Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 68 of 126
Found at i:13932187 original size:13 final size:13
Alignment explanation
Indices: 13932169--13932193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13932159 TTGTTAAGAT
13932169 GAACTCTTTTACC
1 GAACTCTTTTACC
13932182 GAACTCTTTTAC
1 GAACTCTTTTAC
13932194 AAAGCTTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (13 bp):
GAACTCTTTTACC
Found at i:13935309 original size:21 final size:20
Alignment explanation
Indices: 13935268--13935315 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
13935258 AAGGAGGTAG
* *
13935268 ACTTTAATTTCCAATCATTA
1 ACTTTGATTTCCAACCATTA
*
13935288 ACTTTGATCTTCCAACCTTTA
1 ACTTTGAT-TTCCAACCATTA
*
13935309 AGTTTGA
1 ACTTTGA
13935316 GAATGAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (20 bp):
ACTTTGATTTCCAACCATTA
Found at i:13935475 original size:544 final size:542
Alignment explanation
Indices: 13934549--13935635 Score: 1370
Period size: 544 Copynumber: 2.0 Consensus size: 542
13934539 TAACTAAATG
*
13934549 AATAAAACAAGATCTAATAATCTTAATACAACTGATCATAGAGAATCATATACTATTATAAGAAA
1 AATAAAACAAGATCTAATAATCTTAATACAACTGATCATAGAGAATCATATACTATTACAAGAAA
* * * * *
13934614 TTTTTAGATTTTTCTCAAACTTTAACCCAAAAATTTCAATAATGAACAAATTTTTTTTTCAAATT
66 TTTCTAGATTTCTCTCAAACTTTAACCCAAAAATTTCAATAATGAACAAACTTCTTTGTCAAATT
* * * *
13934679 AAAAGAGGGTTTTTACTCATCTTTAAGAGTCTAATATGGAGGTAAACTTTAATTTTCAATCATCA
131 AAAAGAAGGTTTTTACTCACCTTTAAGAGTCTAATAAGGAGGTAAACTTTAATTTCCAATCATCA
** *
13934744 ACCTTGATCTTCCAACCGTTAAGTTCTGAGAAAGAATAAAAATCCTTATTAAGATAAAGACGTAT
196 ACCTTGATCTTCCAACCGTTAAGTTCTGAGAAAGAATAAAAATCCTTACCAAGAAAAAGACGTAT
* * * * *
13934809 TCTTGTTTTCATTTTTTTTTTCACAATAAGCAAATACTACTAGTTTTCCTTATCAAGTACCTCAA
261 TATTGTTTTCATTTTTTTTTTCACAATAAACAAATACTACTAATTTTCCTCATCAAATACCTCAA
* * *
13934874 CCTTCTTCTTTTTTGGCTAATTATTCTATTAAATAAACTAATGGGCTTTGGTAATACTCTAGCCC
326 CCTTCTTCTTTTTTGGCTAATTATTCCATTAAATAAACTAATAGGCTTTGATAATACTCTAGCCC
* *
13934939 AATTGTCATTTGAATTGGGATATTACATTCTCCTC-TCCATATAAAAAATTTTGC-CCTCAAAAC
391 AATTGTCATTTGAACTGGGATATTACATTCTCCTCAT-C--ATAAAAAATGTTGCACCTCAAAAC
* * * *
13935002 TTGAGTTACGTTCGTATTTTATT-TTTCTATTTTCCAAATTACTTCTCTTGTCGCATGATTGTTC
453 TTGAGTTACCTTCGTATCTTATTCTTTC-ATTTTCCAAATTACTTATCTTGTCGCATGATTATTC
* * *
13935066 TATTGAACTTTTACAAAATTAATCAT
517 CATTAAACCTTTACAAAATTAATCAT
* * * *
13935092 AATAAAATAAGATCTAATAATCTTAATACAACTGATCATGGAGAATCATGTA-TGGTTACAAG-A
1 AATAAAACAAGATCTAATAATCTTAATACAACTGATCATAGAGAATCATATACT-ATTACAAGAA
* * *
13935155 ATTTCTAGA-TTCTCTCATAAACTTTAACTCAAAAATTTCAATTATGAATAAGACTTCTTTGTCA
65 ATTTCTAGATTTCTCTC--AAACTTTAACCCAAAAATTTCAATAATGAACAA-ACTTCTTTGTCA
* * * * *
13935219 AATTAGAATAAGGTTTTTAGTCACCTTTAAGA-TATTAATAAGGAGGTAGACTTTAATTTCCAAT
127 AATTAAAAGAAGGTTTTTACTCACCTTTAAGAGT-CTAATAAGGAGGTAAACTTTAATTTCCAAT
* * * * *
13935283 CATTAACTTTGATCTTCCAACCTTTAAGTT-TGAGAATGAATAACAATCCTTACCAAGAAAAATA
191 CATCAACCTTGATCTTCCAACCGTTAAGTTCTGAGAAAGAATAAAAATCCTTACCAAG-AAAA-A
* * * * *
13935347 GGCAG-ACTTATTTTCTTTCTTTTTTTTTTTCACATTAAACAAATGCTACTAATTTTCCTCATCA
254 GAC-GTA-TTATTGT-TTTCATTTTTTTTTTCACAATAAACAAATACTACTAATTTTCCTCATCA
* *
13935411 AATTCCTCAACCTTCTTC-TTTTT-GCTAATTA-TCCATTAAATAAACTAATAGGTTTTGATAAT
316 AATACCTCAACCTTCTTCTTTTTTGGCTAATTATTCCATTAAATAAACTAATAGGCTTTGATAAT
* ** * *
13935473 ACTCTAGTCCAATTGTCATTTGGGCTGGGGTATTACATTCTCCTCATCATAGAAAATGTTGCATC
381 ACTCTAGCCCAATTGTCATTTGAACTGGGATATTACATTCTCCTCATCATAAAAAATGTTGCA-C
* * * * * *
13935538 CTCAAAACTTGATTTACCTTTGTATCTTATTCTTTCATTTTCTAGATTATTTATCTTGTCGTATG
445 CTCAAAACTTGAGTTACCTTCGTATCTTATTCTTTCATTTTCCAAATTACTTATCTTGTCGCATG
13935603 ATTATTCCATTAAACCTTTACAAAATTAATCAT
510 ATTATTCCATTAAACCTTTACAAAATTAATCAT
13935636 TCTATCTTAA
Statistics
Matches: 465, Mismatches: 65, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
541 6 0.01
542 22 0.05
543 109 0.23
544 241 0.52
545 17 0.04
546 11 0.02
547 59 0.13
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.40
Consensus pattern (542 bp):
AATAAAACAAGATCTAATAATCTTAATACAACTGATCATAGAGAATCATATACTATTACAAGAAA
TTTCTAGATTTCTCTCAAACTTTAACCCAAAAATTTCAATAATGAACAAACTTCTTTGTCAAATT
AAAAGAAGGTTTTTACTCACCTTTAAGAGTCTAATAAGGAGGTAAACTTTAATTTCCAATCATCA
ACCTTGATCTTCCAACCGTTAAGTTCTGAGAAAGAATAAAAATCCTTACCAAGAAAAAGACGTAT
TATTGTTTTCATTTTTTTTTTCACAATAAACAAATACTACTAATTTTCCTCATCAAATACCTCAA
CCTTCTTCTTTTTTGGCTAATTATTCCATTAAATAAACTAATAGGCTTTGATAATACTCTAGCCC
AATTGTCATTTGAACTGGGATATTACATTCTCCTCATCATAAAAAATGTTGCACCTCAAAACTTG
AGTTACCTTCGTATCTTATTCTTTCATTTTCCAAATTACTTATCTTGTCGCATGATTATTCCATT
AAACCTTTACAAAATTAATCAT
Found at i:13939969 original size:15 final size:14
Alignment explanation
Indices: 13939949--13939981 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
13939939 TTATTATTAT
13939949 TTTTTTTTCTTTTCC
1 TTTTTTTTCTTTT-C
13939964 TTTTTTTTCTTTTC
1 TTTTTTTTCTTTTC
13939978 TTTT
1 TTTT
13939982 GTATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:13939989 original size:20 final size:20
Alignment explanation
Indices: 13939943--13939981 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13939933 CATGTATTAT
13939943 TATTATTTTTTTTTCTTTTCC
1 TATT-TTTTTTTTTCTTTTCC
13939964 T-TTTTTTTCTTTTCTTTT
1 TATTTTTTT-TTTTCTTTT
13939982 GTATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 11 0.65
21 1 0.06
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
TATTTTTTTTTTTCTTTTCC
Found at i:13940129 original size:23 final size:20
Alignment explanation
Indices: 13940079--13940133 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 20
13940069 TATAGTTATA
13940079 TATTTATTATTATTATTATTTT
1 TATTT-TTATT-TTATTATTTT
13940101 TA-TTTTATTTTATTTATTGTT
1 TATTTTTATTTTA-TTATT-TT
13940122 GTATTTTTATTT
1 -TATTTTTATTT
13940134 ATCCTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.34
21 4 0.14
22 4 0.14
23 8 0.28
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (20 bp):
TATTTTTATTTTATTATTTT
Found at i:13940555 original size:31 final size:31
Alignment explanation
Indices: 13940520--13940586 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
13940510 AATTTCCAGA
* *
13940520 TTCCGACGAAAATTCCGG-CAAAGTTTGAATT
1 TTCCGACGAAAATTCCGGCCAAA-CTTGAAGT
* * *
13940551 TTCCGGCGACAGTTCCGGCCAAACTTGAAGT
1 TTCCGACGAAAATTCCGGCCAAACTTGAAGT
13940582 TTCCG
1 TTCCG
13940587 GCAACCAGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (31 bp):
TTCCGACGAAAATTCCGGCCAAACTTGAAGT
Found at i:13940678 original size:20 final size:20
Alignment explanation
Indices: 13940653--13940704 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
13940643 TCCGGCGAAC
13940653 TTCCGACGAAATTTTCCAGA
1 TTCCGACGAAATTTTCCAGA
13940673 TTCCGACGAGAA-TTTCCAGA
1 TTCCGACGA-AATTTTCCAGA
* *
13940693 ATCCGGCGAAAT
1 TTCCGACGAAAT
13940705 CCCACCGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
TTCCGACGAAATTTTCCAGA
Found at i:13941036 original size:1 final size:1
Alignment explanation
Indices: 13941030--13941073 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
13941020 CCGCTTCAGG
* * * *
13941030 TTTTTTTTTTTTTTTTTTTTTCTTTATTTCTTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13941074 ATTTATTAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:13941118 original size:10 final size:10
Alignment explanation
Indices: 13941103--13941140 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
13941093 TGTAATATTC
13941103 TTTTTATTTA
1 TTTTTATTTA
13941113 TTTTTATTTA
1 TTTTTATTTA
13941123 TTTTT-TATTA
1 TTTTTAT-TTA
13941133 -TTTTATTT
1 TTTTTATTT
13941141 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:13941124 original size:14 final size:15
Alignment explanation
Indices: 13941104--13941141 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
13941094 GTAATATTCT
13941104 TTTTATTTATTT-TTA
1 TTTTATTT-TTTATTA
13941119 -TTTATTTTTTATTA
1 TTTTATTTTTTATTA
13941133 TTTTATTTT
1 TTTTATTTT
13941142 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTATTA
Found at i:13941218 original size:60 final size:58
Alignment explanation
Indices: 13941158--13941341 Score: 237
Period size: 60 Copynumber: 3.1 Consensus size: 58
13941148 ATAAAAATAA
*
13941158 AAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT
1 AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAAT
* *
13941216 -AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAATTTC---AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
* * *
13941276 CGAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTACAAAAA
1 --AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CCTAGAAAAT
13941337 AAAAT
1 AAAAT
13941342 CATTCTTTCC
Statistics
Matches: 109, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
57 7 0.06
59 5 0.05
60 84 0.77
61 7 0.06
63 6 0.06
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (58 bp):
AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
Found at i:13941546 original size:160 final size:160
Alignment explanation
Indices: 13941371--13941826 Score: 796
Period size: 160 Copynumber: 2.9 Consensus size: 160
13941361 ATCTTAATTT
* * *
13941371 TGATTTTGTTTTTTTTTCTTTTAAATAATCCGACGATGGAGCCTCTGCAAGTGAAACAGTAGTTT
1 TGATTTTGATTTTTTTTCTTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
*
13941436 TTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
66 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
*
13941501 AGAATAATTTCCGATAATTAATTACTTGGC
131 AGAATAATTTCCGATAATTAATTAATTGGC
13941531 TGATTTTGATTTTTTTT-TCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTCT-TTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
13941595 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
65 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
13941660 GAGAATAATTTTCGATAATTAATTAATTGGT
130 GAGAATAATTTCCGATAATTAATTAATTGGC
*
13941691 TGATCTTGA---TTTTTC-TTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
1 TGATTTTGATTTTTTTTCTTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
13941752 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
66 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
13941817 AGAATAATTT
131 AGAATAATTT
13941827 TCACAACTAA
Statistics
Matches: 286, Mismatches: 8, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
156 121 0.42
157 5 0.02
159 1 0.00
160 159 0.56
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (160 bp):
TGATTTTGATTTTTTTTCTTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
AGAATAATTTCCGATAATTAATTAATTGGC
Found at i:13945098 original size:1 final size:1
Alignment explanation
Indices: 13945094--13945129 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
13945084 GTAATTTTTG
* *
13945094 AAAAAAAAAAAAAAAAAAAAAGAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13945130 CACCACAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:13945511 original size:14 final size:13
Alignment explanation
Indices: 13945494--13945537 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
13945484 ATGAAAAATG
13945494 AGAAGAAAAAAAGA
1 AGAAGAAAAAAA-A
13945508 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
*
13945521 AAAAGAAAAAAAA
1 AGAAGAAAAAAAA
13945534 AGAA
1 AGAA
13945538 ATGAGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:13945553 original size:30 final size:30
Alignment explanation
Indices: 13945484--13945556 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
13945474 TCAATAATAG
13945484 ATGAAAAATGAGAAGAAAAAAAGAAGAAGAAA
1 ATGAAAAA--AGAAGAAAAAAAGAAGAAGAAA
**
13945516 AAAAAAAAAGAA-AAAAAAAGAA-ATGAGAAA
1 ATGAAAAAAGAAGAAAAAAAGAAGA--AGAAA
13945546 ATGAAAAAAGA
1 ATGAAAAAAGA
13945557 GATTCAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 1 0.03
29 10 0.29
30 18 0.51
32 6 0.17
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (30 bp):
ATGAAAAAAGAAGAAAAAAAGAAGAAGAAA
Found at i:13946824 original size:42 final size:41
Alignment explanation
Indices: 13946740--13947178 Score: 636
Period size: 42 Copynumber: 10.6 Consensus size: 41
13946730 ATGATTGTCA
* *
13946740 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAG-TCGTGGTGCCTCTGTTGAG
13946780 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* * *
13946822 AGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAG
13946863 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* * *
13946905 AGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAG
*
13946946 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTGAG
13946988 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTGAG
13947030 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTATTTTT-CAAAGTCGTGGTGCCTCTGTTGAG
*
13947072 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAG
* * * *
13947113 AGGAGCAATTTACTTTCCAAAGTCCGT--TGCCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAGT-CGTGGTGCCTCTGTTGAG
*
13947153 AGGAGCAATTTA-CTTTCAAAAGTCGT
1 AGGAGCAATTTATTTTTC-AAAGTCGT
13947179 TGAGTCTCTG
Statistics
Matches: 371, Mismatches: 20, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
39 6 0.02
40 44 0.12
41 136 0.37
42 185 0.50
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAG
Found at i:13946873 original size:83 final size:83
Alignment explanation
Indices: 13946740--13947195 Score: 688
Period size: 83 Copynumber: 5.5 Consensus size: 83
13946730 ATGATTGTCA
*
13946740 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAG
1 AGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAG
13946803 TCGTGGTGCCTCTGTTGAG
65 TCGTGGTGCCTCTGTTGAG
*
13946822 AGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
13946887 CGTGGTGCCTCTGTTGAG
66 CGTGGTGCCTCTGTTGAG
*
13946905 AGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
*
13946970 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTGAG
* * * *
13946988 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAG
13947053 TCGTGGTGCCTCTGTTGAG
65 TCGTGGTGCCTCTGTTGAG
* * * *
13947072 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA-CTTTCCAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
* *
13947136 CCGT--TGCCTCTATTTAG
66 -CGTGGTGCCTCTGTTGAG
* * * *
13947153 AGGAGCAATTTACTTTCAAAAGTCGTTGAGTCTCTGTTTAGAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13947196 AAGCTTCGGC
Statistics
Matches: 352, Mismatches: 18, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
81 52 0.15
82 30 0.09
83 192 0.55
84 78 0.22
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (83 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
CGTGGTGCCTCTGTTGAG
Found at i:13946984 original size:125 final size:122
Alignment explanation
Indices: 13946740--13947178 Score: 648
Period size: 125 Copynumber: 3.5 Consensus size: 122
13946730 ATGATTGTCA
* *
13946740 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTC
*
13946805 GTGGTGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAG
65 GTGGTGCCTCTGTTGAGAGGAGCAATTTAATTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
13946863 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA-ATTTCCAAAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGT--TGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAG
* *
13946927 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
63 TCGTGGTGCCTCTGTTGAGAGGAGCAATTTA-ATTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
13946988 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGT--TGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAG
* *
13947053 TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
63 TCGTGGTGCCTCTGTTGAGAGGAGCAATTTAATTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
13947113 AGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTATTTAGAGGAGCAATTTA-CTTTCAAAAGTC
1 AGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTC
13947177 GT
65 GT
13947179 TGAGTCTCTG
Statistics
Matches: 293, Mismatches: 17, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
122 12 0.04
123 39 0.13
124 56 0.19
125 147 0.50
126 39 0.13
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.36
Consensus pattern (122 bp):
AGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCG
TGGTGCCTCTGTTGAGAGGAGCAATTTAATTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:13947226 original size:11 final size:11
Alignment explanation
Indices: 13947205--13947310 Score: 119
Period size: 11 Copynumber: 9.5 Consensus size: 11
13947195 GAAGCTTCGG
13947205 CAAAAAAAAAA
1 CAAAAAAAAAA
13947216 -AAAAAACAAAA
1 CAAAAAA-AAAA
13947227 -AAAAACAAAAA
1 CAAAAA-AAAAA
*
13947238 AAAAAAAAAAA
1 CAAAAAAAAAA
*
13947249 CAAAAACAAAA
1 CAAAAAAAAAA
13947260 CAAAAAAAACAA
1 CAAAAAAAA-AA
13947272 -AAACAAAAAAA
1 CAAA-AAAAAAA
*
13947283 CAACAAAAAAA
1 CAAAAAAAAAA
*
13947294 CAACAAAAAAA
1 CAAAAAAAAAA
13947305 CAAAAA
1 CAAAAA
13947311 TTTTATAAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
10 6 0.07
11 63 0.75
12 15 0.18
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:13947246 original size:28 final size:27
Alignment explanation
Indices: 13947205--13947310 Score: 153
Period size: 27 Copynumber: 3.9 Consensus size: 27
13947195 GAAGCTTCGG
13947205 CAAAAAAAAAAAAAAAACAAAAAAAAA
1 CAAAAAAAAAAAAAAAACAAAAAAAAA
13947232 CAAAAAAAAAAAAAAAACAAAAACAAAA
1 CAAAAAAAAAAAAAAAACAAAAA-AAAA
*
13947260 C--AAAAAAAACAAAAACAAAAAAACAA
1 CAAAAAAAAAAAAAAAACAAAAAAA-AA
13947286 CAAAAAAACAACAAAAAAACAAAAA
1 CAAAAAAA-AA-AAAAAAACAAAAA
13947311 TTTTATAAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
25 2 0.03
26 22 0.31
27 23 0.32
28 10 0.14
29 2 0.03
30 12 0.17
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (27 bp):
CAAAAAAAAAAAAAAAACAAAAAAAAA
Found at i:13947265 original size:37 final size:36
Alignment explanation
Indices: 13947206--13947310 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 36
13947196 AAGCTTCGGC
13947206 AAAAAAA-AAAAAAAAACAAAAAAAAACAAAAAAAAA
1 AAAAAAACAAAAAAAAAC-AAAAAAAACAAAAAAAAA
*
13947242 AAAAAAACAAAAACAAAACAAAAAAAACAAAAACAAA
1 AAAAAAACAAAAA-AAAACAAAAAAAACAAAAAAAAA
*
13947279 AAAACAACAAAAAAACAAC-AAAAAAACAAAAA
1 AAAAAAACAAAAAAA-AACAAAAAAAACAAAAA
13947311 TTTTATAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
36 22 0.34
37 37 0.58
38 5 0.08
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (36 bp):
AAAAAAACAAAAAAAAACAAAAAAAACAAAAAAAAA
Found at i:13947324 original size:1 final size:1
Alignment explanation
Indices: 13947206--13947310 Score: 102
Period size: 1 Copynumber: 105.0 Consensus size: 1
13947196 AAGCTTCGGC
* * * * * *
13947206 AAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAAAAAAAAAACAAAAACAAAACAAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
13947271 AAAACAAAAAAACAACAAAAAAACAACAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13947311 TTTTATAAAA
Statistics
Matches: 80, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13947668 original size:23 final size:20
Alignment explanation
Indices: 13947618--13947672 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 20
13947608 TATAGTTATA
13947618 TATTTATTATTATTATTATTTT
1 TATTT-TTATT-TTATTATTTT
13947640 TA-TTTTATTTTATTTATTGTT
1 TATTTTTATTTTA-TTATT-TT
13947661 GTATTTTTATTT
1 -TATTTTTATTT
13947673 ATCCTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.34
21 4 0.14
22 4 0.14
23 8 0.28
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (20 bp):
TATTTTTATTTTATTATTTT
Found at i:13948094 original size:31 final size:31
Alignment explanation
Indices: 13948059--13948125 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
13948049 AATTTCCAGA
* *
13948059 TTCCGGCGAAAATTCCGG-CAAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAAA-CTTGAAGT
* *
13948090 TTCCGGCGACAGTTCCGGCCAAACTTGAAGT
1 TTCCGGCGAAAATTCCGGCCAAACTTGAAGT
13948121 TTCCG
1 TTCCG
13948126 ACAACCAGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAAACTTGAAGT
Found at i:13948566 original size:1 final size:1
Alignment explanation
Indices: 13948560--13948603 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
13948550 CCGCTTCAGG
* * * *
13948560 TTTTTTTTTTTTTTTTTTTTTTTCTTTATTTCTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13948604 ATTTATTAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:13948648 original size:10 final size:10
Alignment explanation
Indices: 13948633--13948670 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
13948623 TGTAATATTC
13948633 TTTTTATTTA
1 TTTTTATTTA
13948643 TTTTTATTTA
1 TTTTTATTTA
13948653 TTTTT-TATTA
1 TTTTTAT-TTA
13948663 -TTTTATTT
1 TTTTTATTT
13948671 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:13948654 original size:14 final size:15
Alignment explanation
Indices: 13948634--13948671 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
13948624 GTAATATTCT
13948634 TTTTATTTATTT-TTA
1 TTTTATTT-TTTATTA
13948649 -TTTATTTTTTATTA
1 TTTTATTTTTTATTA
13948663 TTTTATTTT
1 TTTTATTTT
13948672 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTATTA
Found at i:13948748 original size:60 final size:58
Alignment explanation
Indices: 13948688--13948857 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 58
13948678 ATAAAAATAA
*
13948688 AAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT
1 AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAAT
* *
13948746 -AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAATTTC---AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
*
13948806 CGAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 --AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
13948858 CTACAAAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
57 7 0.07
59 1 0.01
60 86 0.86
63 6 0.06
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
Found at i:13949078 original size:160 final size:160
Alignment explanation
Indices: 13948902--13949357 Score: 769
Period size: 160 Copynumber: 2.9 Consensus size: 160
13948892 ATCTTAATTT
* * *
13948902 TGATTTTGTTTTTTTTTCTTTTAAATAATCCGACGATGGAGCCTCTGCAAGTGAAACAGTAGTTT
1 TGATTTTGATTTTTTTTCTTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
* *
13948967 TTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTTTGCTAAAAGTATTAGAGTCAATTG
66 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
*
13949032 AGAATAATTTCCGATAATTAATTACTTGGC
131 AGAATAATTTCCGATAATTAATTAATTGGC
* *
13949062 TGATTTTGATTTTTTTT-TCTTTAATTAATTCGACGACGGAGCATCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTCT-TTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
13949126 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
65 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
13949191 GAGAATAATTTTCGATAATTAATTAATTGGT
130 GAGAATAATTTCCGATAATTAATTAATTGGC
*
13949222 TGATCTTGA---TTTTTC-TTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
1 TGATTTTGATTTTTTTTCTTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
13949283 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
66 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
13949348 AGAATAATTT
131 AGAATAATTT
13949358 TCAACAACTA
Statistics
Matches: 281, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
156 119 0.42
157 5 0.02
159 1 0.00
160 156 0.56
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (160 bp):
TGATTTTGATTTTTTTTCTTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTT
TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
AGAATAATTTCCGATAATTAATTAATTGGC
Found at i:13949377 original size:156 final size:157
Alignment explanation
Indices: 13948913--13949377 Score: 761
Period size: 156 Copynumber: 2.9 Consensus size: 157
13948903 GATTTTGTTT
* *
13948913 TTTTTTCTTTTAAATAATCCGACGATGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTC-TTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
* * *
13948978 TCTTGAGGTGAGGGAATTTTCTCAATTTTTTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
13949043 CGATAATTAATTACTTGGCTGATTTTGA
130 CGATAATTAATTACTTGGTTGATCTTGA
* *
13949071 TTTTTTTTTCTTTAATTAATTCGACGACGGAGCATCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
1 ---TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
13949136 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
63 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
*
13949201 TTCGATAATTAATTAATTGGTTGATCTTGA
128 TTCGATAATTAATTACTTGGTTGATCTTGA
13949231 -TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
13949295 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
* * * *
13949360 AACAACTAACTACTTGGT
131 GATAATTAATTACTTGGT
13949378 AAAATTTTAA
Statistics
Matches: 287, Mismatches: 17, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
156 140 0.49
160 140 0.49
161 7 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (157 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
GATAATTAATTACTTGGTTGATCTTGA
Found at i:13951564 original size:8 final size:8
Alignment explanation
Indices: 13951551--13951579 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13951541 AATTCTTTTT
13951551 TTTTTCTC
1 TTTTTCTC
13951559 TTTTTCTC
1 TTTTTCTC
13951567 TTTTTCTC
1 TTTTTCTC
13951575 TTTTT
1 TTTTT
13951580 TTTACCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCTC
Found at i:13951588 original size:21 final size:21
Alignment explanation
Indices: 13951564--13951603 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13951554 TTCTCTTTTT
13951564 CTCTTTTTCTCTTTT-TTTTAC
1 CTCTTTTT-TCTTTTATTTTAC
13951585 CTCTTTTTTCTTTTATTTT
1 CTCTTTTTTCTTTTATTTT
13951604 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (21 bp):
CTCTTTTTTCTTTTATTTTAC
Found at i:13951588 original size:29 final size:28
Alignment explanation
Indices: 13951544--13951598 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
13951534 AAAGTAAAAT
**
13951544 TCTTTTTTTTTTCTCTTTTTCTCTTTTTC
1 TCTTTTTTTTACCTCTTTTT-TCTTTTTC
13951573 TCTTTTTTTTACCTCTTTTTTCTTTT
1 TCTTTTTTTTACCTCTTTTTTCTTTT
13951599 ATTTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (28 bp):
TCTTTTTTTTACCTCTTTTTTCTTTTTC
Found at i:13951964 original size:6 final size:6
Alignment explanation
Indices: 13951947--13951993 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
13951937 TATAATTATT
13951947 TATTTA -ATTTA TATTTA TATATATA TATTTA -ATTTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TAT-T-TA TATTTA TA-TTTA TATTTA TATT
13951994 AAAAATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
5 6 0.17
6 22 0.61
7 3 0.08
8 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:13951965 original size:25 final size:27
Alignment explanation
Indices: 13951932--13951991 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
13951922 ACCCAACCCA
* *
13951932 ATATATATAAT-TATTTATTTAA-TTT
1 ATATTTATAATATATATATTTAATTTT
13951957 ATATTTAT-ATATATATATTTAATTTT
1 ATATTTATAATATATATATTTAATTTT
13951983 ATATTTATA
1 ATATTTATA
13951992 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.07
25 17 0.57
26 11 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATATTTATAATATATATATTTAATTTT
Found at i:13954243 original size:9 final size:8
Alignment explanation
Indices: 13954220--13954340 Score: 57
Period size: 9 Copynumber: 14.1 Consensus size: 8
13954210 TATAGTATAT
*
13954220 TATTGTTA
1 TATTATTA
13954228 TATTATTA
1 TATTATTA
13954236 TCATTATTA
1 T-ATTATTA
13954245 TATTTATTA
1 TA-TTATTA
*
13954254 TTAATATAGTA
1 -T-AT-TATTA
*
13954265 TGTTATTA
1 TATTATTA
* *
13954273 CAATATGGTA
1 TATTAT--TA
*
13954283 TATTAGTA
1 TATTATTA
* *
13954291 TAGTA-CA
1 TATTATTA
*
13954298 TAATATT-
1 TATTATTA
13954305 TATTATTA
1 TATTATTA
13954313 TTATTATTA
1 -TATTATTA
13954322 TTATTATTA
1 -TATTATTA
13954331 TTATTATTA
1 -TATTATTA
13954340 T
1 T
13954341 CTTTCCTTCC
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
7 11 0.12
8 23 0.26
9 41 0.47
10 8 0.09
11 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (8 bp):
TATTATTA
Found at i:13954312 original size:3 final size:3
Alignment explanation
Indices: 13954304--13954340 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
13954294 TACATAATAT
13954304 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13954341 CTTTCCTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13955119 original size:6 final size:6
Alignment explanation
Indices: 13955103--13955192 Score: 71
Period size: 6 Copynumber: 14.7 Consensus size: 6
13955093 TAATCGTAGG
*
13955103 TTTTTC TTTTTGA -TTTTA TTTTTA TTTTT- TGATTTTA TTTTTA TTTTTA
1 TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA T--TTTTA TTTTTA TTTTTA
* *
13955152 --TTTA TTTATA TTTTTA TTTATTTA TATTTTA TATTTA TTTT
1 TTTTTA TTTTTA TTTTTA -TT-TTTA T-TTTTA TTTTTA TTTT
13955193 ACTGACTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
4 4 0.06
5 2 0.03
6 45 0.65
7 12 0.17
8 6 0.09
ACGTcount: A:0.19, C:0.01, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:13955138 original size:25 final size:25
Alignment explanation
Indices: 13955110--13955181 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
13955100 AGGTTTTTCT
13955110 TTTTGATTTTATTTTTATTTTTT-GA
1 TTTT-ATTTTATTTTTATTTTTTAGA
*
13955135 TTTTATTTTTATTTTTATTTATTTATA
1 TTTTA-TTTTATTTTTATTT-TTTAGA
*
13955162 TTTT-TATTTATTTATATTTT
1 TTTTAT-TTTATTTTTATTTT
13955182 ATATTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 1 0.02
25 20 0.49
26 15 0.37
27 5 0.12
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (25 bp):
TTTTATTTTATTTTTATTTTTTAGA
Found at i:13955157 original size:16 final size:16
Alignment explanation
Indices: 13955103--13955192 Score: 99
Period size: 16 Copynumber: 5.2 Consensus size: 16
13955093 TAATCGTAGG
*
13955103 TTTTTCTTTTTGATTTTA
1 TTTTTATTTTT-A-TTTA
13955121 TTTTTATTTTTTGATTTTA
1 TTTTTA-TTTTT-A-TTTA
13955140 TTTTTATTTTTATTTA
1 TTTTTATTTTTATTTA
*
13955156 TTTATATTTTTATTTA
1 TTTTTATTTTTATTTA
*
13955172 TTTATATTTTATATTTA
1 TTTTTATTTT-TATTTA
13955189 TTTT
1 TTTT
13955193 ACTGACTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
16 29 0.43
17 10 0.15
18 10 0.15
19 18 0.27
ACGTcount: A:0.19, C:0.01, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTTATTTA
Found at i:13957896 original size:11 final size:11
Alignment explanation
Indices: 13957871--13957993 Score: 53
Period size: 10 Copynumber: 11.2 Consensus size: 11
13957861 GATTGCAGGT
*
13957871 TTTTCTTTTTGA
1 TTTTATTTTT-A
13957883 TTTTATTTTTA
1 TTTTATTTTTA
*
13957894 --TT-TTTTGA
1 TTTTATTTTTA
*
13957902 TTTTATTTTGA
1 TTTTATTTTTA
13957913 -TTTATTTTATA
1 TTTTATTTT-TA
**
13957924 TTTTAAATTTA
1 TTTTATTTTTA
*
13957935 -TTTATTTTAA
1 TTTTATTTTTA
* *
13957945 ATTT-TTTTAA
1 TTTTATTTTTA
*
13957955 ATTTATTTTACTAA
1 TTTTATTTT--T-A
13957969 CTTTTATTATTTA
1 -TTTTATT-TTTA
13957982 -TTTATTTTTA
1 TTTTATTTTTA
13957992 TT
1 TT
13957994 GAGCAATTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
8 5 0.06
9 2 0.02
10 31 0.35
11 24 0.27
12 15 0.17
13 1 0.01
14 2 0.02
15 6 0.07
16 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13957898 original size:19 final size:19
Alignment explanation
Indices: 13957876--13957915 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13957866 CAGGTTTTTC
*
13957876 TTTTTGATTTTATTTTTAT
1 TTTTTGATTTTATTTTGAT
13957895 TTTTTGATTTTATTTTGAT
1 TTTTTGATTTTATTTTGAT
13957914 TT
1 TT
13957916 ATTTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTTTGATTTTATTTTGAT
Found at i:13957926 original size:22 final size:21
Alignment explanation
Indices: 13957890--13957993 Score: 77
Period size: 22 Copynumber: 4.6 Consensus size: 21
13957880 TGATTTTATT
*
13957890 TTTATTTTTTGATTTTATTTTGA
1 TTTATTTTAT-ATTTTATTTT-A
*
13957913 TTTATTTTATATTTTAAATTTA
1 TTTATTTTATATTTT-ATTTTA
* *
13957935 TTTATTTTAAATTTT-TTTAAA
1 TTTATTTTATATTTTATTT-TA
13957956 TTTATTTTACTAACTTTTATTATTTA
1 TTTATTTTA-T-A-TTTTA-T-TTTA
13957982 TTTATTTT-TATT
1 TTTATTTTATATT
13957994 GAGCAATTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.03
21 10 0.15
22 22 0.33
23 15 0.23
24 5 0.08
26 10 0.15
27 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTATTTTATATTTTATTTTA
Found at i:13957940 original size:15 final size:15
Alignment explanation
Indices: 13957922--13957953 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13957912 ATTTATTTTA
13957922 TATTTTAAATTTATT
1 TATTTTAAATTTATT
*
13957937 TATTTTAAATTTTTT
1 TATTTTAAATTTATT
13957952 TA
1 TA
13957954 AATTTATTTT
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:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTAAATTTATT
Found at i:13962423 original size:11 final size:10
Alignment explanation
Indices: 13962407--13962441 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
13962397 GTCTTTCTTG
13962407 AAAAATGAAGA
1 AAAAATGAA-A
13962418 AAAAATG-AA
1 AAAAATGAAA
13962427 AAAAATGAAA
1 AAAAATGAAA
13962437 AAAAA
1 AAAAA
13962442 ATTGATGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 8 0.35
11 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:13962442 original size:11 final size:11
Alignment explanation
Indices: 13962407--13962443 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13962397 GTCTTTCTTG
*
13962407 AAAAATGAAGA
1 AAAAATGAAAA
13962418 AAAAATG--AA
1 AAAAATGAAAA
13962427 AAAAATGAAAA
1 AAAAATGAAAA
13962438 AAAAAT
1 AAAAAT
13962444 TGATGGGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (11 bp):
AAAAATGAAAA
Found at i:13962751 original size:17 final size:16
Alignment explanation
Indices: 13962731--13962771 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13962721 AGAGGTGTGT
13962731 AAAAAAAATAAAAAAAC
1 AAAAAAAAT-AAAAAAC
* *
13962748 AAAAAAAGTGAAAAAC
1 AAAAAAAATAAAAAAC
13962764 AAAAAAAA
1 AAAAAAAA
13962772 AAGAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.85, C:0.05, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAAATAAAAAAC
Found at i:13963645 original size:55 final size:55
Alignment explanation
Indices: 13963586--13963740 Score: 159
Period size: 56 Copynumber: 2.8 Consensus size: 55
13963576 CGGTCACCAA
* *
13963586 ATCTTGACTCAGTCTAGATTATTTTTTTGACTTATGGTTCCATCCCAATCAT-TCG
1 ATCTTGACTTAGTCTAGATCATTTTTTTGACTTATGGTTCCATCCCAATCATCT-G
* * * * ** * *
13963641 ATCTTGGCTTAGTCCAGATCATTTTTCTTGACTTGTGATTCTGTCTCGATCATCTG
1 ATCTTGACTTAGTCTAGATCATTTTT-TTGACTTATGGTTCCATCCCAATCATCTG
** * *
13963697 ATCTTGACTTAGTCTAGATCCCTTTTCTAACTTATGGTTCCATC
1 ATCTTGACTTAGTCTAGATCATTTTTTTGACTTATGGTTCCATC
13963741 GTGATCATTA
Statistics
Matches: 78, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
55 34 0.44
56 43 0.55
57 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (55 bp):
ATCTTGACTTAGTCTAGATCATTTTTTTGACTTATGGTTCCATCCCAATCATCTG
Found at i:13963693 original size:56 final size:55
Alignment explanation
Indices: 13963529--13963842 Score: 172
Period size: 55 Copynumber: 5.7 Consensus size: 55
13963519 TCACTCATTT
* * * * * *
13963529 TCGATCTTGGCTTAATTCATATCA-TTTTC-TGACTTATGATTCCATCTCGGTCA
1 TCGATCTTGACTTAGTCCAGATCATTTTTCTTGACTTATGGTTCCATCTCGATCA
* * * * * * *
13963582 CCAAATCTTGACTCAGTCTAGATTATTTTT-TTGACTTATGGTTCCATCCCAATCA
1 TC-GATCTTGACTTAGTCCAGATCATTTTTCTTGACTTATGGTTCCATCTCGATCA
* * * **
13963637 TTCGATCTTGGCTTAGTCCAGATCATTTTTCTTGACTTGTGATTCTGTCTCGATCA
1 -TCGATCTTGACTTAGTCCAGATCATTTTTCTTGACTTATGGTTCCATCTCGATCA
* ** *
13963693 TCTGATCTTGACTTAGTCTAGATCCCTTTTC-TAACTTATGGTTCCATCGT-GATCA
1 TC-GATCTTGACTTAGTCCAGATCATTTTTCTTGACTTATGGTTCCATC-TCGATCA
** * * * * * * *** * *
13963748 TTAAATTTTG-GTTCAATCCAGATCATTTTTCTTAACATGTGGTTTTGTCCCAATCA
1 -TCGATCTTGACTT-AGTCCAGATCATTTTTCTTGACTTATGGTTCCATCTCGATCA
* * *
13963804 TCGAATCTTAACTCAGTCTAGATCATTATTTCTTGACTT
1 TCG-ATCTTGACTTAGTCCAGATCATT-TTTCTTGACTT
13963843 GTGTCTTAGT
Statistics
Matches: 188, Mismatches: 59, Indels: 24
0.69 0.22 0.09
Matches are distributed among these distances:
53 1 0.01
54 16 0.09
55 84 0.45
56 77 0.41
57 10 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (55 bp):
TCGATCTTGACTTAGTCCAGATCATTTTTCTTGACTTATGGTTCCATCTCGATCA
Found at i:13963730 original size:111 final size:110
Alignment explanation
Indices: 13963528--13963897 Score: 293
Period size: 111 Copynumber: 3.3 Consensus size: 110
13963518 ATCACTCATT
* * * ** * * *
13963528 TTCGATCTTGGCTTAATTCATATCA-TTTTC-TGACTTATGATTCCATCTCGGTCACCAAATCTT
1 TTCGATCTTGGCTTAATCCAGATCATTTTTCTTGACTTGTGATTCTGTCTCGATCATC-GATCTT
* * * *
13963591 GACTCAGTCTAGATTATTTTTTTGACTTATGGTTCCATCCCAATCA
65 GACTCAGTCTAGATCACTTTTCTAACTTATGGTTCCATCCCAATCA
*
13963637 TTCGATCTTGGCTTAGTCCAGATCATTTTTCTTGACTTGTGATTCTGTCTCGATCATCTGATCTT
1 TTCGATCTTGGCTTAATCCAGATCATTTTTCTTGACTTGTGATTCTGTCTCGATCATC-GATCTT
* * ***
13963702 GACTTAGTCTAGATCCCTTTTCTAACTTATGGTTCCATCGTGATCA
65 GACTCAGTCTAGATCACTTTTCTAACTTATGGTTCCATCCCAATCA
** * * * * * * *
13963748 TTAAATTTTGG-TTCAATCCAGATCATTTTTCTTAACATGTGGTTTTGTCCCAATCATCGAATCT
1 TTCGATCTTGGCTT-AATCCAGATCATTTTTCTTGACTTGTGATTCTGTCTCGATCATCG-ATCT
* * * * *
13963812 TAACTCAGTCTAGATCATTATTTCTTGACTTGT-G-TCTTAGTCCCAATCA
64 TGACTCAGTCTAGATCACT-TTTC-TAACTTATGGTTC-CA-TCCCAATCA
* * * * *
13963861 TCCGATCTTGTCTCAATCCAGATTA-TTTTCCTGACTT
1 TTCGATCTTGGCTTAATCCAGATCATTTTTCTTGACTT
13963898 TGGCTCAATC
Statistics
Matches: 203, Mismatches: 49, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
109 22 0.11
110 8 0.04
111 129 0.64
112 15 0.07
113 28 0.14
114 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (110 bp):
TTCGATCTTGGCTTAATCCAGATCATTTTTCTTGACTTGTGATTCTGTCTCGATCATCGATCTTG
ACTCAGTCTAGATCACTTTTCTAACTTATGGTTCCATCCCAATCA
Found at i:13964284 original size:9 final size:8
Alignment explanation
Indices: 13964263--13964405 Score: 65
Period size: 9 Copynumber: 16.2 Consensus size: 8
13964253 TAATATATTG
13964263 TTATTATA
1 TTATTATA
13964271 TTATTATCA
1 TTATTAT-A
13964280 TTATTATA
1 TTATTATA
13964288 TTTATTATTA
1 -TTATTA-TA
* *
13964298 GTA-TAGTG
1 TTATTA-TA
*
13964306 TGTATTACA
1 T-TATTATA
*
13964315 ATATGCTATA
1 TTAT--TATA
*
13964325 TTAGTATA
1 TTATTATA
**
13964333 TTACAAAATA
1 TT--ATTATA
13964343 TTTATTATA
1 -TTATTATA
*
13964352 TTATCACTA
1 TTATTA-TA
13964361 TTATTATTA
1 TTATTA-TA
13964370 TTATTATTA
1 TTATTA-TA
13964379 TTATTATTA
1 TTATTA-TA
13964388 TTATTATTA
1 TTATTA-TA
13964397 TTATT-TA
1 TTATTATA
13964404 TT
1 TT
13964406 TTCTTTCCTT
Statistics
Matches: 107, Mismatches: 17, Indels: 23
0.73 0.12 0.16
Matches are distributed among these distances:
7 4 0.04
8 25 0.23
9 63 0.59
10 13 0.12
11 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (8 bp):
TTATTATA
Found at i:13964365 original size:3 final size:3
Alignment explanation
Indices: 13964344--13964401 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
13964334 TACAAAATAT
* *
13964344 TTA TTA -TA TTA TCA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13964391 TTA TTA TTA TT
1 TTA TTA TTA TT
13964402 TATTTTCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:13964789 original size:21 final size:22
Alignment explanation
Indices: 13964752--13964799 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
13964742 TAGGGATTCT
*
13964752 GGGTTTAGATTTGGGTTCCT-A
1 GGGTTAAGATTTGGGTTCCTGA
*
13964773 GGGTTAAGA-TTGAGGTTCTTGA
1 GGGTTAAGATTTG-GGTTCCTGA
13964795 GGGTT
1 GGGTT
13964800 TTTGAAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 14 0.61
22 6 0.26
ACGTcount: A:0.17, C:0.06, G:0.38, T:0.40
Consensus pattern (22 bp):
GGGTTAAGATTTGGGTTCCTGA
Found at i:13965188 original size:17 final size:17
Alignment explanation
Indices: 13965168--13965205 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13965158 AAGTTTTTCT
13965168 TTTTCATTTTATTTT-TA
1 TTTTCA-TTTATTTTATA
*
13965185 TTTTTATTTATTTTATA
1 TTTTCATTTATTTTATA
13965202 TTTT
1 TTTT
13965206 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCATTTATTTTATA
Found at i:13965216 original size:22 final size:20
Alignment explanation
Indices: 13965167--13965221 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
13965157 AAAGTTTTTC
* *
13965167 TTTTTCATTTTATTTTTATT
1 TTTTTTATTTTATTTTTAAT
13965187 TTTATTTATTTTATATTTTGAAT
1 TTT-TTTATTTTAT-TTTT-AAT
13965210 TTTTTTATTTTA
1 TTTTTTATTTTA
13965222 CTGATTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 9 0.30
22 13 0.43
23 5 0.17
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTTATTTTTAAT
Found at i:13965245 original size:17 final size:16
Alignment explanation
Indices: 13965175--13965246 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 16
13965165 TCTTTTTCAT
13965175 TTTATTTTTATT-TTTA
1 TTTA-TTTTATTATTTA
13965191 TTTATTTTA-TATTT-
1 TTTATTTTATTATTTA
** *
13965205 TGAATTTTTTTATTTTA
1 TTTATTTTATTA-TTTA
* *
13965222 CTGATTTGTATTATTTA
1 TTTATTT-TATTATTTA
13965239 TTTATTTT
1 TTTATTTT
13965247 TACTAAGCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
14 7 0.17
15 10 0.24
16 8 0.19
17 13 0.31
18 4 0.10
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTATTTTATTATTTA
Found at i:13967365 original size:3 final size:3
Alignment explanation
Indices: 13967357--13967388 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13967347 AATTAAAAAT
13967357 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
13967389 AAGGATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13971270 original size:37 final size:37
Alignment explanation
Indices: 13971224--13971296 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
13971214 TTCTTAATTT
* *
13971224 ATACTTATCTTGTGCGATTAGTAAACATAAAGTAAAA
1 ATACCTATCTTGTGCGATCAGTAAACATAAAGTAAAA
*
13971261 ATACCTATCTTGTGCGATCATTAAACATAAAGTAAA
1 ATACCTATCTTGTGCGATCAGTAAACATAAAGTAAA
13971297 TGTAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (37 bp):
ATACCTATCTTGTGCGATCAGTAAACATAAAGTAAAA
Found at i:13974120 original size:35 final size:34
Alignment explanation
Indices: 13974062--13974127 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
13974052 ATTCTCAATC
* *
13974062 CAAACAAACACATCCCATGTGTACCCTTTCAACA
1 CAAACAAACACATCCCATATGTACCCATTCAACA
*
13974096 CAAACAAATACATACCCATATGTACCCATTCA
1 CAAACAAACACAT-CCCATATGTACCCATTCA
13974128 TCATATCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.41, C:0.33, G:0.05, T:0.21
Consensus pattern (34 bp):
CAAACAAACACATCCCATATGTACCCATTCAACA
Found at i:13974398 original size:52 final size:52
Alignment explanation
Indices: 13974317--13974421 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
13974307 TATAACCATA
13974317 CAAACTTGCCTATTAAAAATCCCTCTCTTTTTAGAATTCTTCTTCTGCAAGT
1 CAAACTTGCCTATTAAAAATCCCTCTCTTTTTAGAATTCTTCTTCTGCAAGT
* * * *
13974369 CAAACTTGCCTATTAAGAATCCCTTTCTTTTTAGAATTCTTTTTCTGTAAGT
1 CAAACTTGCCTATTAAAAATCCCTCTCTTTTTAGAATTCTTCTTCTGCAAGT
13974421 C
1 C
13974422 TTTTTGTCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.43
Consensus pattern (52 bp):
CAAACTTGCCTATTAAAAATCCCTCTCTTTTTAGAATTCTTCTTCTGCAAGT
Found at i:13980650 original size:52 final size:52
Alignment explanation
Indices: 13980568--13980670 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
13980558 TAACTATACG
*
13980568 AACTTGCCTATTAAGAATCACTCTCCTTTTAGAATTCTTCTTCTGTAAGTCA
1 AACTTGCCTATTAAGAATCACTCTCCTTTTAGAATTCTTCTTCTGCAAGTCA
* * ** *
13980620 AACTTGCCTATTAAGAATCTCTTTTTTTTTAGAATTCTTTTTCTGCAAGTC
1 AACTTGCCTATTAAGAATCACTCTCCTTTTAGAATTCTTCTTCTGCAAGTC
13980671 CTCTTATCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (52 bp):
AACTTGCCTATTAAGAATCACTCTCCTTTTAGAATTCTTCTTCTGCAAGTCA
Found at i:13996436 original size:18 final size:18
Alignment explanation
Indices: 13996397--13996437 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13996387 GCCGGAGGAG
* * *
13996397 CCTCAATCTCTTCCGCCT
1 CCTCCATCTCTTCCCCCA
13996415 CCTCCATCTCTTCCCCCA
1 CCTCCATCTCTTCCCCCA
13996433 CCTCC
1 CCTCC
13996438 GCCGGCGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.59, G:0.02, T:0.29
Consensus pattern (18 bp):
CCTCCATCTCTTCCCCCA
Found at i:13998663 original size:2 final size:2
Alignment explanation
Indices: 13998656--13998685 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13998646 AAACTCTTAC
13998656 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
13998686 TTCCTTTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14002067 original size:27 final size:29
Alignment explanation
Indices: 14002037--14002095 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
14002027 TTTCATTTTT
*
14002037 AAAAAAATT-TTCTCCTTTTT-TTT-AATA
1 AAAAAAATTATT-TCATTTTTATTTGAATA
*
14002064 AAAATAATTATTTCATTTTTATTTGAATA
1 AAAAAAATTATTTCATTTTTATTTGAATA
14002093 AAA
1 AAA
14002096 CATTGGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 15 0.56
28 5 0.19
29 7 0.26
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (29 bp):
AAAAAAATTATTTCATTTTTATTTGAATA
Found at i:14002335 original size:25 final size:25
Alignment explanation
Indices: 14002287--14002345 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
14002277 TAATTTAATT
*
14002287 TAAACAATTCTTTTTTTATCTTTTA
1 TAAACAATTCTTTTTTAATCTTTTA
*
14002312 TAAA-AATTCTTCTTTTAATTTTTTTAA
1 TAAACAATTCTT-TTTTAA-TCTTTT-A
14002339 TAAACAA
1 TAAACAA
14002346 AAAATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 7 0.25
25 9 0.32
26 5 0.18
27 5 0.18
28 2 0.07
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (25 bp):
TAAACAATTCTTTTTTAATCTTTTA
Found at i:14004399 original size:37 final size:37
Alignment explanation
Indices: 14004349--14004419 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
14004339 ATAATTAGTA
*
14004349 AAATCTTTCAATAGTTTGGTAAGATTTTCTTTTATGC
1 AAATCTCTCAATAGTTTGGTAAGATTTTCTTTTATGC
* * *
14004386 AAATCTCTCAATAGTTTGGTGATATTTTTTTTTA
1 AAATCTCTCAATAGTTTGGTAAGATTTTCTTTTA
14004420 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.51
Consensus pattern (37 bp):
AAATCTCTCAATAGTTTGGTAAGATTTTCTTTTATGC
Found at i:14004803 original size:12 final size:11
Alignment explanation
Indices: 14004776--14004817 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
14004766 TAAAACAAGT
14004776 AAAATGAAATAA
1 AAAAT-AAATAA
14004788 AAAATAAATAA
1 AAAATAAATAA
*
14004799 GAAAATATAT-A
1 -AAAATAAATAA
14004810 AAAATAAA
1 AAAATAAA
14004818 ATACATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.26
11 7 0.26
12 13 0.48
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:14004820 original size:15 final size:14
Alignment explanation
Indices: 14004782--14004829 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
14004772 AAGTAAAATG
14004782 AAATAAAA-AATAA
1 AAATAAAATAATAA
*
14004795 ATAAGAAAATATATAA
1 A-AATAAAATA-ATAA
14004811 AAATAAAATACATAA
1 AAATAAAATA-ATAA
14004826 AAAT
1 AAAT
14004830 GTAATTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 6 0.21
15 17 0.59
16 5 0.17
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:14005232 original size:21 final size:22
Alignment explanation
Indices: 14005206--14005249 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
14005196 TCGAGAATTT
14005206 CCAAATTTTCCT-AAAAATTCC
1 CCAAATTTTCCTAAAAAATTCC
*
14005227 CCAAATTTTTCTAAAAAATTCC
1 CCAAATTTTCCTAAAAAATTCC
14005249 C
1 C
14005250 TTTTTTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (22 bp):
CCAAATTTTCCTAAAAAATTCC
Found at i:14006165 original size:65 final size:65
Alignment explanation
Indices: 14006048--14006262 Score: 216
Period size: 65 Copynumber: 3.3 Consensus size: 65
14006038 CTACGATTTA
* * * * * **
14006048 AAAAAAATAAAATGATCTAGACTAAGCCGAGATCAAAA-CGAGTAACTAGGATCAAACTGTAAAT
1 AAAAAAATAAAATGATCTAGACTGAGTCGAGATCAAAATAG-GTGATTAGGATCAAACTACAAAT
14006112 C
65 C
* * *
14006113 AAAAAAATAAAATGATCTAGACTGAGTCGAGATCAAAATAGGTGATTGGGATCAAACTACGAGTC
1 AAAAAAATAAAATGATCTAGACTGAGTCGAGATCAAAATAGGTGATTAGGATCAAACTACAAATC
* * * * * * * * * *
14006178 CAAAAAATATAATGATCTAGACTGAGTCAAGATTAAAATAGGTGATAAGGTTCAAACCATAAGTT
1 AAAAAAATAAAATGATCTAGACTGAGTCGAGATCAAAATAGGTGATTAGGATCAAACTACAAATC
* *
14006243 AGAAAAATAAAATGACCTAG
1 AAAAAAATAAAATGATCTAG
14006263 GATGAGCCAA
Statistics
Matches: 124, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
65 123 0.99
66 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (65 bp):
AAAAAAATAAAATGATCTAGACTGAGTCGAGATCAAAATAGGTGATTAGGATCAAACTACAAATC
Found at i:14017853 original size:15 final size:15
Alignment explanation
Indices: 14017833--14017863 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14017823 AATAACTAAG
*
14017833 AAAATATATAAAAAT
1 AAAATAAATAAAAAT
14017848 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
14017863 A
1 A
14017864 TAATTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:14018227 original size:10 final size:10
Alignment explanation
Indices: 14018212--14018247 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
14018202 CCAAAACCCA
14018212 AAATTTTCAG
1 AAATTTTCAG
14018222 AAATTTTCA-
1 AAATTTTCAG
14018231 AAATTTTCTAG
1 AAATTTTC-AG
14018242 AAATTT
1 AAATTT
14018248 CCCAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 8 0.33
10 10 0.42
11 6 0.25
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (10 bp):
AAATTTTCAG
Found at i:14018234 original size:19 final size:20
Alignment explanation
Indices: 14018209--14018257 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
14018199 AAGCCAAAAC
14018209 CCAAAATTTTC-AGAAATTT
1 CCAAAATTTTCTAGAAATTT
*
14018228 TCAAAATTTTCTAGAAATTT
1 CCAAAATTTTCTAGAAATTT
*
14018248 CCCAAATTTT
1 CCAAAATTTT
14018258 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (20 bp):
CCAAAATTTTCTAGAAATTT
Found at i:14018704 original size:30 final size:30
Alignment explanation
Indices: 14018664--14018750 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
14018654 AAAGAAATGA
14018664 AATAATAATAATGATGATGATGATGATAAG
1 AATAATAATAATGATGATGATGATGATAAG
* *
14018694 AATAACAATAATAATGATGATGATGATAAG
1 AATAATAATAATGATGATGATGATGATAAG
*
14018724 AATAATAATGATGATGATGATGATGAT
1 AATAATAATAATGATGATGATGATGAT
14018751 GATGATAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.49, C:0.01, G:0.20, T:0.30
Consensus pattern (30 bp):
AATAATAATAATGATGATGATGATGATAAG
Found at i:14018737 original size:3 final size:3
Alignment explanation
Indices: 14018707--14018756 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
14018697 AACAATAATA
* * *
14018707 ATG ATG ATG ATG AT- AAG AATA ATA ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG -ATG ATG ATG ATG ATG ATG ATG ATG ATG
14018752 ATG AT
1 ATG AT
14018757 AAGATGATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 39 0.95
4 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:14025574 original size:24 final size:24
Alignment explanation
Indices: 14025529--14025576 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14025519 TATTGAAAAA
* *
14025529 AAAAAAAACTTCATGAATTTATCT
1 AAAAAAAACTTCATCAAGTTATCT
* *
14025553 AAAAAAAATTTCATCTAGTTATCT
1 AAAAAAAACTTCATCAAGTTATCT
14025577 TTATTTTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAAAAAACTTCATCAAGTTATCT
Found at i:14028866 original size:2 final size:2
Alignment explanation
Indices: 14028855--14028898 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
14028845 AAGGTAGGCT
14028855 TA TA -A 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 TA TA TA
14028895 TA TA
1 TA TA
14028899 AGCCTACCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14029048 original size:143 final size:143
Alignment explanation
Indices: 14028872--14029158 Score: 547
Period size: 143 Copynumber: 2.0 Consensus size: 143
14028862 TATATATATA
* *
14028872 TATATATATATATATATATATATTATAAGCCTACCTTGAGCTTTACTCTCTCATGAATAAGGGTA
1 TATATATATATATATATATATATTATAAACCTACCTTGAGCTTTACTCTCTCACGAATAAGGGTA
14028937 AGAGAAGCATCTACTTTAATTGCTTATTTGATTCCTTTTAGCATCACAGCTCAGGCTGACAGGCA
66 AGAGAAGCATCTACTTTAATTGCTTATTTGATTCCTTTTAGCATCACAGCTCAGGCTGACAGGCA
14029002 ATGCATATGAAAT
131 ATGCATATGAAAT
14029015 TATATATATATATATATATATATTATAAACCTACCTTGAGCTTTACTCTCTCACGAATAAGGGTA
1 TATATATATATATATATATATATTATAAACCTACCTTGAGCTTTACTCTCTCACGAATAAGGGTA
14029080 AGAGAAGCATCTACTTTAATTGCTTATTTGATTCCTTTTAGCATCACAGCTCAGGCTGACAGGCA
66 AGAGAAGCATCTACTTTAATTGCTTATTTGATTCCTTTTAGCATCACAGCTCAGGCTGACAGGCA
*
14029145 ATGCATATGCAAT
131 ATGCATATGAAAT
14029158 T
1 T
14029159 TATGATTACT
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 141 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (143 bp):
TATATATATATATATATATATATTATAAACCTACCTTGAGCTTTACTCTCTCACGAATAAGGGTA
AGAGAAGCATCTACTTTAATTGCTTATTTGATTCCTTTTAGCATCACAGCTCAGGCTGACAGGCA
ATGCATATGAAAT
Found at i:14031831 original size:16 final size:18
Alignment explanation
Indices: 14031807--14031855 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 18
14031797 TCTTATATTA
14031807 ATATATTAAATAATAAAT
1 ATATATTAAATAATAAAT
14031825 -T-TATTAATATAATAAAT
1 ATATATTAA-ATAATAAAT
14031842 ATATAATTAAATAA
1 ATAT-ATTAAATAA
14031856 ATAATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.22
17 10 0.37
18 1 0.04
19 5 0.19
20 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATATTAAATAATAAAT
Found at i:14031849 original size:24 final size:24
Alignment explanation
Indices: 14031802--14031863 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
14031792 TAATCTCTTA
*
14031802 TATTAATATATTAAATAATAAATT
1 TATTAATATAATAAATAATAAATT
14031826 TATTAATATAATAAAT-ATATAATT
1 TATTAATATAATAAATAATA-AATT
* *
14031850 AAATAA-ATAATAAA
1 TATTAATATAATAAA
14031864 AAAATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.32
24 23 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TATTAATATAATAAATAATAAATT
Found at i:14032903 original size:116 final size:116
Alignment explanation
Indices: 14032699--14032932 Score: 373
Period size: 116 Copynumber: 2.0 Consensus size: 116
14032689 TAGAGAGTGG
* * *
14032699 ATAATATTTTTAAATATTTGATAATTTAAATTTTAAGTTTTTTAATTTAAAGGTAAAATAAAAAA
1 ATAATATTTCTAAATATTTGATAATTTAAAATTTAAGTTTTTAAATTTAAAGGTAAAATAAAAAA
14032764 TTCATTTTTAAAAAATCTTGATAAATTATCTAATCCTATGGATCGAAAACA
66 TTCATTTTTAAAAAATCTTGATAAATTATCTAATCCTATGGATCGAAAACA
* *
14032815 ATAATATTTCTAAATATTTGATAATTTAAAATTTAAGTTTTTAAATTTAAGGGTAAAATAAAAAT
1 ATAATATTTCTAAATATTTGATAATTTAAAATTTAAGTTTTTAAATTTAAAGGTAAAATAAAAAA
* *
14032880 TTTATTATTT-AGAAAT-TATGATAAATTATCTAATCCTATGGATCGAAAACA
66 TTCATT-TTTAAAAAATCT-TGATAAATTATCTAATCCTATGGATCGAAAACA
14032931 AT
1 AT
14032933 CTCCTATTTT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
115 1 0.01
116 105 0.96
117 3 0.03
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (116 bp):
ATAATATTTCTAAATATTTGATAATTTAAAATTTAAGTTTTTAAATTTAAAGGTAAAATAAAAAA
TTCATTTTTAAAAAATCTTGATAAATTATCTAATCCTATGGATCGAAAACA
Found at i:14034917 original size:51 final size:52
Alignment explanation
Indices: 14034838--14034983 Score: 154
Period size: 52 Copynumber: 2.8 Consensus size: 52
14034828 TGGACAAGAA
* * * *
14034838 GACTTGTAAAAGAA-AATTTCTAAAAGAAAGGGATTCTTAATAA-GTAAGTTT
1 GACTTGCAAAAAAAGAATTT-TAAGAGAAAGAGATTCTTAATAAGGTAAGTTT
* *
14034889 GACTTGCAAAAAAAGAATTTTAAGAGAAAATAGATTTTTAA-AAGGTAAGTTT
1 GACTTGCAAAAAAAGAATTTTAAGAG-AAAGAGATTCTTAATAAGGTAAGTTT
* * * *
14034941 AACTTGCAAAATAAGAATTCTAAGAAAAAAGAGATTCTTAATA
1 GACTTGCAAAAAAAGAATTTTAAG-AGAAAGAGATTCTTAATA
14034984 GACAAGTTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
51 19 0.24
52 57 0.73
53 2 0.03
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (52 bp):
GACTTGCAAAAAAAGAATTTTAAGAGAAAGAGATTCTTAATAAGGTAAGTTT
Found at i:14034938 original size:52 final size:52
Alignment explanation
Indices: 14034855--14034981 Score: 159
Period size: 52 Copynumber: 2.5 Consensus size: 52
14034845 AAAAGAAAAT
* * *
14034855 TTCTAA-AAGAAAGGGATTCTTAATAA-GTAAGTTTGACTTGCAAAAAAAGAA
1 TTCTAAGAAAAAAGAGATTCTTAA-AAGGTAAGTTTAACTTGCAAAAAAAGAA
* * * * *
14034906 TTTTAAGAGAAAATAGATTTTTAAAAGGTAAGTTTAACTTGCAAAATAAGAA
1 TTCTAAGAAAAAAGAGATTCTTAAAAGGTAAGTTTAACTTGCAAAAAAAGAA
14034958 TTCTAAGAAAAAAGAGATTCTTAA
1 TTCTAAGAAAAAAGAGATTCTTAA
14034982 TAGACAAGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
51 7 0.11
52 55 0.89
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (52 bp):
TTCTAAGAAAAAAGAGATTCTTAAAAGGTAAGTTTAACTTGCAAAAAAAGAA
Found at i:14038976 original size:13 final size:13
Alignment explanation
Indices: 14038954--14038993 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
14038944 AATTAATTTT
14038954 AATT-TTTTATTA
1 AATTATTTTATTA
14038966 AATTATTTTATTA
1 AATTATTTTATTA
*
14038979 AA-AATTTTA-TA
1 AATTATTTTATTA
14038990 AATT
1 AATT
14038994 TCATCTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 4 0.17
12 10 0.42
13 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATTTTATTA
Found at i:14039022 original size:15 final size:15
Alignment explanation
Indices: 14038986--14039023 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14038976 TTAAAAATTT
14038986 TATAAATTTCATCTAA
1 TATAAA-TTCATCTAA
*
14039002 -AGAAATTCATCTAA
1 TATAAATTCATCTAA
14039016 TATAAATT
1 TATAAATT
14039024 TATTTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (15 bp):
TATAAATTCATCTAA
Found at i:14039047 original size:2 final size:2
Alignment explanation
Indices: 14039037--14039068 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14039027 TTTTGAAAAA
*
14039037 AT AT CT 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
14039069 TCCCCAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14042319 original size:2 final size:2
Alignment explanation
Indices: 14042312--14042338 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14042302 ACAATTAAAA
14042312 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
14042339 ATTTTAGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14044979 original size:14 final size:15
Alignment explanation
Indices: 14044952--14044980 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14044942 TTTTTATTTT
14044952 AATATTTATATTAAA
1 AATATTTATATTAAA
14044967 AATATTTAT-TTAAA
1 AATATTTATATTAAA
14044981 TATCGTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTATATTAAA
Found at i:14045207 original size:15 final size:14
Alignment explanation
Indices: 14045166--14045207 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
14045156 TCAAAAATCT
14045166 AAAATAA-TATATC
1 AAAATAATTATATC
14045179 AAAATAATTGATATC
1 AAAATAATT-ATATC
*
14045194 AATATATATTATAT
1 AAAATA-ATTATAT
14045208 GTTTATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 7 0.28
14 1 0.04
15 14 0.56
16 3 0.12
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (14 bp):
AAAATAATTATATC
Found at i:14046945 original size:20 final size:20
Alignment explanation
Indices: 14046920--14046959 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14046910 GCCAGCTGAC
14046920 AGTGGCAACGCTTTGCTAGT
1 AGTGGCAACGCTTTGCTAGT
14046940 AGTGGCAACGCTTTGCTAGT
1 AGTGGCAACGCTTTGCTAGT
14046960 CGCAGCACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (20 bp):
AGTGGCAACGCTTTGCTAGT
Found at i:14048829 original size:46 final size:46
Alignment explanation
Indices: 14048762--14048851 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
14048752 AGATTTTAAT
* *
14048762 TTGAAAATCTACAATTTAAATTATAAGATGGACGAGATAAAATTGA
1 TTGAAAATATACAATTTAAATTATAAGATGAACGAGATAAAATTGA
*
14048808 TTGAAAATATTCAATTTAAATTATAAGATGAACGAGATAAAATT
1 TTGAAAATATACAATTTAAATTATAAGATGAACGAGATAAAATT
14048852 TATAGTTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (46 bp):
TTGAAAATATACAATTTAAATTATAAGATGAACGAGATAAAATTGA
Found at i:14051350 original size:20 final size:20
Alignment explanation
Indices: 14051325--14051382 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
14051315 TATATTAACG
14051325 ACAAAATTTTAAATTTACCA
1 ACAAAATTTTAAATTTACCA
* * *
14051345 ACAAAATAATTATA-TTATCA
1 ACAAAAT-TTTAAATTTACCA
*
14051365 ATAAAATTTTTAAATTTA
1 ACAAAA-TTTTAAATTTA
14051383 TCGATGAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.40
Consensus pattern (20 bp):
ACAAAATTTTAAATTTACCA
Found at i:14051393 original size:41 final size:40
Alignment explanation
Indices: 14051297--14051393 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
14051287 TCGACAAAAT
* * *
14051297 ATTTATAGATGGAATAATTATATTAACGACAAAATTTTAA
1 ATTTATCGATGAAATAATTATATTAACAACAAAATTTTAA
* * ** * *
14051337 ATTTACCAACAAAATAATTATATTATCAATAAAATTTTTAA
1 ATTTATCGATGAAATAATTATATTAACAACAAAA-TTTTAA
14051378 ATTTATCGATGAAATA
1 ATTTATCGATGAAATA
14051394 CTATTACCAA
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
40 25 0.58
41 18 0.42
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.38
Consensus pattern (40 bp):
ATTTATCGATGAAATAATTATATTAACAACAAAATTTTAA
Found at i:14053036 original size:26 final size:28
Alignment explanation
Indices: 14052975--14053038 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
14052965 AAATTCATTT
*
14052975 AAATTATTTATTAATGTATTATATAATA
1 AAATTATTTATTAATGTATAATATAATA
14053003 AAATTTATTTATTACAT-TA-AAT-TAATA
1 AAA-TTATTTATTA-ATGTATAATATAATA
14053030 AAATTATTT
1 AAATTATTT
14053039 CACAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.18
27 8 0.24
28 5 0.15
29 12 0.36
30 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
AAATTATTTATTAATGTATAATATAATA
Found at i:14057569 original size:19 final size:19
Alignment explanation
Indices: 14057531--14057569 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14057521 ATTAATCAAA
*
14057531 TTTAAATTATAAATAGTAT
1 TTTAAATTATAAATACTAT
* *
14057550 TTTAAATTTTACATACTAT
1 TTTAAATTATAAATACTAT
14057569 T
1 T
14057570 AATTTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAATTATAAATACTAT
Found at i:14061479 original size:21 final size:21
Alignment explanation
Indices: 14061455--14061499 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
14061445 ATTAAAATGA
14061455 AATAATCATGAATTTTCATTG
1 AATAATCATGAATTTTCATTG
*
14061476 AATAATCATGAGTTTTCATTG
1 AATAATCATGAATTTTCATTG
14061497 AAT
1 AAT
14061500 TGATTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (21 bp):
AATAATCATGAATTTTCATTG
Found at i:14062349 original size:2 final size:2
Alignment explanation
Indices: 14062342--14062394 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
14062332 AATACTTAAC
* * *
14062342 AT AT AT AT AT AT AA AT AT AT AT AT AT AT AA AT AT AA 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
14062384 AT AT AT AT AT A
1 AT AT AT AT AT A
14062395 ATGGCCACCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:14067513 original size:14 final size:13
Alignment explanation
Indices: 14067472--14067500 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14067462 AAAATTTATT
14067472 AAAT-AAAAATTA
1 AAATCAAAAATTA
14067484 AAATCAAAAATTA
1 AAATCAAAAATTA
14067497 AAAT
1 AAAT
14067501 TGATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATCAAAAATTA
Found at i:14069019 original size:23 final size:24
Alignment explanation
Indices: 14068993--14069042 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
14068983 TCATGCAAAG
*
14068993 ATCACCATGCAA-AATAATATTAT
1 ATCACCATGCAAGAATAATATAAT
*
14069016 ATCATCATGCAATGAATAATATAAT
1 ATCACCATGCAA-GAATAATATAAT
14069041 AT
1 AT
14069043 ATAAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
25 12 0.52
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (24 bp):
ATCACCATGCAAGAATAATATAAT
Found at i:14070745 original size:43 final size:43
Alignment explanation
Indices: 14070639--14070842 Score: 162
Period size: 43 Copynumber: 4.7 Consensus size: 43
14070629 TTTTAAAGAA
* * *
14070639 CTCCACTAAACAGAGGCATAAACAACTTTAAAATGAGAAATGGG
1 CTCCTCTAAACAGAAGC-TAAACAACTTTAAAATGAGAAGTGGG
* ** * **
14070683 CTCCTTTAAGTA-AAGGCTAAATAACTTTAAAATGAGAAGTTCG
1 CTCCTCTAAACAGAA-GCTAAACAACTTTAAAATGAGAAGTGGG
*
14070726 CTCCTCTAAACAGAAGCTAAACAATTTTAAAATGCA-AAGTGGG
1 CTCCTCTAAACAGAAGCTAAACAACTTTAAAATG-AGAAGTGGG
* * * * * *
14070769 CTCATTTAAACAGAGGTTAAACAACTTTAAAAT-AGGAAATAGG
1 CTCCTCTAAACAGAAGCTAAACAACTTTAAAATGA-GAAGTGGG
* ** * *
14070812 CTCTTCTATTCAGAGGATAAACAACTTTAAA
1 CTCCTCTAAACAGAAGCTAAACAACTTTAAA
14070843 TAGGAAATGA
Statistics
Matches: 127, Mismatches: 28, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
43 113 0.89
44 13 0.10
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (43 bp):
CTCCTCTAAACAGAAGCTAAACAACTTTAAAATGAGAAGTGGG
Found at i:14070866 original size:86 final size:85
Alignment explanation
Indices: 14070639--14070867 Score: 223
Period size: 86 Copynumber: 2.7 Consensus size: 85
14070629 TTTTAAAGAA
* *
14070639 CTCCACTAAACAGAGGCATAAACAACTTTAAAATGAGAAATGGGCTCCTTTAAGTA-AAGGCTAA
1 CTCCTCTAAACAGAGG-ATAAACAACTTTAAAATG-GAAATGGGCTCCTTTAA-AACAAGGCTAA
* * *
14070703 ATAACTTTAAAATGAGAAGTTCG
63 ACAACTTTAAAATGAGAAATACG
* * * * * *
14070726 CTCCTCTAAACAGAAGCTAAACAATTTTAAAATGCAAAGTGGGCTCATTT-AAACAGAGGTTAAA
1 CTCCTCTAAACAGAGGATAAACAACTTTAAAATGGAAA-TGGGCTCCTTTAAAACA-AGGCTAAA
*
14070790 CAACTTTAAAAT-AGGAAATAGG
64 CAACTTTAAAATGA-GAAATACG
* ** *
14070812 CTCTTCTATTCAGAGGATAAACAACTTT-AAATAGGAAATGAGCTCCTTTAAAACAA
1 CTCCTCTAAACAGAGGATAAACAACTTTAAAAT-GGAAATGGGCTCCTTTAAAACAA
14070868 CTTTAAAATG
Statistics
Matches: 115, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
84 1 0.01
85 20 0.17
86 80 0.70
87 14 0.12
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (85 bp):
CTCCTCTAAACAGAGGATAAACAACTTTAAAATGGAAATGGGCTCCTTTAAAACAAGGCTAAACA
ACTTTAAAATGAGAAATACG
Found at i:14070868 original size:32 final size:33
Alignment explanation
Indices: 14070830--14070896 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
14070820 TTCAGAGGAT
* *
14070830 AAACAACTTT-AAATAGGAAA-TGAGCTCCTTTA
1 AAACAACTTTAAAAT-GCAAAGTGAGCTCCTCTA
14070862 AAACAACTTTAAAATGCAAAGTGAGCTCCTCTA
1 AAACAACTTTAAAATGCAAAGTGAGCTCCTCTA
14070895 AA
1 AA
14070897 TAAAGGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (33 bp):
AAACAACTTTAAAATGCAAAGTGAGCTCCTCTA
Found at i:14070956 original size:118 final size:118
Alignment explanation
Indices: 14070744--14070981 Score: 325
Period size: 118 Copynumber: 2.0 Consensus size: 118
14070734 AACAGAAGCT
* * * * * * *
14070744 AAACAATTTTAAAATGCAAAGTGGGCTCATTTAAACAGAGGTTAAACAACTTTAAAATAGGAAAT
1 AAACAACTTTAAAATGCAAAGTGAGCTCATCTAAACAAAGGCTAAACAACTTAAAAATAAGAAAT
* * * *
14070809 AGGCTCTTCTATTCAGAGGATAAACAACTTTAAATAGGAAATGAGCTCCTTTA
66 AAGCTCTTCTATTCAAAGGATAAACAACTTTAAATAAGAAATGAGCTCCTCTA
* *
14070862 AAACAACTTTAAAATGCAAAGTGAGCTCCTCTAAATAAAGGCTAAACAACTTAAAAATAAGAAAT
1 AAACAACTTTAAAATGCAAAGTGAGCTCATCTAAACAAAGGCTAAACAACTTAAAAATAAGAAAT
* *
14070927 AAGCT-TCTCTATTCAAAGGCTAAATAACTTTAAATAAGAAATGAGCTCCTCTA
66 AAGCTCT-TCTATTCAAAGGATAAACAACTTTAAATAAGAAATGAGCTCCTCTA
14070980 AA
1 AA
14070982 TAGAGGCTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
117 1 0.01
118 103 0.99
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.26
Consensus pattern (118 bp):
AAACAACTTTAAAATGCAAAGTGAGCTCATCTAAACAAAGGCTAAACAACTTAAAAATAAGAAAT
AAGCTCTTCTATTCAAAGGATAAACAACTTTAAATAAGAAATGAGCTCCTCTA
Found at i:14071012 original size:42 final size:42
Alignment explanation
Indices: 14070862--14071008 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 42
14070852 AGCTCCTTTA
*
14070862 AAACAACTTTAAA-ATGCAAAGTGAGCTCCTCTAAATAAAGGCT
1 AAACAACTTTAAATAAG-AAA-TGAGCTCCTCTAAATAAAGGCT
* * * *
14070905 AAACAACTTAAAAATAAGAAATAAGCTTCTCT-ATTCAAAGGCT
1 AAACAACTT-TAAATAAGAAATGAGCTCCTCTAAAT-AAAGGCT
* *
14070948 AAATAACTTTAAATAAGAAATGAGCTCCTCTAAATAGAGGCT
1 AAACAACTTTAAATAAGAAATGAGCTCCTCTAAATAAAGGCT
*
14070990 AAACAACTTTAGAT-AGAAA
1 AAACAACTTTAAATAAGAAA
14071009 ATGAAATCTT
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 5 0.06
42 39 0.45
43 35 0.40
44 6 0.07
45 2 0.02
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (42 bp):
AAACAACTTTAAATAAGAAATGAGCTCCTCTAAATAAAGGCT
Found at i:14071047 original size:85 final size:88
Alignment explanation
Indices: 14070862--14071049 Score: 198
Period size: 85 Copynumber: 2.2 Consensus size: 88
14070852 AGCTCCTTTA
14070862 AAACAACTTTAAAAT--GCAAAGTGAGCTCCTCTAAATAAAGGCTAAACAACTTAAAAATAAGAA
1 AAACAACTTTAAAATAAGCAAAGTGAGCTCCTCTAAATAAAGGCTAAACAACTTAAAAATAAGAA
** *
14070925 ATAAGCTTCTCTATTCAAAGGCT
66 ATAAGCTTCTCTAAACAAAGACT
* * * *
14070948 AAATAACTTT-AAATAAG-AAA-TGAGCTCCTCTAAATAGAGGCTAAACAACTT-TAGAT-AGAA
1 AAACAACTTTAAAATAAGCAAAGTGAGCTCCTCTAAATAAAGGCTAAACAACTTAAAAATAAG-A
*
14071008 AATGAAATCTT-T-TAAACAGAA-ACT
65 AAT--AAGCTTCTCTAAACA-AAGACT
14071032 AAACAACTTTAAAATAAG
1 AAACAACTTTAAAATAAG
14071050 TGACTTAGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
83 2 0.02
84 22 0.26
85 44 0.51
86 17 0.20
87 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (88 bp):
AAACAACTTTAAAATAAGCAAAGTGAGCTCCTCTAAATAAAGGCTAAACAACTTAAAAATAAGAA
ATAAGCTTCTCTAAACAAAGACT
Found at i:14071323 original size:65 final size:65
Alignment explanation
Indices: 14071254--14071425 Score: 182
Period size: 65 Copynumber: 2.6 Consensus size: 65
14071244 ACTAAAATCG
* * * ** *
14071254 AAGATGAGTGACCAAGATTGAACCACATGTCAAAAAAATAAATGGTTTGGACTAAACCAAGATCA
1 AAGATGAGTGACCAAGATTGAACCACAAGTTAAAAAAATAAATGATCAGGACTAAACCAAGATAA
* *** *** *
14071319 AAGATAAGTGAATGAGATTGAATTGCAAGTTAAAAAAATAAATGATCAGGACTGAACCAAGATAA
1 AAGATGAGTGACCAAGATTGAACCACAAGTTAAAAAAATAAATGATCAGGACTAAACCAAGATAA
* * **
14071384 AAAATGAGTGACCAGGATCAAACCACAAGTTAAAAAAATAAA
1 AAGATGAGTGACCAAGATTGAACCACAAGTTAAAAAAATAAA
14071426 ATTCAAAATT
Statistics
Matches: 82, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
65 82 1.00
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (65 bp):
AAGATGAGTGACCAAGATTGAACCACAAGTTAAAAAAATAAATGATCAGGACTAAACCAAGATAA
Found at i:14071846 original size:47 final size:46
Alignment explanation
Indices: 14071714--14071847 Score: 153
Period size: 47 Copynumber: 2.9 Consensus size: 46
14071704 AAAGATTCGT
* * *
14071714 AAGAATTTCATATTCGTAAGA-ATGGAAGATTTGCAAGAATTTTAGGC
1 AAGAACTTCATATTCGTAAGAGTTTG-AGATTTGCAAG-ATTTTAGGC
* * * * *
14071761 AATAACTTTAGATTCGTAAAAGTTTTAGATTTGCAAGATTTTCAGGC
1 AAGAACTTCATATTCGTAAGAGTTTGAGATTTGCAAGATTTT-AGGC
*
14071808 AAGAACTTCATATTCGTAAGAGTTTGAGATTTGTAAGATT
1 AAGAACTTCATATTCGTAAGAGTTTGAGATTTGCAAGATT
14071848 ATCATATTCG
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
46 5 0.07
47 65 0.92
48 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (46 bp):
AAGAACTTCATATTCGTAAGAGTTTGAGATTTGCAAGATTTTAGGC
Found at i:14071878 original size:34 final size:34
Alignment explanation
Indices: 14071815--14071879 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
14071805 GGCAAGAACT
* * * *
14071815 TCATATTCGTAAGAGTTTGAGATTTGTAAGATTA
1 TCATATTCGCAAGAGTTTCAAATTCGTAAGATTA
14071849 TCATATTCGCAAGAGTTTCAAATTCGTAAGA
1 TCATATTCGCAAGAGTTTCAAATTCGTAAGA
14071880 ACTTTAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (34 bp):
TCATATTCGCAAGAGTTTCAAATTCGTAAGATTA
Found at i:14072424 original size:46 final size:47
Alignment explanation
Indices: 14072339--14072491 Score: 138
Period size: 46 Copynumber: 3.4 Consensus size: 47
14072329 ATTCACTTTG
* * * **
14072339 AAAATTTCAAA-ATTC-ACCT-CTAAAAACTTTAACATTTCACAACC
1 AAAATTTCAAAGATTCTACATCCAAAAAATTTTAGGATTTCACAACC
*
14072383 AAAATTTCAAAGATTCT-CATCCAAAAAATTTTAGGGTTTCAC-ACC
1 AAAATTTCAAAGATTCTACATCCAAAAAATTTTAGGATTTCACAACC
* * * * * *
14072428 TAAATTTTCAAAGATT-TATATTCAAAAAATTTTAGGAATTCCCATCC
1 -AAAATTTCAAAGATTCTACATCCAAAAAATTTTAGGATTTCACAACC
*
14072475 AAAATTTTAAAGATTCT
1 AAAATTTCAAAGATTCT
14072492 TATTTGAAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.13
45 10 0.11
46 63 0.72
47 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (47 bp):
AAAATTTCAAAGATTCTACATCCAAAAAATTTTAGGATTTCACAACC
Found at i:14074581 original size:3 final size:3
Alignment explanation
Indices: 14074575--14074606 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14074565 TATTATTATT
14074575 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
14074607 TATATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:14075468 original size:5 final size:5
Alignment explanation
Indices: 14075460--14075522 Score: 60
Period size: 5 Copynumber: 13.0 Consensus size: 5
14075450 CAGGTTTTCT
* * * *
14075460 TTTTA TTTTA TTTTA TTTTTA ATTTA GTTCA TTTTA TTTTA TTTT- TATTA
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
14075510 -TTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA
14075523 CTAATTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
4 10 0.21
5 33 0.69
6 5 0.10
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:14075478 original size:16 final size:16
Alignment explanation
Indices: 14075454--14075522 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
14075444 GAATCGCAGG
*
14075454 TTTTCTTTTTATTTTA
1 TTTTATTTTTATTTTA
*
14075470 TTTTATTTTTAATTTA
1 TTTTATTTTTATTTTA
* *
14075486 GTTCA-TTTTATTTTA
1 TTTTATTTTTATTTTA
14075501 TTTTTATTATTTA-TTTA
1 -TTTTATT-TTTATTTTA
14075518 TTTTA
1 TTTTA
14075523 CTAATTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 9 0.21
16 25 0.58
17 5 0.12
18 4 0.09
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:14075562 original size:26 final size:26
Alignment explanation
Indices: 14075504--14075562 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
14075494 TATTTTATTT
* *
14075504 TTATTATTTATTTATTTTACTAATTT
1 TTATTATTTATTTATTTTACTAAATA
* *
14075530 TTATTATTTGTTTATTTTTATTAAATA
1 TTATTATTTATTTA-TTTTACTAAATA
14075557 TT-TTAT
1 TTATTAT
14075563 GAAATTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTATTATTTATTTATTTTACTAAATA
Found at i:14075583 original size:39 final size:36
Alignment explanation
Indices: 14075460--14075585 Score: 90
Period size: 39 Copynumber: 3.5 Consensus size: 36
14075450 CAGGTTTTCT
*
14075460 TTTTATTTTATTTTATT-TTTAATTTA-GTT-C---A
1 TTTTATTTTATTTTATTATTT-ATTTATTTTACTAAA
*
14075491 TTTTATTTTATTTTTATTATTTATTTATTTTACTAAT
1 TTTTATTTTA-TTTTATTATTTATTTATTTTACTAAA
14075528 TTTTATTATT-TGTTTATT-TTTATTAAATATTTTA-TGAAA
1 TTTTATT-TTAT-TTTATTATTTATT---TATTTTACT-AAA
14075567 TTTTATTGTTATTTTATTA
1 TTTTATT-TTATTTTATTA
14075586 ATAATAATAA
Statistics
Matches: 76, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
31 10 0.13
32 12 0.16
33 5 0.07
34 1 0.01
36 7 0.09
37 13 0.17
38 3 0.04
39 24 0.32
40 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (36 bp):
TTTTATTTTATTTTATTATTTATTTATTTTACTAAA
Found at i:14079471 original size:18 final size:18
Alignment explanation
Indices: 14079448--14079517 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 18
14079438 CACCATGCAA
*
14079448 AATAATATTATATCATGC
1 AATAATATAATATCATGC
14079466 AATAATA-ATATATCATGC
1 AATAATATA-ATATCATGC
*
14079484 AATAAACATAAGTTATCATGC
1 AAT-AATATAA--TATCATGC
14079505 AATAATATAATAT
1 AATAATATAATAT
14079518 ATAAATTATC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 22 0.50
19 4 0.09
20 7 0.16
21 11 0.25
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (18 bp):
AATAATATAATATCATGC
Found at i:14079564 original size:21 final size:20
Alignment explanation
Indices: 14079513--14079560 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
14079503 GCAATAATAT
*
14079513 AATATATAAATTATCATGCA
1 AATATATAAAATATCATGCA
*
14079533 ATTGATATAAAATATCATGCA
1 AAT-ATATAAAATATCATGCA
14079554 AATATAT
1 AATATAT
14079561 TAAACTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (20 bp):
AATATATAAAATATCATGCA
Found at i:14080586 original size:30 final size:30
Alignment explanation
Indices: 14080527--14080586 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
14080517 GATTTTCTTC
*
14080527 AATCAAATCCCACAAATTAATTTAGGGTTT
1 AATCAAATCCCACAAATTAATTTAAGGTTT
14080557 AATCAAATCTCTCA-AAATTAA-TTAAGGTTT
1 AATCAAATC-C-CACAAATTAATTTAAGGTTT
14080587 CAAGAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 17 0.63
31 8 0.30
32 2 0.07
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (30 bp):
AATCAAATCCCACAAATTAATTTAAGGTTT
Found at i:14086723 original size:106 final size:106
Alignment explanation
Indices: 14086580--14086772 Score: 327
Period size: 106 Copynumber: 1.8 Consensus size: 106
14086570 ACTCAACTGA
* * *
14086580 ATTTTTTTTTCTTTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTTAACGACTTTTGA
1 ATTTTTTTTTCTTTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAAAGGCTCAACGAC-TTCGA
14086645 GAAACATAAACAAAGCTCCTCTAAACAAAGGTAATTTTTTTT
65 GAAACATAAACAAAGCTCCTCTAAACAAAGGTAATTTTTTTT
14086687 ATTTTTTTGTT-TTTTTTTT-AATTTTGATCAAAGCTCCTCTAAGCAAAGGCTCAACGACTTCGA
1 ATTTTTTT-TTCTTTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAAAGGCTCAACGACTTCGA
14086750 GAAACATAAACAAAGCTCCTCTA
65 GAAACATAAACAAAGCTCCTCTA
14086773 TTCAGAGGCT
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
105 27 0.33
106 37 0.45
107 16 0.20
108 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (106 bp):
ATTTTTTTTTCTTTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAAAGGCTCAACGACTTCGAG
AAACATAAACAAAGCTCCTCTAAACAAAGGTAATTTTTTTT
Found at i:14086821 original size:43 final size:43
Alignment explanation
Indices: 14086715--14086859 Score: 191
Period size: 43 Copynumber: 3.3 Consensus size: 43
14086705 TAATTTTGAT
* * *
14086715 CAAAGCTCCTCTAAGCAAAGGCTCAACGACTTCGAGAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGA-AAA-ATAAA
* *
14086760 CAAAGCTCCTCTATTCAGAGGCTTAACGACTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
* * * *
14086803 TAAAGCTCCTCTAATCAGAGACTCAACGACTTTGAAGATTAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
14086846 CAAAGCTCCTCTAA
1 CAAAGCTCCTCTAA
14086860 ACATAGGTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 55 0.62
44 3 0.03
45 30 0.34
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (43 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
Done.