Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_pilon, whole genome shotgun sequence
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: 2886609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 16
Found at i:2688420 original size:2 final size:2
Alignment explanation
Indices: 2688345--2688403 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
2688335 TTAATCTAAC
2688345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2688387 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
2688404 ATTTTTATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2689686 original size:15 final size:16
Alignment explanation
Indices: 2689666--2689697 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2689656 TGATGGGTTG
2689666 TTTC-TTTTTTTCTTT
1 TTTCTTTTTTTTCTTT
2689681 TTTCTTTTTTTTCTTT
1 TTTCTTTTTTTTCTTT
2689697 T
1 T
2689698 GAATAGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTCTTTTTTTTCTTT
Found at i:2692685 original size:511 final size:511
Alignment explanation
Indices: 2691724--2692750 Score: 1815
Period size: 511 Copynumber: 2.0 Consensus size: 511
2691714 GATCATACCT
* *
2691724 TTTTATAAGTTCTAACGATCTTTTCTCGAAGAATTAAATAGATGAACATTTCTTTTTCTCTCGTT
1 TTTTATAAGTTCTAACAATCTTTTCTCGAAGAATTAAATAGACGAACATTTCTTTTTCTCTCGTT
*
2691789 CCCAAGCTTTAGTTGTAGTCAATTTTTAGGGGTTCACTTAATGGGATACACTTTCATTTTAAAAT
66 CCCAAGCTTTAGTTGTAGTCAATTTTCAGGGGTTCACTTAATGGGATACACTTTCATTTTAAAAT
* *
2691854 CGTCGGAAGTAACATTCTTATACCTTAAGACAGTCACTTCACAACAACCCTAGAATGAAGAGTAT
131 CATCAGAAGTAACATTCTTATACCTTAAGACAGTCACTTCACAACAACCCTAGAATGAAGAGTAT
2691919 TACCCTTAGTCCAATTATTTGAATCGGGTCTAGGTATGCTCATGAGTATATCATACATGTTATGC
196 TACCCTTAGTCCAATTATTTGAATCGGGTCTAGGTATGCTCATGAGTATATCATACATGTTATGC
* * * *
2691984 GAAACGATGACATGTGGAAATCTTATATGCAAATAAATGCACATCGAAGAAACACATAAAATATG
261 AAAACGATAACATGTGGAAATCTTATATGCAAATAAATACACATCAAAGAAACACATAAAATATG
2692049 TAAAGAAGATGAAAAAAATGTGTGCATACTCATACATTTAGTCATTTAACAAAGGACCCATAATA
326 TAAAGAAGATGAAAAAAATGTGTGCATACTCATACATTTAGTCATTTAACAAAGGACCCATAATA
2692114 CATTAAAATCATAAATGTGATTTGCCATACAATTTGATTTATATGCAAATATAACCCGATAATAT
391 CATTAAAATCATAAATGTGATTTGCCATACAATTTGATTTATATGCAAATATAACCCGATAATAT
*
2692179 ATATAACATAACCAAATGTGTCATTTTGATTTATATGTAACATGCGCGAATGTATA
456 ATATAACATAACCAAATCTGTCATTTTGATTTATATGTAACATGCGCGAATGTATA
*
2692235 TTTTATAAGTTCTAACAATCTTTTCTCGAGGAATTTAAATAGACGAACATTTCTTTTTCTCTCGT
1 TTTTATAAGTTCTAACAATCTTTTCTCGAAGAA-TTAAATAGACGAACATTTCTTTTTCTCTCGT
* * *
2692300 TTCCAAGTTTTAGTTGTAGTCAATTTTCA-GGTTTCACTTAATGGGATACACTTTCATTTTAAAA
65 TCCCAAGCTTTAGTTGTAGTCAATTTTCAGGGGTTCACTTAATGGGATACACTTTCATTTTAAAA
* *
2692364 TCATCAGAAGTAACTTTCTTATACCTTAAGACAGTCACTTCACAACAACCCTAGAATGAAAGGGT
130 TCATCAGAAGTAACATTCTTATACCTTAAGACAGTCACTTCACAACAACCCTAGAATG-AAGAGT
*
2692429 ATTACCGTTAGTCCAATTATTTGAATCGGGTCTAGGTATGCTCATGAGTATATCATACATGTTAT
194 ATTACCCTTAGTCCAATTATTTGAATCGGGTCTAGGTATGCTCATGAGTATATCATACATGTTAT
*
2692494 GCAAAATGATAACATGTGGAAATCTTATATGCAAATAAATACACATCAAAGAAACACATAAAATA
259 GCAAAACGATAACATGTGGAAATCTTATATGCAAATAAATACACATCAAAGAAACACATAAAATA
* *
2692559 TGTAAAGTAGATG-AAAAAATGTGTGCATACTCATACATTTAGTCATTTAACAAATGACCCATAA
324 TGTAAAGAAGATGAAAAAAATGTGTGCATACTCATACATTTAGTCATTTAACAAAGGACCCATAA
*
2692623 TACATTAAAATCATAAATGTGATTTGCCATACATTTTGATTTATATGCAAATATAACCCGATAAT
389 TACATTAAAATCATAAATGTGATTTGCCATACAATTTGATTTATATGCAAATATAACCCGATAAT
**
2692688 ATATATAACATAACCAAATCTGTCATTTTGATTTATATGTAACATGCGCTCATGTATA
454 ATATATAACATAACCAAATCTGTCATTTTGATTTATATGTAACATGCGCGAATGTATA
2692746 TTTTA
1 TTTTA
2692751 AAATACATAA
Statistics
Matches: 491, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
511 294 0.60
512 197 0.40
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (511 bp):
TTTTATAAGTTCTAACAATCTTTTCTCGAAGAATTAAATAGACGAACATTTCTTTTTCTCTCGTT
CCCAAGCTTTAGTTGTAGTCAATTTTCAGGGGTTCACTTAATGGGATACACTTTCATTTTAAAAT
CATCAGAAGTAACATTCTTATACCTTAAGACAGTCACTTCACAACAACCCTAGAATGAAGAGTAT
TACCCTTAGTCCAATTATTTGAATCGGGTCTAGGTATGCTCATGAGTATATCATACATGTTATGC
AAAACGATAACATGTGGAAATCTTATATGCAAATAAATACACATCAAAGAAACACATAAAATATG
TAAAGAAGATGAAAAAAATGTGTGCATACTCATACATTTAGTCATTTAACAAAGGACCCATAATA
CATTAAAATCATAAATGTGATTTGCCATACAATTTGATTTATATGCAAATATAACCCGATAATAT
ATATAACATAACCAAATCTGTCATTTTGATTTATATGTAACATGCGCGAATGTATA
Found at i:2696260 original size:23 final size:23
Alignment explanation
Indices: 2696234--2696319 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
2696224 AACTTTCTAA
*
2696234 GTGGTCCTTCGAGACAAAACTAT
1 GTGGTCCTTCAAGACAAAACTAT
* *
2696257 GTGGTCTTTCAAGAC-AATCTTAT
1 GTGGTCCTTCAAGACAAAAC-TAT
* * * *
2696280 GTGATCTTTTAGGACAAAACTAT
1 GTGGTCCTTCAAGACAAAACTAT
* *
2696303 GTGGTCTTTCAGGACAA
1 GTGGTCCTTCAAGACAA
2696320 TCCTATGAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
22 3 0.06
23 46 0.88
24 3 0.06
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (23 bp):
GTGGTCCTTCAAGACAAAACTAT
Found at i:2696325 original size:23 final size:23
Alignment explanation
Indices: 2696253--2696326 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
2696243 CGAGACAAAA
*
2696253 CTATGTGGTCTTTCAAGACAATC
1 CTATGTGGTCTTTCAGGACAATC
* * * **
2696276 TTATGTGATCTTTTAGGACAAAA
1 CTATGTGGTCTTTCAGGACAATC
2696299 CTATGTGGTCTTTCAGGACAATC
1 CTATGTGGTCTTTCAGGACAATC
2696322 CTATG
1 CTATG
2696327 AGAATTAAAC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (23 bp):
CTATGTGGTCTTTCAGGACAATC
Found at i:2696560 original size:19 final size:19
Alignment explanation
Indices: 2696521--2696560 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2696511 AGAAAATTCA
***
2696521 TTGAATTTTTTTTGTCTTG
1 TTGAATTTTTTTTGGAATG
2696540 TTGAATTTTTTTTGGAATG
1 TTGAATTTTTTTTGGAATG
2696559 TT
1 TT
2696561 ATGCTTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.17, T:0.65
Consensus pattern (19 bp):
TTGAATTTTTTTTGGAATG
Found at i:2697086 original size:16 final size:16
Alignment explanation
Indices: 2697063--2697105 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2697053 ATGAAAGAAA
*
2697063 GAAAAAAACAACAGTTC
1 GAAAAAAA-AGCAGTTC
*
2697080 GAAAAAAAAGCTGTTC
1 GAAAAAAAAGCAGTTC
2697096 GAAAGAAAAA
1 GAAA-AAAAA
2697106 TGGAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.60, C:0.12, G:0.16, T:0.12
Consensus pattern (16 bp):
GAAAAAAAAGCAGTTC
Found at i:2705213 original size:17 final size:16
Alignment explanation
Indices: 2705172--2705215 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
2705162 AAAGAAAGAA
2705172 AAAAAAAACAGCAGTTC
1 AAAAAAAA-AGCAGTTC
* *
2705189 GAAAAAAAAGCTGTTC
1 AAAAAAAAAGCAGTTC
2705205 AAAAGAAAAAG
1 AAAA-AAAAAG
2705216 AGAGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.11
Consensus pattern (16 bp):
AAAAAAAAAGCAGTTC
Found at i:2715198 original size:23 final size:23
Alignment explanation
Indices: 2715126--2715189 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
2715116 TTTGAGGGTT
2715126 CTATGTGGTCATTTGGGACAAAA
1 CTATGTGGTCATTTGGGACAAAA
2715149 CTATGTGGTCATTTGGGACAAAA
1 CTATGTGGTCATTTGGGACAAAA
*
2715172 CTATGTGGTCATTCGGGA
1 CTATGTGGTCATTTGGGA
2715190 TAATCCTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCATTTGGGACAAAA
Found at i:2719568 original size:19 final size:19
Alignment explanation
Indices: 2719544--2719581 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2719534 TTATTTCAAA
*
2719544 CCTTTACAATCTAAATATT
1 CCTTTACAATCCAAATATT
*
2719563 CCTTTAGAATCCAAATATT
1 CCTTTACAATCCAAATATT
2719582 AATCATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (19 bp):
CCTTTACAATCCAAATATT
Found at i:2724313 original size:23 final size:23
Alignment explanation
Indices: 2724285--2724335 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2724275 TGTCCCAAAG
*
2724285 GACCACCTAGAATTATCCTAAAT
1 GACCACATAGAATTATCCTAAAT
* * *
2724308 GACCACATAGACTTGTCCTGAAT
1 GACCACATAGAATTATCCTAAAT
2724331 GACCA
1 GACCA
2724336 AGTAAAACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (23 bp):
GACCACATAGAATTATCCTAAAT
Found at i:2724494 original size:15 final size:16
Alignment explanation
Indices: 2724474--2724516 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
2724464 CTCATAGCAT
*
2724474 ATTTTCACGTAGGAC-
1 ATTTTCACGTAGAACA
*
2724489 ATTTTCACTTAGAACA
1 ATTTTCACGTAGAACA
*
2724505 AATTTCACGTAG
1 ATTTTCACGTAG
2724517 CATTATCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (16 bp):
ATTTTCACGTAGAACA
Found at i:2738778 original size:20 final size:20
Alignment explanation
Indices: 2738736--2738778 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2738726 CGAATAATTT
* ** *
2738736 AATCGAATATATAATTTTGA
1 AATCGAATATAAAACCTTAA
2738756 AATCGAATATAAAACCTTAA
1 AATCGAATATAAAACCTTAA
2738776 AAT
1 AAT
2738779 TCATTTACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
AATCGAATATAAAACCTTAA
Found at i:2741125 original size:15 final size:15
Alignment explanation
Indices: 2741105--2741193 Score: 69
Period size: 15 Copynumber: 5.7 Consensus size: 15
2741095 ATTCAAGGAA
*
2741105 TGTATCGGTACATAG
1 TGTATCGATACATAG
2741120 TGTATCGATACATAG
1 TGTATCGATACATAG
*
2741135 TAATGGGGTATCGATACCTAG
1 ---T---GTATCGATACATAG
2741156 -GTATCGATACACTAG
1 TGTATCGATACA-TAG
2741171 -GTATCGATAC--AG
1 TGTATCGATACATAG
2741183 TGTATCGATAC
1 TGTATCGATAC
2741194 CCCCTTGCAC
Statistics
Matches: 63, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
12 2 0.03
13 10 0.16
14 10 0.16
15 27 0.43
18 1 0.02
21 13 0.21
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (15 bp):
TGTATCGATACATAG
Found at i:2745530 original size:18 final size:18
Alignment explanation
Indices: 2745489--2745531 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2745479 AACTCCAACG
*
2745489 TTCTTCTTTTTCTCCGTC
1 TTCTTCTTTGTCTCCGTC
*
2745507 TCCTTCTTTGTCT-CGTCC
1 TTCTTCTTTGTCTCCGT-C
2745525 TTCTTCT
1 TTCTTCT
2745532 CGAGGTCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.00, C:0.35, G:0.07, T:0.58
Consensus pattern (18 bp):
TTCTTCTTTGTCTCCGTC
Found at i:2746915 original size:17 final size:19
Alignment explanation
Indices: 2746873--2746915 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
2746863 AGGAGCGTAT
2746873 GTGTATCGGTACACTATCAAA
1 GTGTATCGGTACAC-ATC-AA
2746894 GTGTATCGGTACAC-TC-A
1 GTGTATCGGTACACATCAA
2746911 GTGTA
1 GTGTA
2746916 AAATTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
19 2 0.09
21 14 0.64
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (19 bp):
GTGTATCGGTACACATCAA
Found at i:2753456 original size:36 final size:36
Alignment explanation
Indices: 2753399--2753761 Score: 415
Period size: 36 Copynumber: 10.1 Consensus size: 36
2753389 TTGCCTCTCA
* * * *
2753399 AAACAAACTTTGTCTCGCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * * *
2753435 AAATAAGTTTTGTCTCTCTTGAGACAGATTC-CTTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTC-TTG
** *
2753471 AAACAAATTTTGTCTCTCTTGAGGTAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
2753507 AAACAAGTTTTGTCTC-CATTTAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTC-TTGAGACAGTTTCTCTTG
* *
2753543 AAACAAATTTTGTCTTTCTTGAGACAGTTTTTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
2753579 AAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
** * * *
2753615 AAACAAGCTTTGTCTCCCTTGAGACGGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
2753651 AAACAAACTTTGTCTCCCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
** * * *
2753687 AAACAAGCTTTGTCTCCCTTGAGATAATTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
2753723 AAACAAATTTTGTCTCTCTTAAGACAATTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
2753759 AAA
1 AAA
2753762 TATAAAATCT
Statistics
Matches: 281, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
35 2 0.01
36 277 0.99
37 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:2753515 original size:72 final size:72
Alignment explanation
Indices: 2753399--2754392 Score: 779
Period size: 72 Copynumber: 14.1 Consensus size: 72
2753389 TTGCCTCTCA
* * * * *
2753399 AAACAAACTTTGTCTCGCTTGAGATAGTTTCCCTTGAAATAAGTTTTGTCTCTCTTGAGACAGAT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
*
2753464 TC-CTTTA
66 TCTC-TTG
* * *
2753471 AAACAAATTTTGTCTCTCTTGAGGTAGTTTCCCTTGAAACAAGTTTTGTCTC-CATTTAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC-TTGAGACAGT
2753535 TTCTCTTG
65 TTCTCTTG
* * ** *
2753543 AAACAAATTTTGTCTTTCTTGAGACAGTTTTTCTTGAAACAAATTTTATCTCTCTTGAGACAGTT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
2753608 TCTCTTG
66 TCTCTTG
** * ** * *
2753615 AAACAAGCTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAACTTTGTCTCCCTTGAGACAGTT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
*
2753680 TCCCTTG
66 TCTCTTG
** * * * * *
2753687 AAACAAGCTTTGTCTCCCTTGAGATAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAATT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
2753752 TCTCTTG
66 TCTCTTG
* ** * * * *
2753759 AAATATAA-----AATCT-TTGA-ATTTGTTTCCCTTGAAGCAAATTTTGTCTCCCTTAAGA-AT
1 AAACA-AATTTTGTCTCTCTTGAGA-TAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-
* *
2753816 GTTTCTATGG
63 GTTTCTCTTG
* ** * * **
2753826 AAACAAATTTTTGTCTCTCTAGAGATAGTTTTACTCT-AAACAAAATTTTATCTCACTTGAGATT
1 AAACAAA-TTTTGTCTCTCTTGAGATAGTTTCCCT-TGAAAC-AAATTTTGTCTCTCTTGAGACA
* * *
2753890 GTTTTTCCTA
63 GTTTCTCTTG
* * * * *
2753900 AAACAAATTTTGTCTATATTGAGATTATTTTTCC-TAAAACAAATTTTGTCTCTCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGA-TAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
2753964 TTCTCTTG
65 TTCTCTTG
* ** *
2753972 AAACAAA--TTGTCTCTCTTGAGACA-TTTTTCTTGAAACAAAGTTTTATCTCTCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGT
*
2754034 TTCCCTTG
65 TTCTCTTG
* * * * *
2754042 AAACAAATTTTGTCTCTCATGAGACAGTTTCTCTTGAAACAAAGCTTTGTCTC-CTTTGAGATAG
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA-TTTTGTCTCTC-TTGAGACAG
2754106 TTTCTCTTG
64 TTTCTCTTG
* * ** * *
2754115 AAACAAGTTTTGTCTCCCTTGAGACGGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACATTT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
2754180 TCTCTTG
66 TCTCTTG
** * * * *
2754187 AAACACAA-----AATCT-TTGA-ATTTGTTTCCCTTCAAACAAA-GTTGTCTCTCTTGAGATAG
1 AAACA-AATTTTGTCTCTCTTGAGA-TAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
2754244 TTTCTCTTG
64 TTTCTCTTG
** * ** **
2754253 AAACACAA-----AATCT-TTGAGATTGTTTCCCTTGAAACATGTTTTGTCTCTCCCGAGACAGT
1 AAACA-AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
2754312 TTCTCTTG
65 TTCTCTTG
* *
2754320 AAACACCAA------C-CT-TTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCGT-TTGAGACA
1 AAACA--AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTC-TCTTGAGACA
*
2754376 GTTTTCCCTTG
63 G-TTTCTCTTG
2754387 AAACAA
1 AAACAA
2754393 GAAACTTTAT
Statistics
Matches: 767, Mismatches: 122, Indels: 73
0.80 0.13 0.08
Matches are distributed among these distances:
65 1 0.00
66 103 0.13
67 109 0.14
68 12 0.02
69 9 0.01
70 47 0.06
71 1 0.00
72 333 0.43
73 114 0.15
74 38 0.05
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (72 bp):
AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
TCTCTTG
Found at i:2753635 original size:21 final size:21
Alignment explanation
Indices: 2753611--2753708 Score: 76
Period size: 21 Copynumber: 5.2 Consensus size: 21
2753601 GACAGTTTCT
2753611 CTTGAAACAAGCTTTGTCTCC
1 CTTGAAACAAGCTTTGTCTCC
* *
2753632 CTTGAGAC--G----GTTTCC
1 CTTGAAACAAGCTTTGTCTCC
*
2753647 CTTGAAACAAACTTTGTCTCC
1 CTTGAAACAAGCTTTGTCTCC
*
2753668 CTTGAGAC-AG---T-T-TCC
1 CTTGAAACAAGCTTTGTCTCC
2753683 CTTGAAACAAGCTTTGTCTCC
1 CTTGAAACAAGCTTTGTCTCC
2753704 CTTGA
1 CTTGA
2753709 GATAATTTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 24
0.64 0.09 0.27
Matches are distributed among these distances:
15 22 0.39
16 3 0.05
17 1 0.02
19 2 0.04
20 2 0.04
21 27 0.47
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (21 bp):
CTTGAAACAAGCTTTGTCTCC
Found at i:2753833 original size:36 final size:37
Alignment explanation
Indices: 2753779--2754191 Score: 385
Period size: 36 Copynumber: 11.4 Consensus size: 37
2753769 TCTTTGAATT
* * * *
2753779 TGTTTCCCTTGAAGCAAATTTTGTCTCCCTTAAGA-A
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
2753815 TGTTTCTATGGAAACAAATTTTTGTCTCTCTAGAGATA
1 TGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
* * *
2753853 -GTTT-TACTCT-AAACAAAATTTTATCTCACTTGAGA-T
1 TGTTTCT-CT-TGAAAC-AAATTTTGTCTCTCTTGAGACA
* * * * * *
2753889 TGTTTTTCCTAAAACAAATTTTGTCTATATTGAGATTA
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-CA
* *
2753927 T-TTT-TCCTAAAACAAATTTTGTCTCTCTTGAGACA
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
2753962 -GTTTCTCTTGAAACAAA--TTGTCTCTCTTGAGACA
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
2753996 T-TTT-TCTTGAAACAAAGTTTTATCTCTCTTGAGACA
1 TGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
* *
2754032 -GTTTCCCTTGAAACAAATTTTGTCTCTCATGAGACA
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
2754068 -GTTTCTCTTGAAACAAAGCTTTGTCTC-CTTTGAGATA
1 TGTTTCTCTTGAAACAAA-TTTTGTCTCTC-TTGAGACA
* *
2754105 -GTTTCTCTTGAAACAAGTTTTGTCTCCCTTGAGAC-
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
2754140 GGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
2754177 T-TTTCTCTTGAAACA
1 TGTTTCTCTTGAAACA
2754192 CAAAATCTTT
Statistics
Matches: 316, Mismatches: 38, Indels: 46
0.79 0.09 0.12
Matches are distributed among these distances:
33 12 0.04
34 20 0.06
35 4 0.01
36 183 0.58
37 91 0.29
38 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (37 bp):
TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:2754278 original size:31 final size:31
Alignment explanation
Indices: 2754178--2754288 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
2754168 CTTGAGACAT
*
2754178 TTTCTCTTGAAACACAAAATCTTTGA-ATTTG
1 TTTCCCTTGAAACACAAAATCTTTGAGA-TTG
* ** *
2754209 TTTCCCTTCAAACA-AAGTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACACAA----AATCT-TTGAGATTG
*
2754244 TTTCTCTTGAAACACAAAATCTTTGAGATTG
1 TTTCCCTTGAAACACAAAATCTTTGAGATTG
2754275 TTTCCCTTGAAACA
1 TTTCCCTTGAAACA
2754289 TGTTTTGTCT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
30 2 0.03
31 33 0.53
32 3 0.05
34 3 0.05
35 18 0.29
36 3 0.05
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTCCCTTGAAACACAAAATCTTTGAGATTG
Found at i:2754365 original size:133 final size:134
Alignment explanation
Indices: 2754141--2754391 Score: 339
Period size: 133 Copynumber: 1.9 Consensus size: 134
2754131 CCTTGAGACG
* ** * *
2754141 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTGAAACACAAAATCTTTGAAT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCCCGAGACAGTTTCTCTTGAAACACAAAACCTTTGAAT
* *
2754206 TTGTTTCCCTTCAAACAAAGTTGTCTC-TCTTGAGATAG-TTTCTCTTGAAACACAAAATCTTTG
66 TTGTTTCCCTTCAAACAAAGTTGTCTCGT-TTGAGACAGTTTTCCCTTGAAACACAAAATCTTTG
2754269 AGATT
130 AGATT
** *
2754274 GTTTCCCTTGAAACATGTTTTGTCTCTCCCGAGACAGTTTCTCTTGAAACAC-CAACCTTTGAGA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCCCGAGACAGTTTCTCTTGAAACACAAAACCTTTGA-A
* *
2754338 -TTGTTTCCCTTGAAACAAATTTCGTCTCGTTTGAGACAGTTTTCCCTTGAAACA
65 TTTGTTTCCCTTCAAACAAAGTT-GTCTCGTTTGAGACAGTTTTCCCTTGAAACA
2754392 AGAAACTTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
132 28 0.27
133 60 0.59
134 14 0.14
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (134 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCCCGAGACAGTTTCTCTTGAAACACAAAACCTTTGAAT
TTGTTTCCCTTCAAACAAAGTTGTCTCGTTTGAGACAGTTTTCCCTTGAAACACAAAATCTTTGA
GATT
Found at i:2754827 original size:91 final size:91
Alignment explanation
Indices: 2754646--2754819 Score: 251
Period size: 91 Copynumber: 1.9 Consensus size: 91
2754636 AGATAAACCG
* *
2754646 ATCAACATTTCCAATGAAGAGTTTATAATGAGAAGAACTCATCCGACGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAACGAAGAGTTCATAATGAGAAGAACTCATCCGACGAGGAAGAAGAAGTTCAT
*
2754711 AATGAGAAGAACTTGTTCAACCTTGC
66 AATAAGAAGAACTTGTTCAACCTTGC
* ** * * *
2754737 ATCAACATTTCCAGCGGGGAGTTCATAATGAGAAGAACTCATCCGATGGGGGAGAAGAAGCTT-A
1 ATCAACATTTCCAACGAAGAGTTCATAATGAGAAGAACTCATCCGACGAGGAAGAAGAAG-TTCA
2754801 TAATAAGAAGAACTTGTTC
65 TAATAAGAAGAACTTGTTC
2754820 CTTCTTGCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 71 0.97
92 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (91 bp):
ATCAACATTTCCAACGAAGAGTTCATAATGAGAAGAACTCATCCGACGAGGAAGAAGAAGTTCAT
AATAAGAAGAACTTGTTCAACCTTGC
Found at i:2760284 original size:14 final size:14
Alignment explanation
Indices: 2760267--2760308 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
2760257 TTAAATTTTT
2760267 AATTTTAAAATATA
1 AATTTTAAAATATA
2760281 AATTTTAAAATATA
1 AATTTTAAAATATA
*
2760295 AATCTTAAAATATA
1 AATTTTAAAATATA
2760309 TAACCCTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTTTAAAATATA
Found at i:2760875 original size:10 final size:10
Alignment explanation
Indices: 2760860--2760894 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
2760850 CTTGAATTTA
2760860 AAAAAATCAG
1 AAAAAATCAG
2760870 AAAAAATACA-
1 AAAAAAT-CAG
2760880 AAAAAATCAG
1 AAAAAATCAG
2760890 AAAAA
1 AAAAA
2760895 TTACAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 19 0.83
11 2 0.09
ACGTcount: A:0.77, C:0.09, G:0.06, T:0.09
Consensus pattern (10 bp):
AAAAAATCAG
Found at i:2760882 original size:20 final size:20
Alignment explanation
Indices: 2760859--2760905 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2760849 ACTTGAATTT
2760859 AAAAAAATCAGAAAAAATAC
1 AAAAAAATCAGAAAAAATAC
*
2760879 AAAAAAATCAGAAAAATTAC
1 AAAAAAATCAGAAAAAATAC
2760899 AAAAAAA
1 AAAAAAA
2760906 AAATAGTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.77, C:0.09, G:0.04, T:0.11
Consensus pattern (20 bp):
AAAAAAATCAGAAAAAATAC
Found at i:2761281 original size:21 final size:21
Alignment explanation
Indices: 2761252--2761295 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
2761242 TCCTCCACAC
*
2761252 TTTTTTTAATTT-AATTTTAG
1 TTTTTTTAATTTAAATATTAG
2761272 TTTTTCTTAATTTAAATATTAG
1 TTTTT-TTAATTTAAATATTAG
2761294 TT
1 TT
2761296 AAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTTTTAATTTAAATATTAG
Found at i:2761521 original size:21 final size:21
Alignment explanation
Indices: 2761495--2761540 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
2761485 GCTGGCCTAA
2761495 TAATGATGAGTTGAAAACTAG
1 TAATGATGAGTTGAAAACTAG
2761516 TAATGATGAGTTGAAAACTAG
1 TAATGATGAGTTGAAAACTAG
2761537 TAAT
1 TAAT
2761541 ACATGCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (21 bp):
TAATGATGAGTTGAAAACTAG
Found at i:2763557 original size:2 final size:2
Alignment explanation
Indices: 2763550--2763584 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2763540 AATATTCCTC
2763550 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2763585 TTTCCAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2767410 original size:3 final size:3
Alignment explanation
Indices: 2767402--2767495 Score: 100
Period size: 3 Copynumber: 30.7 Consensus size: 3
2767392 TCATTTAAAT
** * *
2767402 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2767450 TTA TTA TTA TTTA TTA TTA ATA TTA ATA -TA TATA TATA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TT
2767496 TAATAAATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.03
3 65 0.84
4 10 0.13
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2768071 original size:5 final size:5
Alignment explanation
Indices: 2768061--2768088 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2768051 AAAGGAAAAT
2768061 AGAAG AGAAG AGAAG AGAAG AGAAG AGA
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGA
2768089 GAGCTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:2768855 original size:3 final size:3
Alignment explanation
Indices: 2768837--2768899 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
2768827 TATTTTAATC
*
2768837 ATT ATTT ATT -TT ATT ATT ATT ATT -TT -TT ATT GTT -TT AATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
*
2768880 ATT -TC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
2768900 TATAAAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
2 9 0.18
3 37 0.73
4 5 0.10
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:2769223 original size:17 final size:17
Alignment explanation
Indices: 2769201--2769238 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2769191 ATATTTTATT
2769201 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
2769218 TATATTTTTTATATAAT
1 TATATTTTATATATAAA
2769235 TATA
1 TATA
2769239 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:2773999 original size:2 final size:2
Alignment explanation
Indices: 2773992--2774028 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2773982 CGAGTCAATG
2773992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2774029 TCACCCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2774374 original size:31 final size:30
Alignment explanation
Indices: 2774336--2774409 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 30
2774326 AGCTACTCGG
* *
2774336 AAAAAATATTACATT-ATAATTTTAGATTTTT
1 AAAAAATATT--ATTGATAATTATAAATTTTT
2774367 AAAAAATACATTATTGATAATTATAAATTTTT
1 AAAAAAT--ATTATTGATAATTATAAATTTTT
2774399 AAAAATATATT
1 AAAAA-ATATT
2774410 TTTAAATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
31 13 0.35
32 19 0.51
33 5 0.14
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (30 bp):
AAAAAATATTATTGATAATTATAAATTTTT
Found at i:2775817 original size:20 final size:20
Alignment explanation
Indices: 2775790--2775827 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2775780 TTAAATGGTA
2775790 AAAT-AAAAAAGGTTAAAAT
1 AAATAAAAAAAGGTTAAAAT
2775809 AAATGAAAAAAAGGTTAAA
1 AAAT-AAAAAAAGGTTAAA
2775828 TACAACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (20 bp):
AAATAAAAAAAGGTTAAAAT
Found at i:2777251 original size:5 final size:5
Alignment explanation
Indices: 2777241--2777274 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
2777231 ACCTGGACCG
2777241 AATAA AATAA AATAA AATAA AATATA ATATAA AA
1 AATAA AATAA AATAA AATAA AATA-A A-ATAA AA
2777275 CATATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 20 0.74
6 4 0.15
7 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:2777267 original size:22 final size:22
Alignment explanation
Indices: 2777242--2777313 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
2777232 CCTGGACCGA
2777242 ATAAAATAAAATAAAATAAAAT
1 ATAAAATAAAATAAAATAAAAT
* *
2777264 ATAATATAAAACATATAA-AAAAT
1 ATAAAAT-AAA-ATAAAATAAAAT
* *
2777287 ATATAACAAAATAATAATAATAAT
1 ATAAAATAAAATAA-AATAA-AAT
2777311 ATA
1 ATA
2777314 TTATATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 3 0.08
22 11 0.28
23 14 0.36
24 11 0.28
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAATAAAATAAAATAAAAT
Found at i:2777430 original size:36 final size:36
Alignment explanation
Indices: 2777309--2777430 Score: 149
Period size: 36 Copynumber: 3.3 Consensus size: 36
2777299 AATAATAATA
*
2777309 ATATATTATATATTTTTTCAAAAATATTTCCCAAAACT
1 ATATATTATATATTTTTT-AAAAATATTT-TCAAAACT
* *
2777347 ATATAATATATA-TTTTCAAAAATATTTT-AAAACT
1 ATATATTATATATTTTTTAAAAATATTTTCAAAACT
* *
2777381 ATATATTATATATATTTTTTAAAAATGTTTTCAAAATT
1 ATATA-T-TATATATTTTTTAAAAATATTTTCAAAACT
2777419 ATATATTATATA
1 ATATATTATATA
2777431 AGTTTTCAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
34 11 0.15
36 22 0.30
37 19 0.26
38 21 0.29
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.48
Consensus pattern (36 bp):
ATATATTATATATTTTTTAAAAATATTTTCAAAACT
Found at i:2777452 original size:24 final size:24
Alignment explanation
Indices: 2777407--2777454 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2777397 TTTTAAAAAT
2777407 GTTTTCAAAATTATATATTATATAA
1 GTTTTCAAAA-TATATATTATATAA
2777432 GTTTTCAAAA-ACTATATTATATA
1 GTTTTCAAAATA-TATATTATATA
2777455 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 11 0.50
25 10 0.45
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (24 bp):
GTTTTCAAAATATATATTATATAA
Found at i:2777454 original size:26 final size:25
Alignment explanation
Indices: 2777407--2777458 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
2777397 TTTTAAAAAT
*
2777407 GTTTTCAAAATTATATATTATATAA
1 GTTTTCAAAACTATATATTATATAA
2777432 GTTTTCAAAAACTATATTATATATATA
1 GTTTTC-AAAACTATA-TAT-TATATA
2777459 TATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 8 0.35
27 3 0.13
28 6 0.26
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (25 bp):
GTTTTCAAAACTATATATTATATAA
Found at i:2777456 original size:2 final size:2
Alignment explanation
Indices: 2777444--2777485 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2777434 TTTCAAAAAC
2777444 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2777485 T
1 T
2777486 TCAAAATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2777528 original size:39 final size:39
Alignment explanation
Indices: 2777465--2777567 Score: 165
Period size: 39 Copynumber: 2.7 Consensus size: 39
2777455 TATATATATA
*
2777465 TATATATATATATATATATATTCAAAATGTTTTCAAAAAC
1 TATATAT-TATATATATATTTTCAAAATGTTTTCAAAAAC
*
2777505 TATATATTATATATATATTTTCAAAATGTTTTCAAAAAT
1 TATATATTATATATATATTTTCAAAATGTTTTCAAAAAC
2777544 TATATA-T-TATATATATTTTCAAAA
1 TATATATTATATATATATTTTCAAAA
2777568 CCTGATTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
37 17 0.28
38 1 0.02
39 36 0.59
40 7 0.11
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.47
Consensus pattern (39 bp):
TATATATTATATATATATTTTCAAAATGTTTTCAAAAAC
Found at i:2778367 original size:183 final size:183
Alignment explanation
Indices: 2778052--2778403 Score: 535
Period size: 183 Copynumber: 1.9 Consensus size: 183
2778042 CCTCGAGCTG
* * * * * * *
2778052 AATGAAATCGAACTTGAAAGTCTTCAATAACAGATAGTTTTTCTCGACTTAAGCTATGCTGCTGG
1 AATGAAATCGAACTCGAAAGTCTTCAATAAAAGATAGCTTTTCTCGACTTAAACTAAGATGCTAG
* *
2778117 GAGATAGTTGCTCGTCACTAAAACACAGCTAACCCAGGTCTTCTTCTTGACTTAAAGACCTCGGT
66 GAGATAGTTGCTCATCACTAAAACACAACTAACCCAGGTCTTCTTCTTGACTTAAAGACCTCGGT
* *
2778182 TTAAACTTCAACTGGAAAGTAGTTCTTCGTTGCTACAATACAATTGATATGCC
131 TTAAACTTCAACTGGAAAGTAGTTCTTCGCTACTACAATACAATTGATATGCC
* *
2778235 AATGAAATCGAACTCGAAAGTCTTCATTAAAAGATAGCTTTTCTCGACTTAAACTAAGATGTTAG
1 AATGAAATCGAACTCGAAAGTCTTCAATAAAAGATAGCTTTTCTCGACTTAAACTAAGATGCTAG
* * * *
2778300 GAGATAGTTTCTTATCACTAAAACACAACTAACTCAGTTCTTCTTCTTGACTTAAAGA-CTCCGG
66 GAGATAGTTGCTCATCACTAAAACACAACTAACCCAGGTCTTCTTCTTGACTTAAAGACCT-CGG
2778364 TTTAAACTTCAACTGGAAAGTAGTTCTTCGCTACTACAAT
130 TTTAAACTTCAACTGGAAAGTAGTTCTTCGCTACTACAAT
2778404 GTGGTTAATA
Statistics
Matches: 151, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
182 2 0.01
183 149 0.99
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (183 bp):
AATGAAATCGAACTCGAAAGTCTTCAATAAAAGATAGCTTTTCTCGACTTAAACTAAGATGCTAG
GAGATAGTTGCTCATCACTAAAACACAACTAACCCAGGTCTTCTTCTTGACTTAAAGACCTCGGT
TTAAACTTCAACTGGAAAGTAGTTCTTCGCTACTACAATACAATTGATATGCC
Found at i:2780456 original size:62 final size:64
Alignment explanation
Indices: 2780367--2780491 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 64
2780357 TACCCTCTCA
* * * *
2780367 AACGAAAGAATCACGGAATGTATTGAGGGTA-TCGATACC-CAGTTGGGTATCGATACCCCCTTG
1 AACGAAAGAATCACAGAATGCATTGAGGGTACT-GATACCTAAGTAGGGTATCGATACCCCCTTG
*
2780430 AACGAAA-AATCACAGAATGCCA-TGAGGGTACTGATACCTTAAGTAGTGTATCGATACCCCCT
1 AACGAAAGAATCACAGAATG-CATTGAGGGTACTGATACC-TAAGTAGGGTATCGATACCCCCT
2780492 AAAGGAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
62 25 0.47
63 9 0.17
64 19 0.36
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (64 bp):
AACGAAAGAATCACAGAATGCATTGAGGGTACTGATACCTAAGTAGGGTATCGATACCCCCTTG
Found at i:2782938 original size:6 final size:6
Alignment explanation
Indices: 2782927--2782954 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2782917 CAGAGGGGAC
2782927 GAGGTA GAGGTA GAGGTA GAGGTA GAGG
1 GAGGTA GAGGTA GAGGTA GAGGTA GAGG
2782955 AAGAAATCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.54, T:0.14
Consensus pattern (6 bp):
GAGGTA
Found at i:2789259 original size:32 final size:32
Alignment explanation
Indices: 2789218--2789279 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2789208 CATCTATTTT
2789218 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
2789250 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
2789280 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:2790955 original size:63 final size:65
Alignment explanation
Indices: 2790854--2790979 Score: 177
Period size: 63 Copynumber: 2.0 Consensus size: 65
2790844 TACACTCTCA
* *
2790854 AACGAAAGAATCACAGAATGTATTGAGGGTATCGATACCCTCAGCT-GGGTACCGATACCCCCTT
1 AACGAAAGAATCACAGAATGCATTGAGGGTATCGATACCCTAAG-TAGGGTACCGATACCCCCTT
2790918 G
65 G
* * *
2790919 AACGAAA-AATCACA-AATGCCTTGAGGGTATCGATACCTTAAGTAGGGTATCGATACCCCCT
1 AACGAAAGAATCACAGAATGCATTGAGGGTATCGATACCCTAAGTAGGGTACCGATACCCCCT
2790980 AAAGGAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 1 0.02
63 40 0.73
64 7 0.13
65 7 0.13
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (65 bp):
AACGAAAGAATCACAGAATGCATTGAGGGTATCGATACCCTAAGTAGGGTACCGATACCCCCTTG
Found at i:2794811 original size:19 final size:20
Alignment explanation
Indices: 2794787--2794841 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
2794777 ATGCAAAAAT
2794787 GGTATCGATACCATAATA-G
1 GGTATCGATACCATAATATG
* *
2794806 GGTATCGGTACCATAGTATG
1 GGTATCGATACCATAATATG
2794826 GTAGTATCGATACCAT
1 G--GTATCGATACCAT
2794842 GGTAGGGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.53
20 2 0.07
22 12 0.40
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAATATG
Found at i:2795345 original size:54 final size:55
Alignment explanation
Indices: 2795202--2795354 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
2795192 TAAGTGTGCA
* * *
2795202 AAAACTTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCACTTTGTGTCC
1 AAAA-TTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCACTATATATCC
* * * * *
2795258 AAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGTACTATATATGC
1 AAAATTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCACTATATATCC
* *
2795313 -GAATTAAGAAATCCATACTAAGTGTATGAATTTCCGTATGGG
1 AAAATTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGG
2795355 AAATATATGT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 37 0.44
55 43 0.51
56 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (55 bp):
AAAATTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCACTATATATCC
Found at i:2795362 original size:54 final size:55
Alignment explanation
Indices: 2795202--2795362 Score: 198
Period size: 54 Copynumber: 2.9 Consensus size: 55
2795192 TAAGTGTGCA
* * * *
2795202 AAAACTTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCACTTTGTGTCC
1 AAAA-TTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGAACTATATATCC
* * * * *
2795258 AAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGTACTATATATGC
1 AAAATTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGAACTATATATCC
* * *
2795313 -GAATTAAGAAATCCATACTAAGTGTATGAATTTCCGTATGGGAAATATAT
1 AAAATTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGAACTATAT
2795363 GTGAAATTAT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 43 0.48
55 43 0.48
56 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (55 bp):
AAAATTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGAACTATATATCC
Found at i:2795669 original size:68 final size:67
Alignment explanation
Indices: 2795549--2795867 Score: 394
Period size: 68 Copynumber: 4.8 Consensus size: 67
2795539 AAAGATTAAT
* * * **
2795549 AGGCCTAACTGTGTATTTGAC---ATGTGTCAATTTTTTCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTTGACAGAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
2795611 TG
66 TA
* * **
2795613 AGGCCTAACTGTGCATTTGACATAAAGATGTCAATTATGCCAATTAGATGAAAGGCTAAGTGTTT
1 AGGCCTAACTGTGCATTTGACAGAAAG-TGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
2795678 TTT
65 TTA
* *
2795681 AGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAA-GTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2795746 TTA
65 TTA
* * *
2795749 AGGCCTACCTGTGCATTTGATAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAA-GTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2795814 TTA
65 TTA
* * * *
2795817 AGGCCTACCTGTTCATGTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAA-GTGTCAATTATGCCAGTTAGATGAA
2795868 CGGTAAAATA
Statistics
Matches: 223, Mismatches: 27, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
64 20 0.09
67 14 0.06
68 188 0.84
69 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (67 bp):
AGGCCTAACTGTGCATTTGACAGAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TA
Found at i:2795754 original size:136 final size:136
Alignment explanation
Indices: 2795548--2795867 Score: 434
Period size: 136 Copynumber: 2.4 Consensus size: 136
2795538 AAAAGATTAA
* * * *
2795548 TAGGCCTAACTGTGTATTTGAC----ATGTGTCAATTTTTTCAGTTAGATGAAAGGCTAAGTGCC
1 TAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTACC
* *
2795609 TTTGAGGCCTAACTGTGCATTTGACATAAAGATGTCAATTATGCCAATTAGATGAAAGGCTAAGT
66 TTTAAGGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAATTAGATGAAAGGCTAAGT
**
2795674 GTTTTT
131 GCCTTT
2795680 TAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTACC
1 TAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTACC
* * * * *
2795745 TTTAAGGCCTACCTGTGCATTTGATAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGT
66 TTTAAGGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAATTAGATGAAAGGCTAAGT
2795810 GCCTTT
131 GCCTTT
* * * * * *
2795816 AAGGCCTACCTGTTCATGTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAA
1 TAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAA
2795868 CGGTAAAATA
Statistics
Matches: 165, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
132 21 0.13
135 12 0.07
136 132 0.80
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (136 bp):
TAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTACC
TTTAAGGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAATTAGATGAAAGGCTAAGT
GCCTTT
Found at i:2796378 original size:81 final size:81
Alignment explanation
Indices: 2795834--2796353 Score: 690
Period size: 81 Copynumber: 6.4 Consensus size: 81
2795824 CCTGTTCATG
2795834 TGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAACGGTAAAATACCGTTGAGTAAAAGATTAAT
1 TGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGTTGAGTAAAAGATTAAT
2795898 GGCCTAGTTGTGCATT
66 GGCCTAGTTGTGCATT
* * **
2795914 TGGTAGAAAGGTGTCAATTATGCCAGTTAGATAAACGGTAAAATACTATTGAGTAAAAGATTAAT
1 TGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGTTGAGTAAAAGATTAAT
*
2795979 GGCCTAATTGTGCATT
66 GGCCTAGTTGTGCATT
* * *
2795995 TGGCAGAAAGGTGTCAATTATGCCAATTAGATGAATGGTAAAATACCGTTGAGTAAAAGATTAAC
1 TGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGTTGAGTAAAAGATTAAT
** *
2796060 AACCTAGTTGTGTATT
66 GGCCTAGTTGTGCATT
* * *
2796076 TGACAGAAATGTGTCAATTATGCCAGTT-GTATGAACGGTAAAACACCGTTGAGTAAAAGATTAA
1 TGGCAGAAAGGTGTCAATTATGCCAGTTAG-ATGAACGGTAAAATACCGTTGAGTAAAAGATTAA
*
2796140 TGGCCTA-TCTATGCATT
65 TGGCCTAGT-TGTGCATT
** * * * *
2796157 TGGCAGAAATATGTCAATTATGTCGGTTAGATGAACGGTAAAATACAGTTGAGTAGAAGATTAAT
1 TGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGTTGAGTAAAAGATTAAT
*
2796222 GGCCTAGCTGTGCATT
66 GGCCTAGTTGTGCATT
* ** * *
2796238 TGGCAAAAAAAATGTTAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGT-AAAGATTAA
1 TGGC-AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGTTGAGTAAAAGATTAA
*
2796302 TGGCCTAGTTGTGTATT
65 TGGCCTAGTTGTGCATT
* * *
2796319 TGGCAGGAAA-GTGTCCATTATGCAAGTAAGATGAA
1 TGGCA-GAAAGGTGTCAATTATGCCAGTTAGATGAA
2796354 AGGCTAAGTG
Statistics
Matches: 382, Mismatches: 51, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
80 44 0.12
81 294 0.77
82 44 0.12
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (81 bp):
TGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGTTGAGTAAAAGATTAAT
GGCCTAGTTGTGCATT
Found at i:2796475 original size:45 final size:45
Alignment explanation
Indices: 2796425--2796851 Score: 631
Period size: 45 Copynumber: 9.5 Consensus size: 45
2796415 CATATGTGGT
*
2796425 ATGAAAGGACGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
*
2796470 ATGAAAGGATGCCAT-AATGAAATGTACAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* *
2796514 ATGAAAGAATGCCATAAATGATATGTATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
*
2796559 ATGAAAGGATGCCATAAATGAAATATATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
** *
2796604 ATGAAAGGATATCATAAATGATATGTATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* * * * * *
2796649 ATAAAATGATGCAATAAATGAAATATATAATCGTGTATAAAATGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* *
2796694 ATGAAAGGATGCCATAAATGATATGTATAATAGTGTATAAAAGAC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* * *
2796739 ATGCAAGGATGTCATAAATGATATGTATAATAGTGTATAAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* *
2796784 ATGAAAGGATGCCATAAATGATATGTATAATAGTGTATAAAATGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
* * *
2796829 ACGAAATGATGCCATATATGAAA
1 ATGAAAGGATGCCATAAATGAAA
2796852 ATGCATAACG
Statistics
Matches: 342, Mismatches: 39, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 42 0.12
45 300 0.88
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGC
Found at i:2800501 original size:19 final size:20
Alignment explanation
Indices: 2800462--2800499 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2800452 TTAAATGGTA
2800462 AAATAAAAAAAGGTTAAAAT
1 AAATAAAAAAAGGTTAAAAT
*
2800482 AAATGAAAAAAGGTTAAA
1 AAATAAAAAAAGGTTAAA
2800500 TACAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (20 bp):
AAATAAAAAAAGGTTAAAAT
Found at i:2802855 original size:30 final size:30
Alignment explanation
Indices: 2802787--2802875 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 30
2802777 AGAGTCAAGG
* **
2802787 GTTACCTATGTCTTTCTAGACATATGGACA
1 GTTACCTATGTCCTTCGGGACATATGGACA
2802817 GTTTACCTATGTCCTTCGGGACATATGGACA
1 G-TTACCTATGTCCTTCGGGACATATGGACA
* *
2802848 GTTACCTATGTTCTTCGGAACATATGGA
1 GTTACCTATGTCCTTCGGGACATATGGA
2802876 TAGGTCCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
30 26 0.49
31 27 0.51
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGGGACATATGGACA
Found at i:2804327 original size:21 final size:19
Alignment explanation
Indices: 2804303--2804367 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 19
2804293 ACTGGACCGA
2804303 ATAAAATAAAATTAATATAAT
1 ATAAAATAAAATTAA-A-AAT
* *
2804324 ATAATATAATA-TAAAACAT
1 ATAAAATAAAATTAAAA-AT
*
2804343 ATAATAAATAAAAATAAAAAT
1 AT-A-AAATAAAATTAAAAAT
2804364 ATAA
1 ATAA
2804368 CCAAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 5 0.14
21 19 0.53
22 5 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAATAAAATTAAAAAT
Found at i:2804435 original size:37 final size:37
Alignment explanation
Indices: 2804385--2804674 Score: 351
Period size: 37 Copynumber: 7.7 Consensus size: 37
2804375 ATTAATAATA
*
2804385 ATATATTATATATATTTTCGAAAACAT-TTTTGAAAAC-
1 ATATATTATATATATTTTC-AAAA-ATGTTTTCAAAACT
*
2804422 ATATATTATATATATTTTTAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
*
2804459 ATATATTATATA-GTTTTCAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
* *
2804495 ATATATTATATATGTTTTCAAAAATATTTTCAAAACT
1 ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
2804532 ATATATTATATA-AGTTTTC-AAAATGTTTTCAAAATCT
1 ATATATTATATATA-TTTTCAAAAATGTTTTCAAAA-CT
*
2804569 ATATTATATATATATATATTC-AAAATGTTTTCAAAAACT
1 ATA-TAT-TATATATATTTTCAAAAATGTTTTC-AAAACT
*
2804608 ATATATTATATATATTTTTTC-AAAATGTTTTGAAAAACTAT
1 ATATATTATATATA--TTTTCAAAAATGTTTT-CAAAAC--T
2804649 ATATTATTATATATATTTTCAAAAAT
1 ATA-TATTATATATATTTTCAAAAAT
2804675 CGATTTTTTA
Statistics
Matches: 227, Mismatches: 10, Indels: 28
0.86 0.04 0.11
Matches are distributed among these distances:
35 2 0.01
36 61 0.27
37 83 0.37
38 6 0.03
39 45 0.20
40 10 0.04
41 9 0.04
42 11 0.05
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
Found at i:2808454 original size:21 final size:21
Alignment explanation
Indices: 2808428--2808470 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2808418 ACCTAGGTTT
2808428 AAACAATTTGTTGTAGATGGC
1 AAACAATTTGTTGTAGATGGC
2808449 AAACAATTTGTTGTAGATGGC
1 AAACAATTTGTTGTAGATGGC
2808470 A
1 A
2808471 CCAAGCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
AAACAATTTGTTGTAGATGGC
Found at i:2810582 original size:2 final size:2
Alignment explanation
Indices: 2810570--2810608 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2810560 ATCGAAATTA
*
2810570 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2810609 ACTCTTATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2811906 original size:3 final size:3
Alignment explanation
Indices: 2811898--2811932 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2811888 GCATGCATAT
2811898 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2811933 TTTTAATGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2812518 original size:60 final size:60
Alignment explanation
Indices: 2812445--2812584 Score: 192
Period size: 60 Copynumber: 2.3 Consensus size: 60
2812435 AAAACAGGGT
* * * *
2812445 AAAGTATAC-AAATGGTCCCTCGACTATAGGGTGATGCTTTGTTGAGTCTCTCGACTATTA
1 AAAGT-TACAAAATGATCACTCGACTATAGGGTGATGCTTTGTTGAGTCTCACGACTATGA
* * *
2812505 AAAGTTACAAAATGATCATTCGACTATAGGGTGTTGCTTTGTTGAGTCTCACTACTATGA
1 AAAGTTACAAAATGATCACTCGACTATAGGGTGATGCTTTGTTGAGTCTCACGACTATGA
*
2812565 AAAGTTACAAAATGACCACT
1 AAAGTTACAAAATGATCACT
2812585 TAACTATTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
59 3 0.04
60 67 0.96
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (60 bp):
AAAGTTACAAAATGATCACTCGACTATAGGGTGATGCTTTGTTGAGTCTCACGACTATGA
Found at i:2812875 original size:60 final size:60
Alignment explanation
Indices: 2812802--2812926 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
2812792 GTTGGGTGAC
* *
2812802 CATTTTGTAACTTTTAATAGTCGGGGGACTCAACAAAGCAACACCCTATAATCAAAAGAT
1 CATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACCCTATAATCAAAAGAT
* * ** * *
2812862 CATTTTATAACTTTTAATAGTTGAGGGATTCAACAAAGCATTACCCTATAGTCAAGAGAT
1 CATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACCCTATAATCAAAAGAT
*
2812922 TATTT
1 CATTT
2812927 GTGTAATTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACCCTATAATCAAAAGAT
Found at i:2819996 original size:2 final size:2
Alignment explanation
Indices: 2819979--2820012 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
2819969 AAGAGTTTGG
*
2819979 AT AT GAT AT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2820013 CACATGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2822178 original size:42 final size:42
Alignment explanation
Indices: 2822119--2822251 Score: 248
Period size: 42 Copynumber: 3.2 Consensus size: 42
2822109 ACTGTGATGG
2822119 GGGCTACCATCATTTTCAGCACTTCGCTTCTCTCTCCTATAA
1 GGGCTACCATCATTTTCAGCACTTCGCTTCTCTCTCCTATAA
2822161 GGGCTACCATCATTTTCAGCACTTCGCTTCTCTCTCCTATAA
1 GGGCTACCATCATTTTCAGCACTTCGCTTCTCTCTCCTATAA
*
2822203 GGGCTACCATCATTTTCAGCACTTTGCTTCTCTCTCCTATAA
1 GGGCTACCATCATTTTCAGCACTTCGCTTCTCTCTCCTATAA
*
2822245 GGACTAC
1 GGGCTAC
2822252 GGATAGGGCC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (42 bp):
GGGCTACCATCATTTTCAGCACTTCGCTTCTCTCTCCTATAA
Found at i:2828027 original size:23 final size:23
Alignment explanation
Indices: 2828001--2828046 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2827991 TAAAAAGTTC
*
2828001 AGATTACACGACCAAAATAACAA
1 AGATTACACAACCAAAATAACAA
2828024 AGATTACACAACCAAAATAACAA
1 AGATTACACAACCAAAATAACAA
2828047 CACAACTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.22, G:0.07, T:0.13
Consensus pattern (23 bp):
AGATTACACAACCAAAATAACAA
Found at i:2833330 original size:2 final size:2
Alignment explanation
Indices: 2833323--2833439 Score: 220
Period size: 2 Copynumber: 59.5 Consensus size: 2
2833313 ATACTGCACC
2833323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2833365 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2833406 TA TA TA TA TA TA TA TA TA TA -A 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 T
2833440 TGACAATAAC
Statistics
Matches: 113, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
1 2 0.02
2 111 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2835020 original size:3 final size:3
Alignment explanation
Indices: 2835012--2835058 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
2835002 TGTAATATAT
* *
2835012 TAA TAA TAAA TAA TAA -GA TGA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2835056 TAA
1 TAA
2835059 ATAACGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2835274 original size:42 final size:41
Alignment explanation
Indices: 2835217--2835543 Score: 195
Period size: 42 Copynumber: 7.8 Consensus size: 41
2835207 TGTTGGGGAC
* * * *
2835217 GACACTGCTCGTACGTGATGAAGAGTTTGGTTATCTATGGTT
1 GACACGGCTCATACGTGATGAAGAGTCTGG-TATCTAAGGTT
* ** *
2835259 GACACGGCTCCTACGTGATGAAGAGATCTGG--TC-GGGGAAT
1 GACACGGCTCATACGTGATGAAGAG-TCTGGTATCTAAGG-TT
*
2835299 GACACGG-TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCATACGTGATGAAGAG-TCTGG-TATCT-AAGGT--T
* * * * * *
2835344 AACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-AGGGT
1 GACACGGCTCATACGTGATGAAGA-GTCTGG-TATCTAAGGTT
** *
2835386 GACACGGCTCATACGTGATGAAGAGATCTGG--TC-GGGGAAT
1 GACACGGCTCATACGTGATGAAGAG-TCTGGTATCTAAGG-TT
*
2835426 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCATACGTGATGAAGAG-TCTGG-TATCT-AAGGT--T
* * * * * * *
2835472 AACACGGTTCCTATGTGATGAGGACGGCTGGTATCTATGGTT
1 GACACGGCTCATACGTGATGAAGA-GTCTGGTATCTAAGGTT
2835514 GACACGGCTCATACGTGATGAAGA-TCTGGT
1 GACACGGCTCATACGTGATGAAGAGTCTGGT
2835544 CTGGGGATGA
Statistics
Matches: 220, Mismatches: 43, Indels: 46
0.71 0.14 0.15
Matches are distributed among these distances:
39 27 0.12
40 46 0.21
41 1 0.00
42 70 0.32
43 6 0.03
44 9 0.04
45 13 0.06
46 46 0.21
47 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (41 bp):
GACACGGCTCATACGTGATGAAGAGTCTGGTATCTAAGGTT
Found at i:2835440 original size:40 final size:41
Alignment explanation
Indices: 2835258--2835572 Score: 170
Period size: 46 Copynumber: 7.5 Consensus size: 41
2835248 TATCTATGGT
*
2835258 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGATCAGGGG-A
* *
2835298 TGACACGG-TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG--ATC---AGGGGA
* * * * *
2835343 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA-GGG-
1 TGACACGGCTCATACGTGATGAAGA-GATCTGG--ATC-AGGGGA
2835385 TGACACGGCTCATACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGATCAGGGG-A
* *
2835425 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG--ATC---AGGGGA
* * * * * * * *
2835471 TAACACGGTTCCTATGTGATGAGGACG-GCTGGTATCTA-TGGT
1 TGACACGGCTCATACGTGATGAAGA-GATCTGG-ATC-AGGGGA
*
2835513 TGACACGGCTCATACGTGATG-A-AGATCTGG-TCTGGGGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGATCAGGGGA
* * *
2835551 TGACACGGTTCCTACATGATGA
1 TGACACGGCTCATACGTGATGA
2835573 GGACGACTGG
Statistics
Matches: 210, Mismatches: 41, Indels: 49
0.70 0.14 0.16
Matches are distributed among these distances:
38 25 0.12
39 24 0.11
40 44 0.21
41 1 0.00
42 45 0.21
43 5 0.02
44 1 0.00
45 11 0.05
46 49 0.23
47 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (41 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGATCAGGGGA
Found at i:2835507 original size:127 final size:128
Alignment explanation
Indices: 2835244--2835559 Score: 552
Period size: 128 Copynumber: 2.5 Consensus size: 128
2835234 ATGAAGAGTT
*
2835244 TGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGTCA
1 TGGTTATCTATGGTTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGTCA
2835309 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
66 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
*
2835372 TGGTTATCTA-GGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTC
1 TGGTTATCTATGGTTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGG-TC
*
2835436 ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTATGTGATGAGGACGGC
65 ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
2835500 TGG-TATCTATGGTTGACACGGCTCATACGTGATG-A-AGATCTGGTCTGGGG-ATGACACGGT
1 TGGTTATCTATGGTTGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGGAATGACACGGT
2835560 TCCTACATGA
Statistics
Matches: 181, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
125 1 0.01
126 19 0.10
127 60 0.33
128 101 0.56
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (128 bp):
TGGTTATCTATGGTTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGTCA
TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
Found at i:2835571 original size:80 final size:83
Alignment explanation
Indices: 2835425--2835582 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 83
2835415 GGTCGGGGAA
* **
2835425 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTATGTGA
1 TGACACGGCTCATACGTGATGAAGAG-TCTGG-C-TCT--AGGGGATAACACGGTTCCTACATGA
*
2835490 TGAGGACGGCTGGTATCTATGGT
61 TGAGGACGACTGGTATCTATGGT
*
2835513 TGACACGGCTCATACGTGATGAAGA-TCTGG-TCT-GGGGATGACACGGTTCCTACATGATGAGG
1 TGACACGGCTCATACGTGATGAAGAGTCTGGCTCTAGGGGATAACACGGTTCCTACATGATGAGG
2835575 ACGACTGG
66 ACGACTGG
2835583 CCTTTTTAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
80 32 0.49
83 3 0.05
86 5 0.08
88 25 0.38
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (83 bp):
TGACACGGCTCATACGTGATGAAGAGTCTGGCTCTAGGGGATAACACGGTTCCTACATGATGAGG
ACGACTGGTATCTATGGT
Found at i:2836017 original size:15 final size:15
Alignment explanation
Indices: 2835993--2836034 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
2835983 AAGATGATCT
*
2835993 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
2836008 TGTTTC-A-AGAAAA
1 TGTTTCAAGAGAAAA
*
2836021 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
2836035 CGACTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:2836020 original size:13 final size:13
Alignment explanation
Indices: 2836002--2836029 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2835992 TTGTTTTAAG
2836002 AGAAAATGTTTCA
1 AGAAAATGTTTCA
2836015 AGAAAATGTTTCA
1 AGAAAATGTTTCA
2836028 AG
1 AG
2836030 TGAAACGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (13 bp):
AGAAAATGTTTCA
Found at i:2836242 original size:61 final size:59
Alignment explanation
Indices: 2836149--2836388 Score: 140
Period size: 62 Copynumber: 4.0 Consensus size: 59
2836139 AAGGTGGGTA
* *
2836149 TTTTCAAAAGAAGTTGTCTCGAGAGACAAAATTTTGTTTCAAAGGAAACCA-ACTCAAAGAT
1 TTTTCAAAAGAAATTGTCTCGAGAGACAAAA-TTT-TTTCAAAAGAAA-CAGACTCAAAGAT
** * *
2836210 TTTTCAAAAGAAATTGTCTTTAGGAGA-TAAATTTTTTCAAAAGAAATAGACTCAAAGATATT
1 TTTTCAAAAGAAATTGTCTCGA-GAGACAAAATTTTTTCAAAAGAAACAGACTCAAAG--A-T
** * * *
2836272 TGTTTCAAAAGAAA--CACTC---A-A-AGATTTTTATTCAAAAGGAACAGACTCAAAGAT
1 T-TTTCAAAAGAAATTGTCTCGAGAGACAAAATTTT-TTCAAAAGAAACAGACTCAAAGAT
* * * * * *
2836326 TTATCTCAAGAGAAACTGTCTCCAGAGACAAAATTCGTTTT-AAGAGAAAAAGATTCAAAGAT
1 TT-T-TCAAAAGAAATTGTCTCGAGAGACAAAATT--TTTTCAAAAGAAACAGACTCAAAGAT
2836388 T
1 T
2836389 GTCGATATTG
Statistics
Matches: 138, Mismatches: 23, Indels: 35
0.70 0.12 0.18
Matches are distributed among these distances:
53 1 0.01
54 3 0.02
55 10 0.07
56 6 0.04
57 24 0.17
58 1 0.01
59 19 0.14
60 4 0.03
61 26 0.19
62 28 0.20
63 14 0.10
64 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (59 bp):
TTTTCAAAAGAAATTGTCTCGAGAGACAAAATTTTTTCAAAAGAAACAGACTCAAAGAT
Found at i:2836314 original size:27 final size:28
Alignment explanation
Indices: 2836244--2836327 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 28
2836234 AGATAAATTT
*
2836244 TTTCAAAAGAAATAGACTCAAAGATATTTG
1 TTTCAAAAGAAACA-ACTCAAAGAT-TTTG
2836274 TTTCAAAAGAAAC-ACTCAAAGATTTT-
1 TTTCAAAAGAAACAACTCAAAGATTTTG
*
2836300 TATTCAAAAGGAACAGACTCAAAGATTT
1 T-TTCAAAAGAAACA-ACTCAAAGATTT
2836328 ATCTCAAGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.02
27 14 0.29
28 10 0.20
29 12 0.24
30 12 0.24
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (28 bp):
TTTCAAAAGAAACAACTCAAAGATTTTG
Found at i:2836327 original size:29 final size:27
Alignment explanation
Indices: 2836241--2836327 Score: 104
Period size: 29 Copynumber: 3.1 Consensus size: 27
2836231 AGGAGATAAA
*
2836241 TTTTTTCAAAAGAAATAGACTCAAAGAT
1 TTTTTTCAAAAGGAA-AGACTCAAAGAT
*
2836269 ATTTGTTTCAAAA-GAAACACTCAAAGAT
1 -TTT-TTTCAAAAGGAAAGACTCAAAGAT
2836297 TTTTATTCAAAAGGAACAGACTCAAAGAT
1 TTTT-TTCAAAAGGAA-AGACTCAAAGAT
2836326 TT
1 TT
2836328 ATCTCAAGAG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 10 0.20
28 14 0.27
29 18 0.35
30 8 0.16
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (27 bp):
TTTTTTCAAAAGGAAAGACTCAAAGAT
Found at i:2836328 original size:27 final size:26
Alignment explanation
Indices: 2836240--2836334 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 26
2836230 TAGGAGATAA
* *
2836240 ATTTTTTCAAAAGAAATAGACTCAAAG
1 ATTTATTCAAAAGGAA-AGACTCAAAG
* *
2836267 ATATTTGTTTCAAAA-GAAACACTCAAAG
1 --ATTT-ATTCAAAAGGAAAGACTCAAAG
2836295 ATTTTTATTCAAAAGGAACAGACTCAAAG
1 A--TTTATTCAAAAGGAA-AGACTCAAAG
2836324 ATTTATCTCAA
1 ATTTAT-TCAA
2836335 GAGAAACTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
26 1 0.02
27 12 0.21
28 19 0.34
29 16 0.29
30 8 0.14
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.31
Consensus pattern (26 bp):
ATTTATTCAAAAGGAAAGACTCAAAG
Found at i:2836917 original size:35 final size:35
Alignment explanation
Indices: 2836816--2836917 Score: 134
Period size: 35 Copynumber: 2.9 Consensus size: 35
2836806 CAAAGGAAAA
* * **
2836816 TGTCTCAAGCGAGACGAAGTTTGTTTTAAG-AATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAGC
* *
2836850 TGTCTCAAACGAGACAAAATTTGTTTTTAGAAAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAGC
*
2836885 TGTCTCAAGCGAGACAAAATTTGTTTCAAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAAA
2836918 AACACCCTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
34 26 0.45
35 32 0.55
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAGC
Found at i:2837216 original size:4 final size:4
Alignment explanation
Indices: 2837207--2837265 Score: 59
Period size: 4 Copynumber: 14.2 Consensus size: 4
2837197 ATTTTATGTA
*
2837207 TATG TATG TATG TAT- TGATG TATG TATG TATTG ATATG TTTG TAT- TGATG
1 TATG TATG TATG TATG T-ATG TATG TATG TA-TG -TATG TATG TATG T-ATG
2837257 TATG TATG T
1 TATG TATG T
2837266 TGATTTGTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 2 0.04
4 37 0.79
5 6 0.13
6 2 0.04
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:2837229 original size:12 final size:14
Alignment explanation
Indices: 2837201--2837263 Score: 69
Period size: 14 Copynumber: 4.5 Consensus size: 14
2837191 ATGCAAATTT
2837201 TATGTATATGTATG
1 TATGTATATGTATG
2837215 TATGTATTGATGTATG
1 TATGTA-T-ATGTATG
2837231 TATGTAT-TGATATG
1 TATGTATATG-TATG
*
2837245 TTTGTAT-TG-ATG
1 TATGTATATGTATG
2837257 TATGTAT
1 TATGTAT
2837264 GTTGATTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
12 9 0.20
13 2 0.05
14 18 0.41
15 2 0.05
16 13 0.30
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.52
Consensus pattern (14 bp):
TATGTATATGTATG
Found at i:2837236 original size:30 final size:30
Alignment explanation
Indices: 2837201--2837265 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
2837191 ATGCAAATTT
2837201 TATGTATATG-TATGTATGTATTGATGTATG
1 TATGTAT-TGATATGTATGTATTGATGTATG
*
2837231 TATGTATTGATATGTTTGTATTGATGTATG
1 TATGTATTGATATGTATGTATTGATGTATG
2837261 TATGT
1 TATGT
2837266 TGATTTGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (30 bp):
TATGTATTGATATGTATGTATTGATGTATG
Found at i:2842990 original size:2 final size:2
Alignment explanation
Indices: 2842983--2843013 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2842973 AACATGCACC
2842983 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2843014 TGACAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2849869 original size:15 final size:15
Alignment explanation
Indices: 2849849--2849880 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2849839 TAAATAGATT
2849849 GCACAAGCGATTTTA
1 GCACAAGCGATTTTA
*
2849864 GCACAAGTGATTTTA
1 GCACAAGCGATTTTA
2849879 GC
1 GC
2849881 CAATGCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (15 bp):
GCACAAGCGATTTTA
Found at i:2854043 original size:13 final size:13
Alignment explanation
Indices: 2853999--2854050 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
2853989 TGACTCTATT
*
2853999 CGAGTTGACTCAAC
1 CGAGTTGACTC-AG
2854013 CG-GTTTGACTCAG
1 CGAG-TTGACTCAG
*
2854026 CGAGTTGGCTCAG
1 CGAGTTGACTCAG
*
2854039 TGAGTTGACTCA
1 CGAGTTGACTCA
2854051 ACTTGACCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 22 0.69
14 10 0.31
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (13 bp):
CGAGTTGACTCAG
Found at i:2860879 original size:20 final size:19
Alignment explanation
Indices: 2860832--2860870 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2860822 ATGACCAACA
*
2860832 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
2860851 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
2860870 A
1 A
2860871 GTATCGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:2860979 original size:20 final size:20
Alignment explanation
Indices: 2860954--2861000 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2860944 ATAATACATA
2860954 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
2860974 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2860994 GTCGCAA
1 ATCGCAA
2861001 TGTTGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:2861170 original size:17 final size:17
Alignment explanation
Indices: 2861148--2861185 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
2861138 CGACATCCGT
2861148 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
2861165 TCCTATATCCAACGACA
1 TCCTATATCCAACGACA
2861182 TCCT
1 TCCT
2861186 TCTCCATCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (17 bp):
TCCTATATCCAACGACA
Found at i:2864373 original size:20 final size:20
Alignment explanation
Indices: 2864348--2864601 Score: 195
Period size: 20 Copynumber: 13.7 Consensus size: 20
2864338 TTACACATTC
*
2864348 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
**
2864368 ATTTGACTATCGCAACATGA
1 ATTTGACTATCGCAACGCGA
* *
2864388 ATTTGACTATCGTAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
2864407 A----A-AATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
2864422 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2864442 ATATGACTATCGCAACGCCA
1 ATTTGACTATCGCAACGCGA
*
2864462 A----A--ATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
2864476 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2864496 ATTTGACTATCGCAGCGTGA
1 ATTTGACTATCGCAACGCGA
* * *
2864516 ATTTGATTATTGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
2864536 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
2864556 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
2864570 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2864590 A-TTGACTTTCGC
1 ATTTGACTATCGC
2864602 GTTGCGATTT
Statistics
Matches: 185, Mismatches: 31, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
14 30 0.16
15 3 0.02
16 2 0.01
18 2 0.01
19 12 0.06
20 136 0.74
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:2864449 original size:54 final size:54
Alignment explanation
Indices: 2864356--2864509 Score: 245
Period size: 54 Copynumber: 2.9 Consensus size: 54
2864346 TCATTTGAAT
* ** * *
2864356 ATCGCAACGCGAATTTGACTATCGCAACATGAATTTGACTATCGTAACTCAAAA
1 ATCGCAACGCAAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
* *
2864410 ATCGCAACGCAAATTTGACTATCGCAACGCGAATATGACTATCGCAACGCCAAA
1 ATCGCAACGCAAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
2864464 ATCGCAACGCAAATTTGACTATCGCAACGCGAATTTGACTATCGCA
1 ATCGCAACGCAAATTTGACTATCGCAACGCGAATTTGACTATCGCA
2864510 GCGTGAATTT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCAAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
Found at i:2864531 original size:94 final size:93
Alignment explanation
Indices: 2864421--2864601 Score: 254
Period size: 94 Copynumber: 1.9 Consensus size: 93
2864411 TCGCAACGCA
* * *
2864421 AATTTGACTATCGCAACGCGAATATGACTATCGCAACGCCAAAATCGCAACGCAAATTTGACTAT
1 AATTTGACTATCGCAACGCGAATATGACTATCGCAACGACAAAATCGCAAAGCAAATTAGACTAT
2864486 CGCAACGCGAATTTGACTATCGCAGCGTG
66 CGCAACGCGAA-TTGACTATCGCAGCGTG
* * * * * **
2864515 AATTTGATTATTGCAACGGGAATTTGACTATCGCAACGAGAAAATCGCAAAGCGTATTAGACTAT
1 AATTTGACTATCGCAACGCGAATATGACTATCGCAACGACAAAATCGCAAAGCAAATTAGACTAT
*
2864580 CGCAACGCGAATTGACTTTCGC
66 CGCAACGCGAATTGACTATCGC
2864602 GTTGCGATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
93 10 0.13
94 66 0.87
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (93 bp):
AATTTGACTATCGCAACGCGAATATGACTATCGCAACGACAAAATCGCAAAGCAAATTAGACTAT
CGCAACGCGAATTGACTATCGCAGCGTG
Found at i:2864620 original size:20 final size:20
Alignment explanation
Indices: 2864591--2864651 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
2864581 GCAACGCGAA
*
2864591 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
2864611 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
*
2864631 TTGACTTTCGTATTGCGATT
1 TTGACTTTCGCATTGCGATT
2864651 T
1 T
2864652 GAGTTTAGCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:2864806 original size:14 final size:14
Alignment explanation
Indices: 2864787--2864823 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
2864777 CATCAATTAA
2864787 ACAAATCAACTTTT
1 ACAAATCAACTTTT
2864801 ACAAATCAACTTTT
1 ACAAATCAACTTTT
2864815 ACAAATCAA
1 ACAAATCAA
2864824 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2864844 original size:77 final size:78
Alignment explanation
Indices: 2864720--2864886 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 78
2864710 ATTGAAATCA
*
2864720 ACAAATCAACTTTTACATTTCAATCAATTAAATAAGAACAAATAAGAATTATTTACACATCAATT
1 ACAAATCAACTTTTACA--T-AATCAATTAAACAAGAACAAATAAGAATTATTTACACATCAATT
2864785 AAACAAATCAACTTTT
63 AAACAAATCAACTTTT
*
2864801 ACAAATCAACTTTTACA-AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAA
1 ACAAATCAACTTTTACATAATCAATTAAACAAGAACAAATAAGAATTATTTACACATCAATTAAA
2864865 CAAATCAACTTTT
66 CAAATCAACTTTT
2864878 ACAAATCAA
1 ACAAATCAA
2864887 TTAAACAAGC
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
77 67 0.80
81 17 0.20
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (78 bp):
ACAAATCAACTTTTACATAATCAATTAAACAAGAACAAATAAGAATTATTTACACATCAATTAAA
CAAATCAACTTTT
Found at i:2864853 original size:36 final size:36
Alignment explanation
Indices: 2864741--2864867 Score: 112
Period size: 36 Copynumber: 3.4 Consensus size: 36
2864731 TTTACATTTC
* *
2864741 AATCAATTAAATAAGAACAAATAAGAATTATTTACA
1 AATCAATTAAACAAGCACAAATAAGAATTATTTACA
* * *** *
2864777 CATCAATTAAACAAATCAACTTTTACA-AATCAACTTTTACA
1 AATCAATTAAAC-AAGC-ACAAATA-AGAAT-TA--TTTACA
2864818 AATCAATTAAACAAGCACAAATAAGAATTATTTACA
1 AATCAATTAAACAAGCACAAATAAGAATTATTTACA
*
2864854 CATCAATTAAACAA
1 AATCAATTAAACAA
2864868 ATCAACTTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
36 29 0.42
37 2 0.03
38 9 0.13
39 9 0.13
40 3 0.04
41 17 0.25
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.28
Consensus pattern (36 bp):
AATCAATTAAACAAGCACAAATAAGAATTATTTACA
Found at i:2864870 original size:63 final size:67
Alignment explanation
Indices: 2864801--2864974 Score: 214
Period size: 63 Copynumber: 2.6 Consensus size: 67
2864791 ATCAACTTTT
*
2864801 ACAAATCAACTTTTACAAATCAATTAAACAAGC-ACAAA-TAAGAA-TTA-TTTACACATCAATT
1 ACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAACTAAGAATTTATTTTACACATCAATT
2864862 AA
66 AA
* * *
2864864 ACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATGCTAATAATTCTTATTTTCCTCATC
1 ACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAA--CTAAGAA-T-TTATTTTACACATC
2864929 AATTAA
62 AATTAA
*
2864935 ACAAATCAGACTTTTA-AGAATCAATTAAACAATCAAAAAA
1 ACAAATCA-ACTTTTACA-AATCAATTAAACAAGCAAAAAA
2864975 AGTATACCCC
Statistics
Matches: 96, Mismatches: 5, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
63 33 0.34
64 4 0.04
67 5 0.05
70 3 0.03
71 23 0.24
72 28 0.29
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.28
Consensus pattern (67 bp):
ACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAACTAAGAATTTATTTTACACATCAATT
AA
Found at i:2866162 original size:42 final size:42
Alignment explanation
Indices: 2866103--2866225 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
2866093 ATGAATCGGG
* *
2866103 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
** *
2866145 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGACAGGGGC
***
2866187 CTCTTGAACGACAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAG-GGACCTCTTGAACGATGACAGG
2866226 TGAGTCGGAC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 62 0.93
43 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:2866163 original size:21 final size:21
Alignment explanation
Indices: 2866103--2866217 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 21
2866093 ATGAATCGGG
* *
2866103 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
2866124 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
2866145 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
2866166 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
*** *
2866187 CTCTTGAACGACAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
2866208 CTCTTGAACG
1 CTCTTGAACG
2866218 ATGACAGGTG
Statistics
Matches: 70, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 3 0.04
21 65 0.93
22 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.37, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:2866746 original size:20 final size:20
Alignment explanation
Indices: 2866723--2866767 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2866713 AACTTAAAAA
*
2866723 CGCAACGTGAAAATGACTAT
1 CGCAACGCGAAAATGACTAT
**
2866743 CGCAACGCGAATTTGACTAT
1 CGCAACGCGAAAATGACTAT
2866763 CGCAA
1 CGCAA
2866768 TGGGATAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
CGCAACGCGAAAATGACTAT
Found at i:2866838 original size:20 final size:19
Alignment explanation
Indices: 2866813--2866879 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
2866803 CGAAACTAAA
2866813 TTCGCATTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
2866833 TTCGCATTGCGATTTTC--
1 TTCGCATTGCGATTTTCAT
*
2866850 -TCG--TTGCGATTTTTAT
1 TTCGCATTGCGATTTTCAT
2866866 TTCGCATTGCGATT
1 TTCGCATTGCGATT
2866880 ATCCCGTTGC
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 8 0.20
20 17 0.41
ACGTcount: A:0.13, C:0.19, G:0.18, T:0.49
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:2866874 original size:33 final size:34
Alignment explanation
Indices: 2866819--2866892 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 34
2866809 TAAATTCGCA
* *
2866819 TTGCGATTTTCATTTTCGCATTGCGATTTTCTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTATCCCG
*
2866853 TTGCGATTTTTA-TTTCGCATTGCGATTATCCCG
1 TTGCGATTTTCATTTTCGCATTGCGATTATCCCG
2866886 TTGCGAT
1 TTGCGAT
2866893 AGTCAAATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 26 0.70
34 11 0.30
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (34 bp):
TTGCGATTTTCATTTTCGCATTGCGATTATCCCG
Found at i:2866909 original size:20 final size:20
Alignment explanation
Indices: 2866884--2866952 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
2866874 GCGATTATCC
*
2866884 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
2866904 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
*
2866924 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
2866944 CGTTGCGAT
1 CGTTGCGAT
2866953 TTTTAAGTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.07
20 39 0.87
21 3 0.07
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:2866910 original size:34 final size:37
Alignment explanation
Indices: 2866866--2866953 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 37
2866856 CGATTTTTAT
*
2866866 TTCGCATTGCGATT-A-TCC-CGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTCATTCCGCGTTGCGATAGTCAAA
**
2866900 TTCGCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGAT--TCA-TTCCGCGTTGCGATAGTCAAA
2866940 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
2866954 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
34 12 0.27
36 1 0.02
37 1 0.02
38 1 0.02
39 3 0.07
40 27 0.60
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (37 bp):
TTCGCGTTGCGATTCATTCCGCGTTGCGATAGTCAAA
Found at i:2868892 original size:20 final size:20
Alignment explanation
Indices: 2868869--2868988 Score: 161
Period size: 20 Copynumber: 6.0 Consensus size: 20
2868859 TCTGAAACTT
2868869 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
2868889 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
2868909 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
2868929 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
2868949 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
2868968 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
2868988 A
1 A
2868989 CTATCGTAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
19 14 0.16
20 75 0.84
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2868983 original size:59 final size:60
Alignment explanation
Indices: 2868892--2869014 Score: 221
Period size: 59 Copynumber: 2.1 Consensus size: 60
2868882 GAAAATGAAA
2868892 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
* *
2868952 ATCGCAACGCG-AAATGAAAATCGCAACACGAAAATGACTATCGTAACGCGAATTTGACT
1 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
2869011 ATCG
1 ATCG
2869015 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 51 0.84
60 10 0.16
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (60 bp):
ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
Found at i:2868994 original size:20 final size:20
Alignment explanation
Indices: 2868872--2869014 Score: 153
Period size: 20 Copynumber: 7.2 Consensus size: 20
2868862 GAAACTTAAA
**
2868872 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
**
2868892 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
2868912 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
2868932 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
* **
2868952 ATCGCAACGCG-AAATGAAA
1 ATCGCAACACGAAAATGACT
2868971 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* * **
2868991 ATCGTAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
2869011 ATCG
1 ATCG
2869015 TTGCGATTTT
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
19 14 0.13
20 92 0.87
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:2869418 original size:22 final size:22
Alignment explanation
Indices: 2869391--2869444 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
2869381 GAGATAGACA
2869391 GATTTCGCCGGAGATGGGGACG
1 GATTTCGCCGGAGATGGGGACG
**
2869413 GATTTCATCGGAGATGGGGACG
1 GATTTCGCCGGAGATGGGGACG
*
2869435 GATGTCGCCG
1 GATTTCGCCG
2869445 TAGAGAGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.43, T:0.20
Consensus pattern (22 bp):
GATTTCGCCGGAGATGGGGACG
Found at i:2869650 original size:21 final size:21
Alignment explanation
Indices: 2869582--2869657 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
2869572 CGCTTTGAAA
* *
2869582 ATCGCATTGCGATTTTGTATT
1 ATCGCGTTGCGATTATGTATT
* *
2869603 ATCGCGTTGCGA-TA-GCCA-G
1 ATCGCGTTGCGATTATG-TATT
2869622 ATTCGCGTTGCGATTATGTATT
1 A-TCGCGTTGCGATTATGTATT
2869644 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
2869658 TACATATTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.05
20 13 0.30
21 27 0.61
22 2 0.05
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:2869689 original size:41 final size:41
Alignment explanation
Indices: 2869583--2869679 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
2869573 GCTTTGAAAA
*
2869583 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGCCAGAT
1 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGACAGAT
* * ** *
2869624 TCGCGTTGCGATTATGTATTATCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGACAGAT
2869665 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
2869680 CTAAAATCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGACAGAT
Found at i:2873828 original size:19 final size:19
Alignment explanation
Indices: 2873804--2873841 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2873794 AAAAACTTTG
2873804 TTGGAGCTTCCAAGTAAGA
1 TTGGAGCTTCCAAGTAAGA
2873823 TTGGAGCTTCCAAGTAAGA
1 TTGGAGCTTCCAAGTAAGA
2873842 ACCATAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
TTGGAGCTTCCAAGTAAGA
Found at i:2875980 original size:19 final size:18
Alignment explanation
Indices: 2875952--2876007 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 18
2875942 TAATTTTTAT
*
2875952 AATTATTTTTATTATTAG
1 AATTATTTTTATAATTAG
2875970 AATTCATTTTTATAATTAG
1 AATT-ATTTTTATAATTAG
*
2875989 AA-TA-TTATATAATTAG
1 AATTATTTTTATAATTAG
2876005 AAT
1 AAT
2876008 ATTAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 13 0.38
17 1 0.03
18 5 0.15
19 15 0.44
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
AATTATTTTTATAATTAG
Found at i:2875999 original size:16 final size:16
Alignment explanation
Indices: 2875980--2876016 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2875970 AATTCATTTT
2875980 TATAATTAGAATATTA
1 TATAATTAGAATATTA
2875996 TATAATTAGAATATTA
1 TATAATTAGAATATTA
2876012 -ATAAT
1 TATAAT
2876017 ATTTATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (16 bp):
TATAATTAGAATATTA
Found at i:2877070 original size:25 final size:25
Alignment explanation
Indices: 2877042--2877090 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2877032 AATAATCAAT
*
2877042 AAATTTATTACATTCGATTTAATTC
1 AAATTTATTACATTCGAATTAATTC
* *
2877067 AAATTTTTTTCATTCGAATTAATT
1 AAATTTATTACATTCGAATTAATT
2877091 TAAAAATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (25 bp):
AAATTTATTACATTCGAATTAATTC
Found at i:2879323 original size:23 final size:23
Alignment explanation
Indices: 2879276--2879323 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2879266 AATAACATAT
**
2879276 TAGATAACGCTTATATAATGTAA
1 TAGATAACGCTTATATAATAAAA
*
2879299 TAGATAGCGCTTATATAATAAAA
1 TAGATAACGCTTATATAATAAAA
2879322 TA
1 TA
2879324 TGTATTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (23 bp):
TAGATAACGCTTATATAATAAAA
Found at i:2879385 original size:87 final size:86
Alignment explanation
Indices: 2879235--2879401 Score: 262
Period size: 87 Copynumber: 1.9 Consensus size: 86
2879225 CGGTTATGTT
* *
2879235 ATATTATTTAATCGAAAATATTATCAAGTACAATAACATATTAGATAACGCTTATATAATGTAAT
1 ATATTATTTAACCGAAAATATTATCAAGTACAATAACATATTAGATAACACTTATATAATGTAAT
*
2879300 AGATAGCGCTTATATAATAAA
66 AGATAGCACTTATATAATAAA
* * *
2879321 ATATGTATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAA
1 ATAT-TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGATAACACTTATATAATGTAA
*
2879386 TAGGTAGCACTTATAT
65 TAGATAGCACTTATAT
2879402 TAACCTATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 4 0.05
87 69 0.95
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (86 bp):
ATATTATTTAACCGAAAATATTATCAAGTACAATAACATATTAGATAACACTTATATAATGTAAT
AGATAGCACTTATATAATAAA
Found at i:2883524 original size:180 final size:183
Alignment explanation
Indices: 2882917--2883619 Score: 1200
Period size: 180 Copynumber: 3.9 Consensus size: 183
2882907 GCGTTACTTA
2882917 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAGTA-GCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
*
2882981 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
65 GTATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
2883046 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCAT-CATTCTGGACAT
*
2883101 AAAGTAGTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACC--
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
2883164 --TATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTAT-GGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
*
2883226 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATC--CCTGGACAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCATTCTGGACAT
*
2883277 AAAGTAGCGACAC-ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCACAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
*
2883341 TATATCTATACCAGTTATATTAC-AAATTACCTATTACATTATAA-TATGGGTTCCGATG-TTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
* *
2883403 TCAATCGACACTTTTTGAAAAGGTATCGACATTTTTTTCATCATTCTAGACAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCATTCTGGACAT
*
2883456 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAATCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
*
2883521 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGAT-ATTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
2883585 TCAATCGACACTTTTT-AAAAGGGTATCGACACTTT
131 TCAATCGACACTTTTTGAAAA-GGTATCGACACTTT
2883620 ATGATGATAT
Statistics
Matches: 494, Mismatches: 12, Indels: 28
0.93 0.02 0.05
Matches are distributed among these distances:
175 48 0.10
176 20 0.04
177 48 0.10
178 32 0.06
179 96 0.19
180 117 0.24
181 25 0.05
182 46 0.09
183 1 0.00
184 61 0.12
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCATTCTGGACAT
Found at i:2883590 original size:359 final size:360
Alignment explanation
Indices: 2882917--2883619 Score: 1215
Period size: 359 Copynumber: 2.0 Consensus size: 360
2882907 GCGTTACTTA
*
2882917 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCACAAAACCGG
* *
2882982 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATCTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
* *
2883047 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACATAAAGTAGTGAC
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTAGACATAAAGTAGCGAC
*
2883112 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCTATCTATACCGGT
196 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACATATCTATACCGGT
*
2883177 TATATTACAAAATTACCTATTACATTATAATTATGGTTCCGATGTTTTTTCAATCGACACTTTTT
261 TATATTACAAAATTACCTATTACATTATAATTATGGTTCCGATGATTTTTCAATCGACACTTTTT
2883242 GAAAA-GGTATCGACACTTTTTTCATCCCTGGACAT
326 -AAAAGGGTATCGACACTTTTTTCATCCCTGGACAT
2883277 AAAGTA-GCGACAC-ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCACAAAACCG
1 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCACAAAACCG
2883340 GTATATCTATACCAGTTATATTAC-AAATTACCTATTACATTATAA-TATGGGTTCCGATG-TTT
65 GTATATCTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
*
2883402 TTCAATCGACACTTTTTGAAAAGGTATCGACATTTTTTTCAT-CATTCTAGACATAAAGTAGCGA
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTAGACATAAAGTAGCGA
2883466 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAATCGGTATATCTATA
195 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAA-C---ATATCTATA
2883531 CCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGAT-ATTTTTCAATCGACA
256 CCGGTTATATTACAAAATTACCTATTACATTATAATTAT-GGTTCCGATGATTTTTCAATCGACA
2883595 CTTTTTAAAAGGGTATCGACACTTT
320 CTTTTTAAAAGGGTATCGACACTTT
2883620 ATGATGATAT
Statistics
Matches: 328, Mismatches: 8, Indels: 15
0.93 0.02 0.04
Matches are distributed among these distances:
355 71 0.22
356 45 0.14
357 14 0.04
358 25 0.08
359 153 0.47
360 20 0.06
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (360 bp):
AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCACAAAACCGG
TATATCTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTAGACATAAAGTAGCGAC
ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACATATCTATACCGGT
TATATTACAAAATTACCTATTACATTATAATTATGGTTCCGATGATTTTTCAATCGACACTTTTT
AAAAGGGTATCGACACTTTTTTCATCCCTGGACAT
Found at i:2885030 original size:32 final size:29
Alignment explanation
Indices: 2884981--2885060 Score: 108
Period size: 32 Copynumber: 2.7 Consensus size: 29
2884971 CATCGACTTC
*
2884981 CTTCCT-CCTCATTTCTTCCATCTCTTCTT
1 CTTCCTCCCTCTTTTCTTCCATCTC-TCTT
2885010 CTTCTCCTCCCTCTTTTCTTCCATCTCTCTT
1 C-T-TCCTCCCTCTTTTCTTCCATCTCTCTT
2885041 CTTCCTCTCCTCTTTTCTTC
1 CTTCCTC-CCTCTTTTCTTC
2885061 TTCATATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
29 6 0.13
30 14 0.30
31 9 0.20
32 17 0.37
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.53
Consensus pattern (29 bp):
CTTCCTCCCTCTTTTCTTCCATCTCTCTT
Found at i:2885044 original size:34 final size:32
Alignment explanation
Indices: 2884977--2885052 Score: 102
Period size: 34 Copynumber: 2.4 Consensus size: 32
2884967 ATGACATCGA
2884977 CTTCCT-TCCT-CCTCATTTCTTCCATCTCTT
1 CTTCCTCTCCTCCCTCATTTCTTCCATCTCTT
* *
2885007 CTTCTTCTCCTCCCTCTTTTCTTCCATCTCTCTT
1 CTTCCTCTCCTCCCTCATTTCTTCCA--TCTCTT
2885041 CTTCCTCTCCTC
1 CTTCCTCTCCTC
2885053 TTTTCTTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 5 0.13
31 4 0.10
32 13 0.33
34 17 0.44
ACGTcount: A:0.04, C:0.46, G:0.00, T:0.50
Consensus pattern (32 bp):
CTTCCTCTCCTCCCTCATTTCTTCCATCTCTT
Done.