Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 10 of 378
Found at i:2964590 original size:21 final size:21
Alignment explanation
Indices: 2964566--2964621 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
2964556 AACAGCGGTG
* **
2964566 GCGGTAAGATTAGTTACTGTA
1 GCGGTGAGATTAGACACTGTA
*
2964587 GCGGTGAGATTGGACACTGTA
1 GCGGTGAGATTAGACACTGTA
2964608 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
2964622 AACAGCGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGACACTGTA
Found at i:2966998 original size:18 final size:17
Alignment explanation
Indices: 2966975--2967017 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2966965 ATCGTGTTTG
2966975 ATTTTTATTTCTAAATTT
1 ATTTTTATTT-TAAATTT
*
2966993 ATTTTTGATTTTAGATTT
1 ATTTTT-ATTTTAAATTT
*
2967011 ATCTTTA
1 ATTTTTA
2967018 ACATATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
ATTTTTATTTTAAATTT
Found at i:2971773 original size:23 final size:21
Alignment explanation
Indices: 2971743--2971789 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
2971733 AATACTAAAG
2971743 TTTATTTTTATA-TTTTGTTTTGA
1 TTTATTTTT-TACTTTT-TTTT-A
2971766 TTTATTTTTTACTTTTTTTTA
1 TTTATTTTTTACTTTTTTTTA
2971787 TTT
1 TTT
2971790 GAAAAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 6 0.26
23 13 0.57
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (21 bp):
TTTATTTTTTACTTTTTTTTA
Found at i:2972140 original size:49 final size:49
Alignment explanation
Indices: 2972061--2972159 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
2972051 TATTTATTTT
* * *
2972061 TGTTAAAAGGTGGCAACAAACAGCATATGTACA-TTATCCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAGCACATGTA-AGCTACCCGGATGAAATA
*
2972110 TGTTAAAAGGTGGCAACAAATAGCACATGTAAGCTACCCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAGCACATGTAAGCTACCCGGATGAAATA
2972159 T
1 T
2972160 AGCAACATGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.02
49 44 0.98
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (49 bp):
TGTTAAAAGGTGGCAACAAACAGCACATGTAAGCTACCCGGATGAAATA
Found at i:2975769 original size:39 final size:39
Alignment explanation
Indices: 2975715--2975790 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
2975705 CTATGGAGTA
*
2975715 TGACGAACTGTCAAATGTCTCACGATCTCTTCTGACTTG
1 TGACGAACTGTCAAATGTCTCACGATCCCTTCTGACTTG
2975754 TGACGAACTGTCAAATGTCTCACGATCCCTTCTGACT
1 TGACGAACTGTCAAATGTCTCACGATCCCTTCTGACT
2975791 AGCACAATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (39 bp):
TGACGAACTGTCAAATGTCTCACGATCCCTTCTGACTTG
Found at i:2981433 original size:46 final size:46
Alignment explanation
Indices: 2981381--2981648 Score: 367
Period size: 46 Copynumber: 5.8 Consensus size: 46
2981371 AGTGTTCTCT
* **
2981381 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
2981427 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
2981473 GAGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
2981519 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
2981565 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
2981612 ATGATA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATAC
2981649 TATGACATCA
Statistics
Matches: 204, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 162 0.79
47 42 0.21
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2984542 original size:26 final size:26
Alignment explanation
Indices: 2984505--2984640 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
2984495 TGATACAAAT
* *
2984505 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
2984531 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
2984557 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
2984583 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
2984609 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
2984635 TGATAA
1 TGATAA
2984641 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:2987920 original size:49 final size:49
Alignment explanation
Indices: 2987841--2987938 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
2987831 CAAGGAGGAG
* *
2987841 TGTTAAAAGGTGGCAACAAACAACATATGTACGTTA-TCCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAACACATGTAAGTTACT-CGGATGAAATA
* * *
2987890 TGTTAAATGGTGGCAACAAATAGCACATGTAAGTTACTCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAACACATGTAAGTTACTCGGATGAAATA
2987939 CAGCAACATG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (49 bp):
TGTTAAAAGGTGGCAACAAACAACACATGTAAGTTACTCGGATGAAATA
Found at i:2997191 original size:15 final size:15
Alignment explanation
Indices: 2997171--2997201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2997161 TAAAATATGT
2997171 TAATATCGATACATA
1 TAATATCGATACATA
*
2997186 TAATATCTATACATA
1 TAATATCGATACATA
2997201 T
1 T
2997202 CAGTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (15 bp):
TAATATCGATACATA
Found at i:2997788 original size:23 final size:23
Alignment explanation
Indices: 2997762--2997807 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2997752 TGGTTAGTAA
2997762 CTTATTTTAATCCTGTTTTATTT
1 CTTATTTTAATCCTGTTTTATTT
2997785 CTTATTTTAATCCTGTTTTATTT
1 CTTATTTTAATCCTGTTTTATTT
2997808 TCTTGTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.04, T:0.65
Consensus pattern (23 bp):
CTTATTTTAATCCTGTTTTATTT
Found at i:3002115 original size:37 final size:36
Alignment explanation
Indices: 3002041--3002117 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 36
3002031 TGAATTGATG
*
3002041 AAATTGTAGAATAAGAAAATTTATTTTTGAGGAATT
1 AAATTGTAGAATAAGAAAATTTATTTTAGAGGAATT
3002077 AAATTGTAGAATGATA-AAAATTTAGATTTTAGA-G-ATT
1 AAATTGTAGAAT-A-AGAAAATTT--ATTTTAGAGGAATT
3002114 AAAT
1 AAAT
3002118 CTTAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
36 12 0.33
37 15 0.42
38 2 0.06
39 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (36 bp):
AAATTGTAGAATAAGAAAATTTATTTTAGAGGAATT
Found at i:3003809 original size:13 final size:15
Alignment explanation
Indices: 3003791--3003824 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3003781 CCTAGGAATA
3003791 TAGAGG-AA-TGGAG
1 TAGAGGTAATTGGAG
3003804 TAGAGGTAATTGGAG
1 TAGAGGTAATTGGAG
3003819 TAGAGG
1 TAGAGG
3003825 GTGTTTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 2 0.11
15 11 0.58
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (15 bp):
TAGAGGTAATTGGAG
Found at i:3005560 original size:18 final size:18
Alignment explanation
Indices: 3005533--3005567 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3005523 TTGATAATTA
*
3005533 TTAAGTATTTTAAGTTAT
1 TTAAGAATTTTAAGTTAT
*
3005551 TTAAGAATTTTATGTTA
1 TTAAGAATTTTAAGTTA
3005568 GCAAGAAAGT
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:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TTAAGAATTTTAAGTTAT
Found at i:3006386 original size:16 final size:15
Alignment explanation
Indices: 3006348--3006396 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
3006338 AAAAGTGATC
*
3006348 AAAAAAGTACAAAAA
1 AAAAAAATACAAAAA
3006363 AAATAAAATACGAAAAA
1 AAA-AAAATAC-AAAAA
3006380 AAAAAAA-A-AAAAA
1 AAAAAAATACAAAAA
3006393 AAAA
1 AAAA
3006397 TCATGTGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 9 0.29
15 4 0.13
16 10 0.32
17 8 0.26
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (15 bp):
AAAAAAATACAAAAA
Found at i:3009442 original size:11 final size:12
Alignment explanation
Indices: 3009426--3009454 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
3009416 CGCCACGTTC
3009426 TATCTTTCCA-T
1 TATCTTTCCATT
3009437 TATCTTTCCATT
1 TATCTTTCCATT
3009449 TATCTT
1 TATCTT
3009455 CTTTATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:3009654 original size:2 final size:2
Alignment explanation
Indices: 3009647--3009678 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3009637 ACCATTTATC
3009647 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
3009679 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3014003 original size:17 final size:18
Alignment explanation
Indices: 3013973--3014014 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
3013963 ATTTATCAGC
* *
3013973 TTTTTAATATTTTTTTTA
1 TTTTTAATAGTTTTTTAA
3013991 TTTTTAA-AGTTTTTTAA
1 TTTTTAATAGTTTTTTAA
3014008 TTTTTAA
1 TTTTTAA
3014015 GAATCAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTAATAGTTTTTTAA
Found at i:3033659 original size:2 final size:2
Alignment explanation
Indices: 3033652--3033676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3033642 TTTAGTTTGT
3033652 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 T
3033677 TAATATGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3038391 original size:10 final size:10
Alignment explanation
Indices: 3038374--3038412 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
3038364 TTAAGTTAAA
3038374 TAAATTTTAT
1 TAAATTTTAT
*
3038384 TCAATTTTAT
1 TAAATTTTAT
**
3038394 TAAATTTGGT
1 TAAATTTTAT
3038404 TAAATTTTA
1 TAAATTTTA
3038413 GTTTGTTATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (10 bp):
TAAATTTTAT
Found at i:3038426 original size:2 final size:2
Alignment explanation
Indices: 3038419--3038445 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3038409 TTTAGTTTGT
3038419 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 T
3038446 TAATATAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3038577 original size:11 final size:11
Alignment explanation
Indices: 3038543--3038577 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
3038533 TAAATTTCTC
3038543 TAAAATAATAA
1 TAAAATAATAA
*
3038554 CAAAATTAATAA
1 TAAAA-TAATAA
3038566 TAAAATAATAA
1 TAAAATAATAA
3038577 T
1 T
3038578 TATACAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:3038621 original size:22 final size:23
Alignment explanation
Indices: 3038591--3038637 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
3038581 ACAATATCCA
3038591 AATATTAATAATAAAATAATAGC
1 AATATTAATAATAAAATAATAGC
* *
3038614 AATA-TAATAATGAAATGATAGC
1 AATATTAATAATAAAATAATAGC
3038636 AA
1 AA
3038638 CAAGAGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (23 bp):
AATATTAATAATAAAATAATAGC
Found at i:3040499 original size:21 final size:22
Alignment explanation
Indices: 3040469--3040514 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 22
3040459 ATGTATATAT
3040469 ATCATATATATCATATATTTTC
1 ATCATATATATCATATATTTTC
3040491 ATCTATATATATCATATATTTTC
1 ATC-ATATATATCATATATTTTC
3040514 A
1 A
3040515 CACACATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (22 bp):
ATCATATATATCATATATTTTC
Found at i:3041169 original size:31 final size:32
Alignment explanation
Indices: 3041112--3041171 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
3041102 ATATGTATGA
*
3041112 TTGAACTAAAAATTAAAGTTTCATGTATACAT
1 TTGAACTAAAAATCAAAGTTTCATGTATACAT
* *
3041144 TTGAACT-ACAATCAAAGTTTTATGTATA
1 TTGAACTAAAAATCAAAGTTTCATGTATA
3041172 TAATTACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (32 bp):
TTGAACTAAAAATCAAAGTTTCATGTATACAT
Found at i:3042188 original size:17 final size:18
Alignment explanation
Indices: 3042150--3042185 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3042140 TATATATATG
3042150 TATTGAAAATTTTGATTT
1 TATTGAAAATTTTGATTT
* *
3042168 TATTGAAATTTTTTATTT
1 TATTGAAAATTTTGATTT
3042186 ATTTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
TATTGAAAATTTTGATTT
Found at i:3046253 original size:27 final size:27
Alignment explanation
Indices: 3046216--3046355 Score: 153
Period size: 27 Copynumber: 5.2 Consensus size: 27
3046206 AGCATGGCTG
* * *
3046216 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
3046242 CCAGATCCAGATA-ATCGTGGCA-AGGCCA
1 CCAGAT-CAGATATAT-GTGGCAGA-GCCA
*
3046270 CCAGAAT-AGACATATGTGGCAGAGCCA
1 CCAG-ATCAGATATATGTGGCAGAGCCA
*
3046297 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
3046324 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
3046351 CCAGA
1 CCAGA
3046356 ACGCTTCCTC
Statistics
Matches: 100, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.07
27 76 0.76
28 15 0.15
29 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Found at i:3048010 original size:26 final size:26
Alignment explanation
Indices: 3047974--3048083 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
3047964 CATGAATTTC
*
3047974 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
3048000 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
3048026 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
3048052 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3048078 TTATCA
1 TTATCA
3048084 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3048523 original size:2 final size:2
Alignment explanation
Indices: 3048516--3048553 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3048506 TTGTTTTGGG
3048516 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
3048554 TATCTTTTAA
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:3050103 original size:12 final size:12
Alignment explanation
Indices: 3050086--3050133 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
3050076 TGGGAGTAAA
3050086 GTTTTATATTTG
1 GTTTTATATTTG
*
3050098 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
3050113 GTTTTATATTTG
1 GTTTTATATTTG
3050125 GTTTTATAT
1 GTTTTATAT
3050134 GTTAATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:3050116 original size:27 final size:27
Alignment explanation
Indices: 3050082--3050138 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
3050072 TTAGTGGGAG
3050082 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
3050109 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
3050136 TAA
1 TAA
3050139 TGACATACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTTATATGT
Found at i:3052712 original size:2 final size:2
Alignment explanation
Indices: 3052705--3052740 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3052695 ATCAATATTA
3052705 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
3052741 TAAAGGTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3058171 original size:2 final size:2
Alignment explanation
Indices: 3058164--3058193 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3058154 TGAAGGGTTA
3058164 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
3058194 GGAGGTAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3061292 original size:24 final size:24
Alignment explanation
Indices: 3061258--3061312 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
3061248 ATATGTATAC
*
3061258 ATGAGTTGATGAAAGTTATGAATT
1 ATGAGTCGATGAAAGTTATGAATT
3061282 ATGAGTCGATGAAAGTTATGAATT
1 ATGAGTCGATGAAAGTTATGAATT
3061306 ATGAGTC
1 ATGAGTC
3061313 CTGATGGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (24 bp):
ATGAGTCGATGAAAGTTATGAATT
Found at i:3061453 original size:21 final size:21
Alignment explanation
Indices: 3061427--3061468 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3061417 GGTGTCTCAA
3061427 GTTTAGATACTATTAGCTGCC
1 GTTTAGATACTATTAGCTGCC
3061448 GTTTAGATACTATTAGCTGCC
1 GTTTAGATACTATTAGCTGCC
3061469 CTCCTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
GTTTAGATACTATTAGCTGCC
Found at i:3061777 original size:81 final size:83
Alignment explanation
Indices: 3061639--3061795 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 83
3061629 TAAAGACATT
* * *
3061639 TTAAGTTAAGACTTACCAGTATTGTCAGTTTAGATTTCTGCAGAGGCATTATGTTGTT-T-TATG
1 TTAAGTTAAGACTTACCAGTATTGTCAGTTTAAAGTTCTGCAGAGGCATTATATTGTTCTGTATG
* *
3061702 TATTGTATATGAGCTATG
66 GATTGCATATGAGCTATG
* * * * *
3061720 TTAAGTTCAGATTTACCAGTATTGTCAGTTTAAAGTTCTGCGGAGTCCTTATATTGTTCTGTATG
1 TTAAGTTAAGACTTACCAGTATTGTCAGTTTAAAGTTCTGCAGAGGCATTATATTGTTCTGTATG
3061785 GATTGCATATG
66 GATTGCATATG
3061796 TTCAATATTA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 50 0.78
82 1 0.02
83 13 0.20
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (83 bp):
TTAAGTTAAGACTTACCAGTATTGTCAGTTTAAAGTTCTGCAGAGGCATTATATTGTTCTGTATG
GATTGCATATGAGCTATG
Found at i:3062610 original size:3 final size:3
Alignment explanation
Indices: 3062602--3062630 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3062592 CTTTGCTTTT
3062602 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
3062631 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:3063788 original size:24 final size:24
Alignment explanation
Indices: 3063759--3063809 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
3063749 CTCCATTCAA
*
3063759 TCGTAGACGTAGCCCTTCTCCAAT
1 TCGTAGACGGAGCCCTTCTCCAAT
* *
3063783 TCGTAGGCGGAGCCGTTCTCCAAT
1 TCGTAGACGGAGCCCTTCTCCAAT
3063807 TCG
1 TCG
3063810 CAGGCCTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.31, G:0.24, T:0.27
Consensus pattern (24 bp):
TCGTAGACGGAGCCCTTCTCCAAT
Found at i:3063814 original size:24 final size:24
Alignment explanation
Indices: 3063769--3063814 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3063759 TCGTAGACGT
*
3063769 AGCCCTTCTCCAATTCGTAGGCGG
1 AGCCCTTCTCCAATTCGCAGGCGG
*
3063793 AGCCGTTCTCCAATTCGCAGGC
1 AGCCCTTCTCCAATTCGCAGGC
3063815 CTCTTCGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.35, G:0.24, T:0.24
Consensus pattern (24 bp):
AGCCCTTCTCCAATTCGCAGGCGG
Found at i:3065566 original size:15 final size:16
Alignment explanation
Indices: 3065536--3065574 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
3065526 TAGTAAAAAT
3065536 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
3065553 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
3065568 ATAATTT
1 ATAATTT
3065575 TCAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:3071304 original size:2 final size:2
Alignment explanation
Indices: 3071292--3071329 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
3071282 TTGTATATGA
3071292 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3071330 ATGTTTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 29 0.88
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3071522 original size:29 final size:26
Alignment explanation
Indices: 3071465--3071523 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
3071455 TTGAAAAAAT
* *
3071465 ATATTTGATAATTTTAATTATCTCAA
1 ATATTTAATAATTTTAATTATATCAA
3071491 ATATTTAATAATTTTAGCAATTATATCAA
1 ATATTTAATAATTTT---AATTATATCAA
3071520 ATAT
1 ATAT
3071524 ATTTTCAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 14 0.50
29 14 0.50
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATTTAATAATTTTAATTATATCAA
Found at i:3075649 original size:13 final size:13
Alignment explanation
Indices: 3075631--3075656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3075621 GAGTTCCCTC
3075631 CATGTTTCAGCTT
1 CATGTTTCAGCTT
3075644 CATGTTTCAGCTT
1 CATGTTTCAGCTT
3075657 TCATTTTGTA
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:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
CATGTTTCAGCTT
Found at i:3076925 original size:22 final size:23
Alignment explanation
Indices: 3076893--3076949 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
3076883 AAAGGGGGGG
*
3076893 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
3076915 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
**
3076938 AGAGATTGTATT
1 ATCGATTGTATT
3076950 AGAGGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:3076944 original size:23 final size:22
Alignment explanation
Indices: 3076900--3076949 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
3076890 GGGATCGATG
**
3076900 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
3076922 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
3076945 GTATT
1 GTATT
3076950 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:3077673 original size:39 final size:40
Alignment explanation
Indices: 3077558--3077710 Score: 238
Period size: 39 Copynumber: 3.9 Consensus size: 40
3077548 ATAAAGTATG
*
3077558 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
3077598 GTTTTAATTAATAATAAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAAT-AAAAACAAAATAGTATGGGGGAATA
* *
3077639 GTTTTAATTAATAAT-AAAACAAAATAGTACGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
3077678 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGG
3077711 AGGAGTGGAA
Statistics
Matches: 106, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 52 0.49
40 15 0.14
41 39 0.37
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:3078262 original size:2 final size:2
Alignment explanation
Indices: 3078235--3078289 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
3078225 AAATATTTTA
* *
3078235 AT AT -T AT AT -T AT GT AT AC AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3078274 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
3078290 CTTTTAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3079559 original size:13 final size:13
Alignment explanation
Indices: 3079541--3079565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3079531 GAGTTTTGAG
3079541 TTCTTCGATCTGC
1 TTCTTCGATCTGC
3079554 TTCTTCGATCTG
1 TTCTTCGATCTG
3079566 TTCCCTATAA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:3079612 original size:44 final size:44
Alignment explanation
Indices: 3079548--3079810 Score: 266
Period size: 44 Copynumber: 6.0 Consensus size: 44
3079538 GAGTTCTTCG
*
3079548 ATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
* *
3079591 ATCTGCTGTCTTCAA-CTTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCAA
*
3079635 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCAT
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCAA
* ** * * * * * * *
3079679 GT-TGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGCCAA
* * *
3079723 ATCTGCTATCTTCGATCTGTTCCCTATAAGCAAAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
* * *
3079767 ATCTGCTGTTTTTCAA-CTTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCT-ATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCA
3079811 TGCTGAAATC
Statistics
Matches: 185, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
43 19 0.10
44 122 0.66
45 44 0.24
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:3079735 original size:45 final size:44
Alignment explanation
Indices: 3079548--3079874 Score: 156
Period size: 44 Copynumber: 7.5 Consensus size: 44
3079538 GAGTTCTTCG
* * *
3079548 ATCTGCT-TCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGCTTCACTATAAGCACAGGAATG-CAA
* * * * * *
3079591 ATCTGCTGTCTTC-AACTTG-TTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGCTTCACTATAAGCACAGGAATG-CAA
* * * * *
3079635 ATCTGCTATCTTC-AACTTG-TTCCCTATAAACACAGGGATGC-C
1 ATCTGCTATCTTCGATC-TGCTTCACTATAAGCACAGGAATGCAA
* ** * *
3079677 ATGTTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTGCTTCACTATAAGCACAGGAATG-CAA
* * *
3079723 ATCTGCTATCTTCGATCTG-TTCCCTATAAGCAAAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGCTTCACTATAAGCACAGGAATG-CAA
* * * * * *
3079767 ATCTGCTGTTTTTC-AACTTG-TTCCCTATAAGCACAGGGATGC-C
1 ATCTGCT-ATCTTCGATC-TGCTTCACTATAAGCACAGGAATGCAA
** * * * *
3079810 ATGCTGAAATCTTCGATCTGCTTCACTGTAA-CTCAGGAAGGCGAT
1 AT-CTGCTATCTTCGATCTGCTTCACTATAAGCACAGGAATGC-AA
*
3079855 ATCTGCTATCTTTGATCTGC
1 ATCTGCTATCTTCGATCTGC
3079875 CCCCGTCTAC
Statistics
Matches: 228, Mismatches: 42, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
42 2 0.01
43 36 0.16
44 145 0.64
45 43 0.19
46 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTTCACTATAAGCACAGGAATGCAA
Found at i:3080259 original size:205 final size:205
Alignment explanation
Indices: 3079921--3080488 Score: 987
Period size: 205 Copynumber: 2.8 Consensus size: 205
3079911 GATTTGCTCC
3079921 CTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCCAAATC
1 CTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCCAAATC
3079986 AGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATATTGGATCTGCTTCAGT
66 AGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATATTGGATCTGCTTCAGT
*
3080051 GAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGCGAATATGCCAAACTTC
131 GAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGCGAAGATGCCAAACTTC
3080116 GATTCATTCT
196 GATTCATTCT
*
3080126 CTGACGATACAGAGACGACAAATCATATTAGATTTGCTTTCTCGTAATCACGTGAAAGCCAAATC
1 CTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCCAAATC
3080191 AGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATATTGGATCTGCTTCAGT
66 AGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATATTGGATCTGCTTCAGT
*
3080256 GAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAACTTC
131 GAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGCGAAGATGCCAAACTTC
*
3080321 GATTCGTTCT
196 GATTCATTCT
* * * *
3080331 CTGGCGATACAGAGACGACAAATAATCTTAGATTTGCTTTTTCGTAATCACGTGAAAACCAAATC
1 CTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCCAAATC
* * * *
3080396 AGCTATGTCCTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTCGGATCTGCTTCAGT
66 AGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATATTGGATCTGCTTCAGT
* *
3080461 -ATAA-CATCTGAAGGCCAGATCTGTTATG
131 GA-AATCATCTGAAGGCGAGATCTGCTATG
3080489 CTGCGGCCTA
Statistics
Matches: 347, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
204 23 0.07
205 324 0.93
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (205 bp):
CTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCCAAATC
AGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATATTGGATCTGCTTCAGT
GAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGCGAAGATGCCAAACTTC
GATTCATTCT
Found at i:3088456 original size:13 final size:15
Alignment explanation
Indices: 3088426--3088456 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3088416 TTCCAGATTT
3088426 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
3088441 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
3088456 T
1 T
3088457 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:3088542 original size:15 final size:14
Alignment explanation
Indices: 3088500--3088549 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
3088490 ATAACTTTGA
*
3088500 ATGCAAATGATGTG
1 ATGCAAATGATGAG
3088514 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
3088529 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
3088543 ATGCAAA
1 ATGCAAA
3088550 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:3092383 original size:2 final size:2
Alignment explanation
Indices: 3092376--3092420 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
3092366 ATATTAAAAG
* *
3092376 AT AT AT AT AT AT AT AT AT AT AT AT A- AT GT AT AC AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3092416 A- AT AT
1 AT AT AT
3092421 TAAAATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3093090 original size:39 final size:39
Alignment explanation
Indices: 3092955--3093092 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
3092945 TGCTACTTTG
* * *
3092955 TTTTATTATTAATTAAAACTACTCCCC-TACTATTTT-G
1 TTTTATTATTAATTAAAACCATTCCCCATACTATTTTAT
*
3092992 TTTTATTATTAATTAAAACTATTCCCCCATACTATTTTAT
1 TTTTATTATTAATTAAAACCATT-CCCCATACTATTTTAT
3093032 TTTTATTATTAATTAAAACCATTCCCCATACTATTTTAT
1 TTTTATTATTAATTAAAACCATTCCCCATACTATTTTAT
3093071 TTTTATTATTAATTAAAACCAT
1 TTTTATTATTAATTAAAACCAT
3093093 ACTTTATTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
37 22 0.23
38 4 0.04
39 47 0.49
40 22 0.23
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.49
Consensus pattern (39 bp):
TTTTATTATTAATTAAAACCATTCCCCATACTATTTTAT
Found at i:3093746 original size:22 final size:23
Alignment explanation
Indices: 3093698--3093754 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
3093688 AACCCCCTCT
**
3093698 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCTCTCCCCAA
*
3093721 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
*
3093743 AATACCATCGAT
1 AATACAATCGAT
3093755 CCCCCTCCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:3098077 original size:27 final size:28
Alignment explanation
Indices: 3098013--3098077 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
3098003 ATATATGTCT
*
3098013 ATAA-AAAAACTAAAAAGAATTATTATA
1 ATAATAAAAATTAAAAAGAATTATTATA
* ** *
3098040 TTAATTCAAATTAAAAA-AATTATTTTA
1 ATAATAAAAATTAAAAAGAATTATTATA
3098067 ATAATAAAAAT
1 ATAATAAAAAT
3098078 AGATGAAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (28 bp):
ATAATAAAAATTAAAAAGAATTATTATA
Found at i:3098420 original size:16 final size:17
Alignment explanation
Indices: 3098401--3098433 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3098391 ATTTTAGAGC
3098401 ATATAAATTTGA-AACT
1 ATATAAATTTGATAACT
*
3098417 ATATATATTTGATAACT
1 ATATAAATTTGATAACT
3098434 TTTTCAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
ATATAAATTTGATAACT
Found at i:3098551 original size:21 final size:19
Alignment explanation
Indices: 3098523--3098572 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
3098513 TATTTTAGAA
3098523 AATTTTTAAATTTCTTTAT
1 AATTTTTAAATTTCTTTAT
* *
3098542 ATATTCTTTAGATTTTTTTAT
1 A-ATT-TTTAAATTTCTTTAT
3098563 AATTTTTAAA
1 AATTTTTAAA
3098573 AAATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 14 0.54
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTAAATTTCTTTAT
Found at i:3101027 original size:23 final size:22
Alignment explanation
Indices: 3101001--3101060 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
3100991 TGGGTTTGAA
3101001 TTTGGGAATTGATATTGTTTTTT
1 TTTGGGAATTGATATT-TTTTTT
**
3101024 TTTGGGGTTTG--ATTTTTTTT
1 TTTGGGAATTGATATTTTTTTT
**
3101044 TTTGGTCATTGATATTT
1 TTTGGGAATTGATATTT
3101061 CCTTAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 14 0.47
21 3 0.10
22 4 0.13
23 9 0.30
ACGTcount: A:0.13, C:0.02, G:0.22, T:0.63
Consensus pattern (22 bp):
TTTGGGAATTGATATTTTTTTT
Found at i:3107056 original size:3 final size:3
Alignment explanation
Indices: 3107048--3107084 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3107038 TTTCTCTCTC
3107048 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3107085 ATTTTTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3108215 original size:6 final size:6
Alignment explanation
Indices: 3108204--3108228 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3108194 TCTTAAAAAA
3108204 CCAAAG CCAAAG CCAAAG CCAAAG C
1 CCAAAG CCAAAG CCAAAG CCAAAG C
3108229 AAAATCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.16, T:0.00
Consensus pattern (6 bp):
CCAAAG
Found at i:3115566 original size:14 final size:14
Alignment explanation
Indices: 3115547--3115577 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3115537 AAATATATTT
3115547 AATTTCCTCATTCA
1 AATTTCCTCATTCA
3115561 AATTTCCTCATTCA
1 AATTTCCTCATTCA
3115575 AAT
1 AAT
3115578 GGATTCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTCCTCATTCA
Found at i:3115825 original size:17 final size:17
Alignment explanation
Indices: 3115803--3115837 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3115793 GTCATTCCAC
3115803 TATAGTATTATGACTGT
1 TATAGTATTATGACTGT
*
3115820 TATAGTATTATGATTGT
1 TATAGTATTATGACTGT
3115837 T
1 T
3115838 CATGACTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (17 bp):
TATAGTATTATGACTGT
Found at i:3117155 original size:3 final size:3
Alignment explanation
Indices: 3117147--3117184 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
3117137 ATATCTGGCA
3117147 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3117185 ACAAAAAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3119840 original size:24 final size:23
Alignment explanation
Indices: 3119796--3119840 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3119786 AAAAATAAAA
* *
3119796 ATAAAAAATAAAATTTTATTTTG
1 ATAAAAAATAAAAATTAATTTTG
3119819 ATAAAAATATAAAAATTAATTT
1 ATAAAAA-ATAAAAATTAATTT
3119841 ATAATGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAAAAATAAAAATTAATTTTG
Found at i:3130617 original size:12 final size:12
Alignment explanation
Indices: 3130600--3130624 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3130590 ATAACTCTTG
3130600 TTTTATTATTAA
1 TTTTATTATTAA
3130612 TTTTATTATTAA
1 TTTTATTATTAA
3130624 T
1 T
3130625 GTGAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATTATTAA
Found at i:3133181 original size:16 final size:17
Alignment explanation
Indices: 3133162--3133247 Score: 65
Period size: 16 Copynumber: 5.2 Consensus size: 17
3133152 AGTATAAATG
3133162 ATATACAAAATAAT-AT
1 ATATACAAAATAATAAT
3133178 ATATAC-AAATAAATAAT
1 ATATACAAAAT-AATAAT
*
3133195 ATACACAAAATACA-AAT
1 ATATACAAAATA-ATAAT
** * *
3133212 AGCT-TAATATAAATAAT
1 ATATACAAAAT-AATAAT
3133229 ATATA-AAAATAATAAT
1 ATATACAAAATAATAAT
3133245 ATA
1 ATA
3133248 ATATTTAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
15 4 0.07
16 23 0.43
17 22 0.41
18 5 0.09
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.29
Consensus pattern (17 bp):
ATATACAAAATAATAAT
Found at i:3133189 original size:15 final size:15
Alignment explanation
Indices: 3133155--3133199 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
3133145 ACGAAACAGT
*
3133155 ATAAATGATATACAA
1 ATAAATAATATACAA
3133170 A-ATAATATATATACAA
1 ATA-AATA-ATATACAA
3133186 ATAAATAATATACA
1 ATAAATAATATACA
3133200 CAAAATACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 11 0.42
16 13 0.50
17 1 0.04
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAATAATATACAA
Found at i:3133250 original size:21 final size:20
Alignment explanation
Indices: 3133220--3133258 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3133210 ATAGCTTAAT
3133220 ATAAATAATATATAAAAATA
1 ATAAATAATATATAAAAATA
*
3133240 ATAATATAATATTTAAAAA
1 ATAA-ATAATATATAAAAA
3133259 ATGTTCATAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAATAATATATAAAAATA
Found at i:3133799 original size:13 final size:13
Alignment explanation
Indices: 3133781--3133806 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3133771 GGTAATAGGG
3133781 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
3133794 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
3133807 GGAATTAGTG
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:3133846 original size:17 final size:17
Alignment explanation
Indices: 3133824--3133857 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3133814 GTGGCAAGTA
3133824 GGGTGATGGAGTTAGTG
1 GGGTGATGGAGTTAGTG
3133841 GGGTGATGGAGTTAGTG
1 GGGTGATGGAGTTAGTG
3133858 ATCGGTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (17 bp):
GGGTGATGGAGTTAGTG
Found at i:3136503 original size:18 final size:18
Alignment explanation
Indices: 3136452--3136504 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
3136442 CAGTTGCTCT
* *
3136452 ATAACAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
3136470 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
3136488 GTAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
3136505 CGTAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:3137710 original size:15 final size:15
Alignment explanation
Indices: 3137686--3137721 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3137676 CAATTTTTCC
*
3137686 CTTT-TTCCTTCTTT
1 CTTTCTTCCTTCCTT
3137700 CTTTCTTCCTTCCTT
1 CTTTCTTCCTTCCTT
3137715 CTTTCTT
1 CTTTCTT
3137722 TCCCCCTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTCTTCCTTCCTT
Found at i:3142729 original size:3 final size:3
Alignment explanation
Indices: 3142672--3142711 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
3142662 TTTCGTTTCT
3142672 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3142712 GTGTATACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3142876 original size:23 final size:22
Alignment explanation
Indices: 3142837--3142879 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
3142827 ATTATCATTA
3142837 TTATTAATATTAGTGTATATTT
1 TTATTAATATTAGTGTATATTT
3142859 TTATTATATATGTA-TGTATAT
1 TTATTA-ATAT-TAGTGTATAT
3142880 GTATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (22 bp):
TTATTAATATTAGTGTATATTT
Found at i:3142939 original size:50 final size:50
Alignment explanation
Indices: 3142885--3143087 Score: 145
Period size: 50 Copynumber: 4.2 Consensus size: 50
3142875 TATATGTATA
3142885 TATATTTGTATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTAT
1 TATATTTGTATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTAT
* * *** * * *
3142935 TATATTTGCT-TTTTGTA-T-TTCAATATTACTATTACTATTATTATTATTAT
1 TATATTTG-TATATAGTATTATTTTTTATTACT-TTA-TTTTAATATTTTTAT
* * * * ** * *
3142985 TAT-TATATAT-TAGTGTATATTTTTTATTA-TATA-CGT-ATATGTATA-
1 TATATTTGTATATAGTAT-TATTTTTTATTACTTTATTTTAATATTTTTAT
* *
3143030 TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATGTTTTTAT
1 TATATTTGTATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTAT
3143080 TATATTTG
1 TATATTTG
3143088 CTTTTTGTAT
Statistics
Matches: 109, Mismatches: 31, Indels: 26
0.66 0.19 0.16
Matches are distributed among these distances:
45 3 0.03
46 23 0.21
47 9 0.08
48 14 0.13
49 15 0.14
50 37 0.34
51 8 0.07
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (50 bp):
TATATTTGTATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTAT
Found at i:3142978 original size:3 final size:3
Alignment explanation
Indices: 3142958--3142996 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
3142948 TGTATTTCAA
* *
3142958 TAT TAC TAT TAC TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
3142997 GTGTATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:3143027 original size:26 final size:25
Alignment explanation
Indices: 3142998--3143047 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
3142988 TATATATTAG
*
3142998 TGTATAT-TTTTTATTATATACGTATA
1 TGTATATATATTTA-TATATA-GTATA
3143024 TGTATATATATTTATATATAGTAT
1 TGTATATATATTTATATATAGTAT
3143048 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (25 bp):
TGTATATATATTTATATATAGTATA
Found at i:3143097 original size:145 final size:141
Alignment explanation
Indices: 3142680--3143270 Score: 881
Period size: 141 Copynumber: 4.2 Consensus size: 141
3142670 CTTTATTAAT
* * * *
3142680 TATTATTATTATTATTATTATTATTATTATTAGTGTATA-CTTT-TTAT-TATATACGTATATGT
1 TATTATTACTATTATCATTATTATTAATATTAGTGTATATTTTTATTATATATATACGTATATGT
**
3142742 ATATATATTTACGTATAGTATTA-TTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTT
66 ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTT
3142806 TTGTATTTCAA
131 TTGTATTTCAA
* *
3142817 TATTATTACTATTATCATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATATGT
1 TATTATTACTATTATCATTATTATTAATATTAGTGTATATTTTTATTATATATATACGTATATGT
*
3142882 ATATATATTTGTATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTT
66 ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTT
3142947 TTGTATTTCAA
131 TTGTATTTCAA
*
3142958 TATTACTATTACTATTATTATTATTATTATTATATATTAGTGTATA-TTTT-TTAT-TATATACG
1 TA-T--TATTAC---TATTATCATTATTATTA-ATATTAGTGTATATTTTTATTATATATATACG
*
3143020 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATGTTTTTATTATAT
59 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
3143085 TTGCTTTTTGTATTTCAA
124 TTGCTTTTTGTATTTCAA
* *
3143103 TATTATTACTATTATCATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATATGT
1 TATTATTACTATTATCATTATTATTAATATTAGTGTATATTTTTATTATATATATACGTATATGT
* *
3143168 ATATATATTTATATATAGTATTATTCTTTTATTACTTTATTCTAATATTATTATTATATTTGCTT
66 ATATATATTTATATATAGTATTATT-TTTTATTACTTTATTTTAATATTTTTATTATATTTGCTT
*
3143233 TTTGTATTTCAT
130 TTTGTATTTCAA
* * * *
3143245 TATTATTGCTAGTATTATTATCATTA
1 TATTATTACTATTATCATTATTATTA
3143271 TCATCATTAT
Statistics
Matches: 414, Mismatches: 25, Indels: 25
0.89 0.05 0.05
Matches are distributed among these distances:
137 36 0.09
138 16 0.04
139 24 0.06
140 37 0.09
141 92 0.22
142 76 0.18
144 7 0.02
145 89 0.21
146 4 0.01
147 20 0.05
148 13 0.03
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (141 bp):
TATTATTACTATTATCATTATTATTAATATTAGTGTATATTTTTATTATATATATACGTATATGT
ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTT
TTGTATTTCAA
Found at i:3143166 original size:10 final size:10
Alignment explanation
Indices: 3143149--3143188 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
3143139 ATATTTTTAT
3143149 TATATATGTA
1 TATATATGTA
*
3143159 TGTATATGTA
1 TATATATGTA
*
3143169 TATATATTTA
1 TATATATGTA
3143179 TATATA-GTA
1 TATATATGTA
3143188 T
1 T
3143189 TATTCTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 3 0.12
10 23 0.88
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATATATGTA
Found at i:3143192 original size:16 final size:16
Alignment explanation
Indices: 3143138--3143184 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
3143128 AATATTAGTG
*
3143138 TATATTTTTAT-TATA
1 TATATATTTATATATA
* * *
3143153 TATGTATGTATATGTA
1 TATATATTTATATATA
3143169 TATATATTTATATATA
1 TATATATTTATATATA
3143185 GTATTATTCT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TATATATTTATATATA
Found at i:3154565 original size:45 final size:45
Alignment explanation
Indices: 3154515--3154602 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
3154505 AAAAGAGAAG
* *
3154515 GAATCAAGATGAAAACCTGAAAAGGGCGTCTTGATAAACAAAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTAATAAACAAAAAA
3154560 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTAATAAACAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTAATAAACAAAA
3154603 GGGTTAGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.51, C:0.15, G:0.19, T:0.15
Consensus pattern (45 bp):
GAATCAAGATGAAAACCCGAAAAGGGCGTCTTAATAAACAAAAAA
Found at i:3155488 original size:77 final size:77
Alignment explanation
Indices: 3155395--3155548 Score: 263
Period size: 77 Copynumber: 2.0 Consensus size: 77
3155385 TTTATTTCTG
3155395 TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACGCTGAGGTATC
1 TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACGCTGAGGTATC
3155460 TTTAGTTCCTAT
66 TTTAGTTCCTAT
* ** *
3155472 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATT
1 TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACGCTGAGGTATC
*
3155537 TTTAGTTTCTAT
66 TTTAGTTCCTAT
3155549 CAACTCATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (77 bp):
TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACGCTGAGGTATC
TTTAGTTCCTAT
Found at i:3155570 original size:64 final size:64
Alignment explanation
Indices: 3155483--3155602 Score: 222
Period size: 64 Copynumber: 1.9 Consensus size: 64
3155473 TTTCAAAAAA
* *
3155483 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
3155547 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTT
3155603 CAATTTATGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (64 bp):
ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
Found at i:3155775 original size:64 final size:63
Alignment explanation
Indices: 3155680--3156000 Score: 207
Period size: 64 Copynumber: 5.0 Consensus size: 63
3155670 TTTCAAAAAA
* *
3155680 ATCAACTCATATT-GCG-GAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAGTTTCT
1 ATCAACTCATATTAG-GAGAGGTGAGTTAAGCCTC-GGTCACACGCTGAGGTATTTTCAGTTTAT
* *
3155743 ATCAACTCATATTAGGAGAGGTGAGTTAAGCCTCGGACACACGCTGAGGTATTTTCAATTTAT
1 ATCAACTCATATTAGGAGAGGTGAGTTAAGCCTCGGTCACACGCTGAGGTATTTTCAGTTTAT
* * * ** *
3155806 ATTTTTCAAAAAATCGAATCATATTACGAGAAGTGAGTTGAA-CCT---TTAGTCTCT-A--T-T
1 A----TC----AA-C---TCATATTAGGAGAGGTGAGTT-AAGCCTCGGTCACACGCTGAGGTAT
*** *
3155863 TTTCA-AAAAA
53 TTTCAGTTTAT
* *
3155873 ATCAACTCATATT-GCGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTAG-GAGAGGTGAGTTAAGCCTC-GGTCACACGCTGAGGTATTTTCAGTTTAT
** * * *
3155937 ATCAACTCATATTACTAGAGGTGAGTTGAGCCTCAGGACACACGCTGAGGTATTTTCAATTTAT
1 ATCAACTCATATTAGGAGAGGTGAGTTAAGCCTC-GGTCACACGCTGAGGTATTTTCAGTTTAT
3156001 GTTTTTCAAA
Statistics
Matches: 196, Mismatches: 35, Indels: 53
0.69 0.12 0.19
Matches are distributed among these distances:
54 2 0.01
55 21 0.11
58 1 0.01
59 7 0.04
60 1 0.01
62 1 0.01
63 48 0.24
64 72 0.37
67 4 0.02
68 6 0.03
69 1 0.01
71 3 0.02
72 5 0.03
75 22 0.11
76 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (63 bp):
ATCAACTCATATTAGGAGAGGTGAGTTAAGCCTCGGTCACACGCTGAGGTATTTTCAGTTTAT
Found at i:3155936 original size:194 final size:195
Alignment explanation
Indices: 3155459--3156013 Score: 963
Period size: 194 Copynumber: 2.8 Consensus size: 195
3155449 GCTGAGGTAT
3155459 CTTTAGT-TCCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 CTTTAGTCT-CTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
3155523 CACGCTGAGGTATTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACAC
65 CACGCTGAGGTATTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACAC
* * *
3155588 ACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGATAAGTGAGTTGA
130 ACGCTGAGGTATTTTCAATTTATGTTTTTC-AAAAAATCGAATCATATTACGAGAAGTGAGTTGA
3155653 AC
194 AC
*
3155655 CTTTTAGTCTCTGTTTTTCAAAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCGGGTCA
1 C-TTTAGTCTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * *
3155719 CACGCTGAGGTATTTTCAGTTTCTATCAACTCATATTAGGAGAGGTGAGTTAAGCCTC-GGACAC
65 CACGCTGAGGTATTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACAC
*
3155783 ACGCTGAGGTATTTTCAATTTATATTTTTCAAAAAATCGAATCATATTACGAGAAGTGAGTTGAA
130 ACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAATCGAATCATATTACGAGAAGTGAGTTGAA
3155848 C
195 C
*
3155849 CTTTAGTCTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCAC
1 CTTTAGTCTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
3155914 ACGCTGAGGTATTTTTAGTTTCTATCAACTCATATTACTAGAGGTGAGTTGAGCCTCAGGACACA
66 ACGCTGAGGTATTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACA
3155979 CGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAA
131 CGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAA
3156014 ATCAACTTAT
Statistics
Matches: 340, Mismatches: 15, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
193 38 0.11
194 110 0.32
195 76 0.22
196 79 0.23
197 36 0.11
198 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (195 bp):
CTTTAGTCTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ACGCTGAGGTATTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACA
CGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAATCGAATCATATTACGAGAAGTGAGTTGAAC
Found at i:3157764 original size:3 final size:3
Alignment explanation
Indices: 3157744--3157817 Score: 130
Period size: 3 Copynumber: 24.3 Consensus size: 3
3157734 TTTCGTTTCT
*
3157744 TTA TTAA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3157790 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3157818 ATTTAGTGTA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3158085 original size:3 final size:3
Alignment explanation
Indices: 3158071--3158115 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
3158061 TGTATTTCAA
*
3158071 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
3158116 GTGTATACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:3158211 original size:151 final size:149
Alignment explanation
Indices: 3157779--3158253 Score: 678
Period size: 151 Copynumber: 3.2 Consensus size: 149
3157769 TTATTATTAT
* * *
3157779 TATTATTATTATTATTATTATTATTATTATTATTATTATATTTAGTGTATACTTTTTATTAGATA
1 TATTATTACTATTATCATTATTATTATTATTATTATTATATTTAGTGTATACTTTTTATTATATA
* *
3157844 CATATATGTATATATATTTATGTATAGTATTA-TTTTTATTACTTTATTTTAATATTTTATTATA
66 CGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTATTATA
3157908 TTTACTTTTTGTATTTCAA
131 TTTACTTTTTGTATTTCAA
* * * * *
3157927 TATTATTACTATTATCATTATTATTATTAGT-GTA-TATTTTTA-T-TATA-TATGTATGTATAT
1 TATTATTACTATTATCATTATTATTATTATTATTATTATATTTAGTGTATACTTTTTAT-TATAT
* * * *
3157987 --GTACATATATATATATTTGTATATAGTTTTATTTTTTATTACTTTATTTTAATATTTTTATTA
65 ACGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATA-TTTTATTA
3158050 TATTTACTTTTTGTATTTCAA
129 TATTTACTTTTTGTATTTCAA
* * *
3158071 TATTACTATTATTATTATTATTATTATTATTATTATTATATATTAGTGTATACTTTTTATTATAT
1 TATTATTACTATTATCATTATTATTATTATTATTATTATAT-TTAGTGTATACTTTTTATTATAT
3158136 ACGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTAATTA
65 ACGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTT-ATTA
*
3158201 TATTTGCTTTTTGTATTTCAA
129 TATTTACTTTTTGTATTTCAA
* *
3158222 TATTATTACTATTATCATTATCATCATTATTA
1 TATTATTACTATTATCATTATTATTATTATTA
3158254 ACATATACAT
Statistics
Matches: 283, Mismatches: 32, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
142 25 0.09
143 27 0.10
144 64 0.23
145 3 0.01
146 11 0.04
147 5 0.02
148 29 0.10
149 9 0.03
150 9 0.03
151 101 0.36
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (149 bp):
TATTATTACTATTATCATTATTATTATTATTATTATTATATTTAGTGTATACTTTTTATTATATA
CGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTATTATA
TTTACTTTTTGTATTTCAA
Found at i:3162385 original size:26 final size:25
Alignment explanation
Indices: 3162337--3162385 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
3162327 TAATTTTTAA
* *
3162337 ATTTTTAATAATTTTATTCTTTTGC
1 ATTTTTAATAATTTTAATATTTTGC
*
3162362 ATTTTTATATTATTTTAATATTTT
1 ATTTTTA-ATAATTTTAATATTTT
3162386 AATAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTTAATAATTTTAATATTTTGC
Found at i:3162441 original size:27 final size:26
Alignment explanation
Indices: 3162410--3162471 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
3162400 TTTCCTTTAA
*
3162410 TAATATTTTTATCAATTTTGAAAA-TTC
1 TAATATTTTCAT-AATTTT-AAAATTTC
*
3162437 TAATAATTTTCATTATTTTAAAATTTC
1 TAAT-ATTTTCATAATTTTAAAATTTC
3162464 TAAT-TTTT
1 TAATATTTT
3162472 AAAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 16 0.52
28 7 0.23
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
TAATATTTTCATAATTTTAAAATTTC
Found at i:3162482 original size:20 final size:21
Alignment explanation
Indices: 3162457--3162496 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
3162447 CATTATTTTA
3162457 AAATTTCTA-ATTTTTAAAAT
1 AAATTTCTATATTTTTAAAAT
3162477 AAATTTCTATTATTTTTAAA
1 AAATTTCTA-TATTTTTAAA
3162497 TTTTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTTCTATATTTTTAAAAT
Found at i:3162498 original size:17 final size:18
Alignment explanation
Indices: 3162476--3162514 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3162466 ATTTTTAAAA
*
3162476 TAAA-TTTCTATTATTTT
1 TAAATTTTCTATAATTTT
*
3162493 TAAATTTTTTATAATTTT
1 TAAATTTTCTATAATTTT
3162511 TAAA
1 TAAA
3162515 AACTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTTTCTATAATTTT
Found at i:3162565 original size:22 final size:21
Alignment explanation
Indices: 3162540--3162586 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
3162530 TGCTAATTTT
3162540 TTTTGAAAATTCTATTTTTAT-A
1 TTTTGAAAATT-T-TTTTTATGA
* *
3162562 TTTTTAGAATTTTTTTTATGA
1 TTTTGAAAATTTTTTTTATGA
3162583 TTTT
1 TTTT
3162587 TCATCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (21 bp):
TTTTGAAAATTTTTTTTATGA
Found at i:3163377 original size:18 final size:19
Alignment explanation
Indices: 3163352--3163396 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3163342 TTTTAAAAAA
*
3163352 TAAATTTTATAAA-TATTT
1 TAAATTTTAAAAATTATTT
*
3163370 TGAATTTTAAAAATTATTT
1 TAAATTTTAAAAATTATTT
3163389 TAAATTTT
1 TAAATTTT
3163397 TTTTGTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TAAATTTTAAAAATTATTT
Found at i:3163494 original size:9 final size:9
Alignment explanation
Indices: 3163480--3163527 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
3163470 ATACTAATAT
3163480 ATTATTCGA
1 ATTATTCGA
*
3163489 ATTATTTGA
1 ATTATTCGA
*
3163498 GTTATTCGA
1 ATTATTCGA
*
3163507 ATTATTTGA
1 ATTATTCGA
*
3163516 GTTATTCGA
1 ATTATTCGA
3163525 ATT
1 ATT
3163528 GTGAAATTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (9 bp):
ATTATTCGA
Found at i:3163504 original size:18 final size:18
Alignment explanation
Indices: 3163481--3163527 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
3163471 TACTAATATA
3163481 TTATTCGAATTATTTGAG
1 TTATTCGAATTATTTGAG
3163499 TTATTCGAATTATTTGAG
1 TTATTCGAATTATTTGAG
3163517 TTATTCGAATT
1 TTATTCGAATT
3163528 GTGAAATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (18 bp):
TTATTCGAATTATTTGAG
Found at i:3175102 original size:27 final size:28
Alignment explanation
Indices: 3175080--3175136 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
3175070 TTATTTTGTA
3175080 TTTAAATATTTTTT-TAGAAATTTATGAT
1 TTTAAAT-TTTTTTATAGAAATTTATGAT
*
3175108 TTTTAATTTTTTTATAGAAATTTATGAT
1 TTTAAATTTTTTTATAGAAATTTATGAT
3175136 T
1 T
3175137 CTTTTTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTAAATTTTTTTATAGAAATTTATGAT
Found at i:3177534 original size:29 final size:29
Alignment explanation
Indices: 3177500--3177577 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
3177490 GTGACGAGAT
* *
3177500 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
3177529 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
3177558 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
3177578 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:3185230 original size:29 final size:29
Alignment explanation
Indices: 3185196--3185273 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
3185186 GTGACGAGAT
* *
3185196 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
3185225 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
3185254 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
3185274 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:3188216 original size:15 final size:17
Alignment explanation
Indices: 3188186--3188217 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3188176 GAGTTAAAAG
3188186 ATAATTTTATTATTTTA
1 ATAATTTTATTATTTTA
3188203 ATAA-TTTA-TATTTTA
1 ATAATTTTATTATTTTA
3188218 TATTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATAATTTTATTATTTTA
Found at i:3188577 original size:31 final size:32
Alignment explanation
Indices: 3188542--3188615 Score: 118
Period size: 31 Copynumber: 2.4 Consensus size: 32
3188532 TTAATAAAAT
*
3188542 ATTTGGTAAC-TGAATTTGATTATTTTTCTTA
1 ATTTGGTAACTTGAACTTGATTATTTTTCTTA
3188573 ATTTGGT-ACTTGAACTTGATTATTTTTCTTA
1 ATTTGGTAACTTGAACTTGATTATTTTTCTTA
3188604 ATTTGGT-ACTTG
1 ATTTGGTAACTTG
3188616 TCAAACGCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (32 bp):
ATTTGGTAACTTGAACTTGATTATTTTTCTTA
Found at i:3189802 original size:18 final size:18
Alignment explanation
Indices: 3189770--3189821 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
3189760 CTGGGACAAG
3189770 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
3189786 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
*
3189804 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
3189822 TGCTTTGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.28
17 5 0.16
18 18 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:3190502 original size:11 final size:11
Alignment explanation
Indices: 3190488--3190528 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
3190478 TTCGAATCGG
3190488 TTTTCTTTTTT
1 TTTTCTTTTTT
*
3190499 TTTTCTTTTCT
1 TTTTCTTTTTT
*
3190510 TTTTCTTTACTT
1 TTTTCTTT-TTT
3190522 TTTTCTT
1 TTTTCTT
3190529 CTTTGTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:3190509 original size:16 final size:16
Alignment explanation
Indices: 3190488--3190532 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
3190478 TTCGAATCGG
* *
3190488 TTTTCTTTTTTTTTTC
1 TTTTCTTTTTCTTTAC
3190504 TTTTCTTTTTCTTTAC
1 TTTTCTTTTTCTTTAC
*
3190520 TTTT-TTCTTCTTT
1 TTTTCTTTTTCTTT
3190533 GTTTACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTCTTTAC
Found at i:3191237 original size:15 final size:15
Alignment explanation
Indices: 3191209--3191239 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3191199 ATTATCATAT
*
3191209 TTACTATTATTATTA
1 TTACTATTACTATTA
3191224 TTACTATTACTATTA
1 TTACTATTACTATTA
3191239 T
1 T
3191240 ATTTAGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTACTATTACTATTA
Found at i:3204040 original size:124 final size:125
Alignment explanation
Indices: 3203912--3204296 Score: 376
Period size: 124 Copynumber: 3.0 Consensus size: 125
3203902 CCCTAATCGG
* *
3203912 GGGTAACAGACCGAATTGCAGATCCTATCTCTCTAAGCAGTAGGGAAACAGATCGAAGATGAAGA
1 GGGTAACA-ACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGA
* *
3203977 TCTT-CCCTTAAGCAGTAGGG-ACAGATCAAAGATGATGGGCTTTAACCCCCTATGCAGTA
65 TCTTACCCCTAAGCAGTAGGGAACAGATCAAAGAAGATGGGCTTTAACCCCCTATGCAGTA
* * * * * * * *
3204036 GGGTAACAAGCC-AATTTCA-AGCTTTAAACCCCCTGAGCAGTAGGGTAACAG-GCTGAAGATTT
1 GGGTAACAA-CCGAATTGCAGATC-TT-ATCTCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TG
* * * *
3204098 ACAGATCTTACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TTTAAACCCCTAAT-C
61 A-AGATCTTA-CCCCTAAGCAGTAGGG-AACAGATCAAAGAAGATGGGCTTTAACCCCCT-ATGC
*
3204161 GGTA
122 AGTA
* *
3204165 GGATAAC-A--GAATTGCAGATCTTATCTCCCTAGGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 GGGTAACAACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * *
3204227 CTTAACCTCCTAAGCAGTAGGGAAAAAGATCAAAGAAGATGGGCCTTAACCCCCTAGAGCAGTA
66 CTT-ACC-CCTAAGCAGTAGGG-AACAGATCAAAGAAGATGGGCTTTAACCCCCTA-TGCAGTA
3204291 GGGTAA
1 GGGTAA
3204297 TAGGCNGTAC
Statistics
Matches: 207, Mismatches: 35, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
122 2 0.01
123 18 0.09
124 70 0.34
125 36 0.17
126 25 0.12
127 2 0.01
128 16 0.08
129 20 0.10
130 18 0.09
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (125 bp):
GGGTAACAACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
CTTACCCCTAAGCAGTAGGGAACAGATCAAAGAAGATGGGCTTTAACCCCCTATGCAGTA
Found at i:3204247 original size:81 final size:80
Alignment explanation
Indices: 3204099--3204247 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 80
3204089 TGAAGATTTA
* * *
3204099 CAGATCTTACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTTTAAACCCCTAATCGGT
1 CAGATCTTACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGATTTAAACCCCTAAGCAGT
3204164 AGGATAACAGAATTG
66 AGGATAACAGAATTG
* * *
3204179 CAGATCTTATCTCCCTAGGCAGTAGGGAAACAGATCGAAGATGAA-GATCTT-AACCTCCTAAGC
1 CAGATCTTA-CCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGAT-TTAAACC-CCTAAGC
3204242 AGTAGG
63 AGTAGG
3204248 GAAAAAGATC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 15 0.25
81 45 0.75
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (80 bp):
CAGATCTTACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGATTTAAACCCCTAAGCAGT
AGGATAACAGAATTG
Found at i:3210003 original size:33 final size:30
Alignment explanation
Indices: 3209956--3210028 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 30
3209946 TGGTACTAAG
* *
3209956 AAAAAATATATATATATAAATAATAGTATT
1 AAAATATATATATATATAAATAATAATATT
* *
3209986 AGAAATCATATAGTATATATAACTGATAATATT
1 A-AAAT-ATATA-TATATATAAATAATAATATT
3210019 AAAATATATA
1 AAAATATATA
3210029 CATAATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.03
31 8 0.22
32 9 0.25
33 18 0.50
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAATATATATATATATAAATAATAATATT
Found at i:3210204 original size:14 final size:16
Alignment explanation
Indices: 3210175--3210206 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3210165 AGGTAAATAT
3210175 AATAAAATGATATTAA
1 AATAAAATGATATTAA
3210191 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
3210205 AA
1 AA
3210207 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:3210256 original size:3 final size:3
Alignment explanation
Indices: 3210248--3210497 Score: 188
Period size: 3 Copynumber: 80.0 Consensus size: 3
3210238 GGATATATAT
3210248 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
3210296 ATA ATAA ATA ATA ATA ATGA A-A CACA A-A AGCC ATT ATA ATA AAA ATA
1 ATA AT-A ATA ATA ATA AT-A ATA -ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * *
3210343 TTA A-A ATA A-A GTA ATA GA-A ACA TTA CTA CATA TATA TATA CATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA -ATA
* * * *
3210387 CATGA AGA TATA CACTA AT- GTA TTTCA ATA ACA ATA ATA ATA ATA ATA
1 -AT-A ATA -ATA -A-TA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
3210435 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3210483 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
3210498 TTGAAATGCA
Statistics
Matches: 206, Mismatches: 24, Indels: 34
0.78 0.09 0.13
Matches are distributed among these distances:
2 8 0.04
3 164 0.80
4 30 0.15
5 4 0.02
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:3210989 original size:11 final size:12
Alignment explanation
Indices: 3210973--3211008 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
3210963 AGGAAAAAAA
3210973 GAAGAGAG-AGG
1 GAAGAGAGAAGG
3210984 GAAGAGAGAAGG
1 GAAGAGAGAAGG
3210996 G-AGAGAGAAGG
1 GAAGAGAGAAGG
3211007 GA
1 GA
3211009 GGGGAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:3211123 original size:13 final size:13
Alignment explanation
Indices: 3211105--3211148 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
3211095 AAGGTAATTT
3211105 TTTTTTTTGTATA
1 TTTTTTTTGTATA
3211118 TTTTTTTTGTATA
1 TTTTTTTTGTATA
3211131 --TTTTTTGTATA
1 TTTTTTTTGTATA
3211142 TTTTTTT
1 TTTTTTT
3211149 ATGTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.38
13 18 0.62
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTTTTGTATA
Found at i:3211155 original size:10 final size:11
Alignment explanation
Indices: 3211107--3211147 Score: 64
Period size: 11 Copynumber: 3.5 Consensus size: 11
3211097 GGTAATTTTT
3211107 TTTTTTGTATA
1 TTTTTTGTATA
3211118 TTTTTTTTGTATA
1 --TTTTTTGTATA
3211131 TTTTTTGTATA
1 TTTTTTGTATA
3211142 TTTTTT
1 TTTTTT
3211148 TATGTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 17 0.61
13 11 0.39
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTTGTATA
Found at i:3211572 original size:35 final size:35
Alignment explanation
Indices: 3211527--3211595 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
3211517 GAGTGTGTGA
*
3211527 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
3211562 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
3211596 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:3217338 original size:72 final size:72
Alignment explanation
Indices: 3217243--3217378 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
3217233 TCAAGGGAAA
* * * *
3217243 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTTAATTTCTGTTT
3217308 TCAAAAT
66 TCAAAAT
3217315 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTTAATTTCTGTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTTAATTTCTGTT
3217379 CAAAATAAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTTAATTTCTGTTT
TCAAAAT
Found at i:3217664 original size:74 final size:73
Alignment explanation
Indices: 3217483--3217779 Score: 373
Period size: 72 Copynumber: 4.0 Consensus size: 73
3217473 CTACTTTTTC
* ** * *
3217483 AAAATCAGCTCATATTGCGAGAGGTGAG-TGAAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTG-AGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
3217547 TGTTGTCAAAAA
65 TGTTTTC---AA
* * * *
3217559 AAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
3217624 GTCTTTCAA
66 GT-TTTCAA
** **
3217633 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
3217698 GTTTTC-A
66 GTTTTCAA
* * * *
3217705 AAATTCAACTCATACTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
3217770 GTTTTCAA
66 GTTTTCAA
3217778 AA
1 AA
3217780 CAAAAAAAAA
Statistics
Matches: 192, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
72 64 0.33
73 7 0.04
74 61 0.32
76 55 0.29
77 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAA
Found at i:3217784 original size:150 final size:148
Alignment explanation
Indices: 3217483--3217819 Score: 448
Period size: 150 Copynumber: 2.2 Consensus size: 148
3217473 CTACTTTTTC
* *
3217483 AAAATCAGCTCATATTGCGAGAGGTGAG-TGAAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
3217547 TGTTGTCAAAAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
65 TGTTGTC---AAAAAATCAACTCATACTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
*
3217612 TTTTCAATTTTTGTCTTTC-AA
127 TTTTCAATTTCTGTCTTTCAAA
*
3217633 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
3217698 GTTTTC-AAAATTCAACTCATACTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
66 GTTGTCAAAAAATCAACTCATACTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
3217762 CAATTTCTGT-TTTCAAAACAAAAA
131 CAATTTCTGTCTTT-----C--AAA
*
3217786 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3217820 TTTAGATCAC
Statistics
Matches: 167, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
145 3 0.02
146 62 0.37
150 65 0.39
151 2 0.01
153 35 0.21
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (148 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAATCAACTCATACTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
CAATTTCTGTCTTTCAAA
Found at i:3218643 original size:47 final size:50
Alignment explanation
Indices: 3218585--3218687 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
3218575 AAGCCCCCCC
* *
3218585 AAAAAACCTAACCCAAG-AAAAAAA-AAG-AAAAAGAAAAACCTACCCTA
1 AAAAAACCTAACCCAAGAAAAAAAAGAAGAAAAAAGAAAAACCTAACCAA
**
3218632 AAAAAACCTAACCCCCGAAAAAAAAGAAGAAAAAAGAAAAACCTAACCAA
1 AAAAAACCTAACCCAAGAAAAAAAAGAAGAAAAAAGAAAAACCTAACCAA
3218682 AAAAAA
1 AAAAAA
3218688 AAGATAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
47 15 0.31
48 7 0.14
49 3 0.06
50 24 0.49
ACGTcount: A:0.68, C:0.20, G:0.07, T:0.05
Consensus pattern (50 bp):
AAAAAACCTAACCCAAGAAAAAAAAGAAGAAAAAAGAAAAACCTAACCAA
Found at i:3219233 original size:2 final size:2
Alignment explanation
Indices: 3219228--3219264 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3219218 TAAATACTAT
*
3219228 TA TA TA TA CA 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 TA TA TA T
3219265 TTTAAATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.