAAATTACT
*
14463317 GATAGCGCGTCCAGTTGGAAGGCGTCCAGCTGGAAGCACTTTCAGCTGACATAGCACTGAAAACA
1 GATAGTGCGTCCAGTTGGAAGGCGTCCAGCTGGAAGCACTTTCAGCTGACATAGCACTGAAAACA
**
14463382 CTTCCAGTTGGATGC-CCTTTA-TGTTTTTTCA
66 CTTCCAACTGGATGCACCTTTAGTGTTTTTTCA
* *
14463413 -ATAGTGCGTCCAGTTGGAAGTGCGTCCAGCTGGAAGCGCTTTTAGCTGACATAGCACTGAAAAC
1 GATAGTGCGTCCAGTTGGAAG-GCGTCCAGCTGGAAGCACTTTCAGCTGACATAGCACTGAAAAC
*
14463477 GCTTCCAACTGGATGCACCTTTAGTGTTTTTTCA
65 ACTTCCAACTGGATGCACCTTTAGTGTTTTTTCA
*
14463511 GACAGTGCGTC
1 GATAGTGCGTC
14463522 TTGCTTGGAG
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
95 19 0.19
96 54 0.55
97 6 0.06
98 10 0.10
99 9 0.09
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (98 bp):
GATAGTGCGTCCAGTTGGAAGGCGTCCAGCTGGAAGCACTTTCAGCTGACATAGCACTGAAAACA
CTTCCAACTGGATGCACCTTTAGTGTTTTTTCA
Found at i:14468305 original size:49 final size:47
Alignment explanation
Indices: 14468242--14468336 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 47
14468232 TCCCTCTCCT
*
14468242 TCTTCCCCACCATCCATCCTCCTACTCTGATTCTTTCCTTCTCTCCCCC
1 TCTTCCCCACCATCCATCCTCCTACTATGATTCTTTCC--CTCTCCCCC
*
14468291 TCTTCCCCACCATCCCTCCTCCTACTATGATTCTTTCCCTCTCCCC
1 TCTTCCCCACCATCCATCCTCCTACTATGATTCTTTCCCTCTCCCC
14468337 TACCGTCCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 8 0.18
49 36 0.82
ACGTcount: A:0.11, C:0.52, G:0.02, T:0.36
Consensus pattern (47 bp):
TCTTCCCCACCATCCATCCTCCTACTATGATTCTTTCCCTCTCCCCC
Found at i:14471659 original size:3 final size:3
Alignment explanation
Indices: 14471646--14471688 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
14471636 CTAAGCAAAT
14471646 TAA TGAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14471689 GCAAACTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14476044 original size:29 final size:30
Alignment explanation
Indices: 14475985--14476044 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
14475975 TACTAAACTT
14475985 TCAAAAAACAACAAATCGATCACTAACATTA
1 TCAAAAAACAACAAATCGATCACT-ACATTA
**
14476016 TCAAAAAGTAACAAATC-AGTCACT-CATTA
1 TCAAAAAACAACAAATCGA-TCACTACATTA
14476045 ACATTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 1 0.04
31 20 0.77
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.22
Consensus pattern (30 bp):
TCAAAAAACAACAAATCGATCACTACATTA
Found at i:14476166 original size:3 final size:3
Alignment explanation
Indices: 14476158--14476190 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14476148 AGCAGAAGGG
14476158 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
14476191 AAAACCAGTC
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:14476765 original size:19 final size:19
Alignment explanation
Indices: 14476743--14476781 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14476733 GAATTGTTCT
14476743 AAAAAGATAA-AATAGAGAG
1 AAAAAGATAACAA-AGAGAG
*
14476762 AAAAATATAACAAAGAGAG
1 AAAAAGATAACAAAGAGAG
14476781 A
1 A
14476782 TAAACAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.69, C:0.03, G:0.18, T:0.10
Consensus pattern (19 bp):
AAAAAGATAACAAAGAGAG
Done.