Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 71 of 125
Found at i:14116144 original size:37 final size:35
Alignment explanation
Indices: 14116099--14116171 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 35
14116089 CTATGTTTAG
* * *
14116099 GATGGCCATTTTCAGATAATATTTTAAAGTTTCAAA
1 GATGGCCATTTTCAAACAAGATTTTAAA-TTTCAAA
14116135 GATGAGCCATTTTCAAACAAGATTTTAAATTTCAAA
1 GATG-GCCATTTTCAAACAAGATTTTAAATTTCAAA
14116171 G
1 G
14116172 CCTCTATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 12 0.36
37 21 0.64
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
GATGGCCATTTTCAAACAAGATTTTAAATTTCAAA
Found at i:14119331 original size:223 final size:223
Alignment explanation
Indices: 14118981--14119513 Score: 958
Period size: 223 Copynumber: 2.4 Consensus size: 223
14118971 TCTAAATAGA
* * *
14118981 GATTCCTGAGAATTCCTTAGGTTAGAAAAGTCTTCTAAAAATTACCAAAGTATTGAAATATTTAG
1 GATTCCTGAGAATTCCTTAGGTAAGAAAAGTCTTCAAAAAATTACCAAAGTATTAAAATATTTAG
14119046 AAGTTTCATTTAATACAAAAATTTCCATTTTATCATTATTCTTAATTTGAGTAGTTTTTATATGA
66 AAGTTTCATTTAATACAAAAATTTCCATTTTATCATTATTCTTAATTTGAGTAGTTTTTATATGA
14119111 AAATATACACTTTTGAAAATAAATTTGTTTATATTACATGATTTTAAAATAATAAAAATTTTTGA
131 AAATATACACTTTTGAAAATAAATTTGTTTATATTACATGATTTTAAAATAATAAAAATTTTTGA
*
14119176 TGAAAGGACTACTAGAAAACCAAGAAGT
196 TGAAAGGACTAATAGAAAACCAAGAAGT
14119204 GATTCCTGAGAATTCCTTAGGTAAGAAAAGTCTTCAAAAAATTACCAAAGTATTAAAATATTTAG
1 GATTCCTGAGAATTCCTTAGGTAAGAAAAGTCTTCAAAAAATTACCAAAGTATTAAAATATTTAG
*
14119269 AAGTTTCATTTAATATAAAAATTTCCATTTTATCATTATTCTTAATTTGAGTAGTTTTTATATGA
66 AAGTTTCATTTAATACAAAAATTTCCATTTTATCATTATTCTTAATTTGAGTAGTTTTTATATGA
14119334 AAATATACACTTTTGAAAATAAATTTGTTTATATTACATGATTTTAAAATAATAAAAATTTTTGA
131 AAATATACACTTTTGAAAATAAATTTGTTTATATTACATGATTTTAAAATAATAAAAATTTTTGA
* *
14119399 TTAAAGGACTAATAGAAAACCGAGAAGT
196 TGAAAGGACTAATAGAAAACCAAGAAGT
* * *
14119427 GATTCCTGAGAATTTCTTAGGTGAGAAAAGTCTTCAAAAAATTACCAAAGTATTAGAATATTTAG
1 GATTCCTGAGAATTCCTTAGGTAAGAAAAGTCTTCAAAAAATTACCAAAGTATTAAAATATTTAG
*
14119492 AAGTTTCTTTTCAATACAAAAA
66 AAGTTTCATTT-AATACAAAAA
14119514 ACCTTTATGT
Statistics
Matches: 297, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
223 288 0.97
224 9 0.03
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (223 bp):
GATTCCTGAGAATTCCTTAGGTAAGAAAAGTCTTCAAAAAATTACCAAAGTATTAAAATATTTAG
AAGTTTCATTTAATACAAAAATTTCCATTTTATCATTATTCTTAATTTGAGTAGTTTTTATATGA
AAATATACACTTTTGAAAATAAATTTGTTTATATTACATGATTTTAAAATAATAAAAATTTTTGA
TGAAAGGACTAATAGAAAACCAAGAAGT
Found at i:14122248 original size:23 final size:23
Alignment explanation
Indices: 14122205--14122248 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
14122195 AAATCCATTC
* *
14122205 TATTATTTTCTTTTATTTTTTTA
1 TATTATTTTATTTTATCTTTTTA
14122228 TATTATTTTATTTGT-TCTTTT
1 TATTATTTTATTT-TATCTTTT
14122249 AACAAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (23 bp):
TATTATTTTATTTTATCTTTTTA
Found at i:14122517 original size:13 final size:13
Alignment explanation
Indices: 14122499--14122544 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
14122489 GGTTTTGATT
*
14122499 TTTAGGGTTCCAA
1 TTTAGGGTTTCAA
14122512 TTTAGGGTTTCAA
1 TTTAGGGTTTCAA
*
14122525 TTTAGGGTTTTAA
1 TTTAGGGTTTCAA
14122538 TTTAGGG
1 TTTAGGG
14122545 ATTTAACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.46
Consensus pattern (13 bp):
TTTAGGGTTTCAA
Found at i:14122549 original size:13 final size:12
Alignment explanation
Indices: 14122499--14122555 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 12
14122489 GGTTTTGATT
*
14122499 TTTAGGGTTCCAA
1 TTTAGGGTT-TAA
14122512 TTTAGGGTTTCAA
1 TTTAGGGTTT-AA
14122525 TTTAGGGTTTTAA
1 TTTAGGG-TTTAA
14122538 TTTAGGGATTTAA
1 TTTAGGG-TTTAA
14122551 CTTTA
1 -TTTA
14122556 AGAATTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
13 32 0.82
14 7 0.18
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (12 bp):
TTTAGGGTTTAA
Found at i:14122791 original size:3 final size:3
Alignment explanation
Indices: 14122736--14122772 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14122726 CATTAAAAGT
14122736 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
14122773 ATAATTTAAT
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:14123524 original size:2 final size:2
Alignment explanation
Indices: 14123517--14123553 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
14123507 TGCGGTCTCC
* *
14123517 TA TA TA TA TA TA TA TA TA TA TA TA CA CA 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
14123554 TAACTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:14124692 original size:17 final size:18
Alignment explanation
Indices: 14124672--14124725 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
14124662 CCAAGCATTC
14124672 TTTTATTATATATATA-A
1 TTTTATTATATATATATA
*
14124689 TTTTA-AATAT-TATTATA
1 TTTTATTATATATA-TATA
14124706 TTTTATTTATATATATATA
1 TTTTA-TTATATATATATA
14124725 T
1 T
14124726 ATATGTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.07
16 6 0.20
17 11 0.37
19 9 0.30
20 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATTATATATATATA
Found at i:14125662 original size:18 final size:18
Alignment explanation
Indices: 14125641--14125675 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14125631 AACCTTTATT
14125641 ATTACTAACAAAAAACTC
1 ATTACTAACAAAAAACTC
*
14125659 ATTACTAACAGAAAACT
1 ATTACTAACAAAAAACT
14125676 TTTAGCAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.20, G:0.03, T:0.23
Consensus pattern (18 bp):
ATTACTAACAAAAAACTC
Found at i:14130084 original size:15 final size:15
Alignment explanation
Indices: 14130064--14130093 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14130054 TTCATGTATG
*
14130064 TAATTTCATGCAATT
1 TAATTTCATACAATT
14130079 TAATTTCATACAATT
1 TAATTTCATACAATT
14130094 CACTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (15 bp):
TAATTTCATACAATT
Found at i:14130443 original size:20 final size:21
Alignment explanation
Indices: 14130414--14130455 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
14130404 GGAATTTCAG
14130414 ATTACATAATAAAGA-TTTTT
1 ATTACATAATAAAGACTTTTT
*
14130434 ATTACGTAATAAAGACTTTTT
1 ATTACATAATAAAGACTTTTT
14130455 A
1 A
14130456 CTATGTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
ATTACATAATAAAGACTTTTT
Found at i:14130455 original size:21 final size:21
Alignment explanation
Indices: 14130414--14130476 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
14130404 GGAATTTCAG
*
14130414 ATTACATAATAAAGA-TTTTT
1 ATTACGTAATAAAGACTTTTT
14130434 ATTACGTAATAAAGACTTTTT
1 ATTACGTAATAAAGACTTTTT
* * * *
14130455 ACTATGTGATACAGACTTTTT
1 ATTACGTAATAAAGACTTTTT
14130476 A
1 A
14130477 CTATAATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 14 0.38
21 23 0.62
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
ATTACGTAATAAAGACTTTTT
Found at i:14141362 original size:128 final size:127
Alignment explanation
Indices: 14141230--14141518 Score: 340
Period size: 127 Copynumber: 2.3 Consensus size: 127
14141220 GAGCACAATG
* ***
14141230 TTTTTTGGTTAAAAAACACAGTGTTTGTGT-AAAAGACAATGTTTTTATATTAAAAAATGTAATC
1 TTTTTTGGTTAAAAAACACAGTGTTTGTCTCAAAAGACAATGTTTTTATATTAAAAAACACAATC
*
14141294 TATGTCAGTTTAT-CAATTTTTAAATTGAACTTTGTTAATATT-ATGTTAACTAATAA-G-CAT
66 TATGTCAGTTTATCCAA-TTTTAAATTGAACTTTGTTAAT-TTCATGTTAACTAACAATGACAT
* * ** * *
14141354 GATTTTTTTG-TACAAAAACACAGTGTTTCTCTCTTAAGACAATGTTTTTATGTTAAAAAGCACA
1 --TTTTTTGGTTA-AAAAACACAGTGTTTGTCTCAAAAGACAATGTTTTTATATTAAAAAACACA
*
14141418 ATCTATGTCAGTTTATCCAATTTTAAATTGGACTTTGTTAATTTCATGTTAACTAACAATGACAT
63 ATCTATGTCAGTTTATCCAATTTTAAATTGAACTTTGTTAATTTCATGTTAACTAACAATGACA-
14141483 T
127 T
*
14141484 TTTTTTGCTTAAAAAAC-CTAGTGTTTGTCTACAAA
1 TTTTTTGGTTAAAAAACAC-AGTGTTTGTCT-CAAA
14141519 TATGACATTT
Statistics
Matches: 136, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
125 2 0.01
126 26 0.19
127 75 0.55
128 26 0.19
129 6 0.04
130 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (127 bp):
TTTTTTGGTTAAAAAACACAGTGTTTGTCTCAAAAGACAATGTTTTTATATTAAAAAACACAATC
TATGTCAGTTTATCCAATTTTAAATTGAACTTTGTTAATTTCATGTTAACTAACAATGACAT
Found at i:14141641 original size:15 final size:15
Alignment explanation
Indices: 14141614--14141650 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
14141604 TGATGATCTC
14141614 TATAATT-TAAAAAA
1 TATAATTATAAAAAA
14141628 TATAATTATAAAAAA
1 TATAATTATAAAAAA
*
14141643 TGTAATTA
1 TATAATTA
14141651 AATTTTGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TATAATTATAAAAAA
Found at i:14145076 original size:3 final size:3
Alignment explanation
Indices: 14145063--14145139 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
14145053 AAACATAAAC
*
14145063 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14145111 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14145140 TGTTACATGA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 69 0.97
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14148328 original size:14 final size:17
Alignment explanation
Indices: 14148309--14148344 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14148299 TACATTTATC
14148309 AAAGG-TATGG-A-TAA
1 AAAGGTTATGGAAGTAA
14148323 AAAGGTTATGGAAGTAA
1 AAAGGTTATGGAAGTAA
14148340 AAAGG
1 AAAGG
14148345 CATGCTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 5 0.26
16 1 0.05
17 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (17 bp):
AAAGGTTATGGAAGTAA
Found at i:14153337 original size:61 final size:59
Alignment explanation
Indices: 14153153--14153695 Score: 447
Period size: 60 Copynumber: 9.1 Consensus size: 59
14153143 ATAAAAAAAT
* * * * *
14153153 AAAAGTAAAAATTT-CAAAAAGATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTA
1 AAAA-TAAAAATTTAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAA-TTTTCTTG
* *
14153213 AAAATAAAAATTT-CAAAAAAATA-TTTTGAGGAAAAA-TTGGAAGTATTAATTTTCTTG
1 AAAATAAAAATTTAAAAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATTAATTTTCTTG
*
14153270 AAAATAAAAATTGTAAAAAAAAATATTTTTGAGAAAAAGTTGAAAATATTAATTTTTCTTG
1 AAAATAAAAATT-TAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAA-TTTTCTTG
*** * ** * * * *
14153331 AAAAT-AAAATTT-TCCAATAGCATTTCTGAGGAAAAGTTGAAAGTATCAATTTTCTTTA
1 AAAATAAAAATTTAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTC-TTG
* * ** * * * *
14153389 AAAATAAAATTTTCAAAAAAGAGCA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTCA
1 AAAATAAAAATTT-AAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTCTT-G
* * * * * *
14153449 AAAATATAATTTTCAAAAAAAGTATTTTCGAGGAAAAGTTGAAAGTATTAATTTTCCTTG
1 AAAATAAAAATTTAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTT-CTTG
* *
14153509 AAAAT-AAAATTTCAAAAAAAAAGTATTTTTTAGAAAAAGTTGAAAGTATCAATTTTCTTTG
1 AAAATAAAAATTT-AAAAAAAAA-TATTTTTGAGAAAAAGTTGAAAGTATTAATTTTC-TTG
* * * *
14153570 AAAATATAATTTTCAAAAAAAGTATTTTTGAGGAAAAA-TTGAAAGTATTAATTTTTCTTG
1 AAAATAAAAATTTAAAAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATTAA-TTTTCTTG
* * * ** * * ** * *
14153630 AAAATAACATTTTCAAAAATGACATTTTTAAGGGAAAGTTAAAAGTATCAAATTTTCTTG
1 AAAATAAAAATTTAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTAT-TAATTTTCTTG
14153690 AAAATA
1 AAAATA
14153696 GAAACGTAAA
Statistics
Matches: 403, Mismatches: 59, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
57 24 0.06
58 52 0.13
59 64 0.16
60 179 0.44
61 79 0.20
62 5 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
AAAATAAAAATTTAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTCTTG
Found at i:14153582 original size:18 final size:19
Alignment explanation
Indices: 14153548--14153583 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14153538 TTAGAAAAAG
*
14153548 TTGAAAGTATCAATTTTCT
1 TTGAAAATATCAATTTTCT
14153567 TTGAAAATAT-AATTTTC
1 TTGAAAATATCAATTTTC
14153584 AAAAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (19 bp):
TTGAAAATATCAATTTTCT
Found at i:14153603 original size:121 final size:120
Alignment explanation
Indices: 14153160--14153695 Score: 576
Period size: 118 Copynumber: 4.5 Consensus size: 120
14153150 AATAAAAGTA
* * *
14153160 AAAATTTC-AAAAAGA-TATTTTTAAGGAAAAGTTGAAAGTATTAATTTT-TCTTAAAAATAAAA
1 AAAATTTCAAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAAA
* *
14153222 ATTTCAAAAAAA-TA-TTTTGAGGAAAAATTGGAAGTATTAATTTT-CTTGAAAAT
65 TTTTCAAAAAAAGTATTTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAAT
* * * * *
14153275 AAAAATTGT-AAAAAAAAATATTTTTGAGAAAAAGTTGAAAATATTAATTTT-TCTTGAAAATAA
1 -AAAATT-TCAAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAA
* * * * * * * *
14153338 AATTTTC--CAATAGCATTTCTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT
63 AATTTTCAAAAAAAGTATTTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAAT
* * * * ** *
14153394 AAAATTTTCAAAAAAGAGCA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTCAAAAATATAA
1 AAAA-TTTCAAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAA
* *
14153458 TTTTCAAAAAAAGTATTTTCGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
65 TTTTCAAAAAAAGTATTTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAAT
* * *
14153514 AAAATTTCAAAAAAAAAGTATTTTTTAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATATAA
1 AAAATTTC-AAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAA
*
14153579 TTTTCAAAAAAAGTATTTTTGAGGAAAAATTGAAAGTATTAATTTTTCTTGAAAAT
65 TTTTCAAAAAAAGTATTTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAAT
* ** * * *
14153635 AACATTTTCAAAAATGA-CATTTTTAAGGGAAAGTTAAAAGTATCAAATTTTC-TTGAAAATA
1 AA-AATTTCAAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATC-AATTTTCTTTGAAAATA
14153696 GAAACGTAAA
Statistics
Matches: 354, Mismatches: 51, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
116 9 0.03
117 8 0.02
118 118 0.33
119 22 0.06
120 85 0.24
121 107 0.30
122 5 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (120 bp):
AAAATTTCAAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAT
TTTCAAAAAAAGTATTTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAAT
Found at i:14154809 original size:298 final size:297
Alignment explanation
Indices: 14154230--14154829 Score: 1022
Period size: 298 Copynumber: 2.0 Consensus size: 297
14154220 TGGTGGCGAC
* *
14154230 TCCTCAAGTCAATGTCTAGCGATAGTTCATAGATCTAGATGTTATGATAGTTTGGCGACTCCGCT
1 TCCTTAAGTCAATATCTAGCGATAGTTCATAGATCTAGATGTTATGATAGTTTGGCGACTCCGCT
*
14154295 GGGGACATACCGAAAGTCAAGCCAGCAAATAAATTTATGTTATCCAAAAGCCTAATAAAATTGAT
66 GGGGACATACCGAAAGTCAAGCCAGCAAATAAATTTATATTATCCAAAAGCCTAATAAAATTGAT
14154360 TTTTAAACATTTTTTAGTTATTTATTTATTATGTCATTCATATGCATGTGCATAACATGAGCTTT
131 TTTTAAACATTTTTTAGTTATTTATTTATTATGTCATTCATATGCATGTGCATAACATGAGCTTT
14154425 ATACCTGAGCTCTATCCCTTTAGGAAAAAGTAAAGTACCTATGCTTTCGTAGGGTTTTAATGCCT
196 ATACCTGAGCTCTATCCCTTTAGGAAAAAGTAAAGTACCTATGCTTTCGTAGGGTTTTAATGCCT
* * *
14154490 CCGTAGTGGCTAACGAAATACTTTCACTCAAATTGAA
261 CCGCAATGGCTAACAAAATACTTTCACTCAAATTGAA
* * *
14154527 TCCTTAAGTCAATATTTAGCGATAGTTTCATAGTTCTAGATGTTATGATAGTTTGGCGACTCTGC
1 TCCTTAAGTCAATATCTAGCGATAG-TTCATAGATCTAGATGTTATGATAGTTTGGCGACTCCGC
* * * *
14154592 TGGGGACATGCCGAGAGTTAAGCTAGCAAATAAATTTATATTATCCAAAAGCCTAATAAAATTGA
65 TGGGGACATACCGAAAGTCAAGCCAGCAAATAAATTTATATTATCCAAAAGCCTAATAAAATTGA
*
14154657 TTTTTAAACATTTTTTAGTTATTTATTTATTATGTCATTGATATGCATGTGCATAACATGAGCTT
130 TTTTTAAACATTTTTTAGTTATTTATTTATTATGTCATTCATATGCATGTGCATAACATGAGCTT
* *
14154722 TATACCTGAGCTCTGTCCCTTTAGGAAAAAGTAAAGTACTTATGCTTTCGT-GAGGTTTTAATGC
195 TATACCTGAGCTCTATCCCTTTAGGAAAAAGTAAAGTACCTATGCTTTCGTAG-GGTTTTAATGC
*
14154786 CTCCGCAATGGCTAGCAAAATACTTTCACTCAAATTGAA
259 CTCCGCAATGGCTAACAAAATACTTTCACTCAAATTGAA
14154825 TCCTT
1 TCCTT
14154830 TTCACTTGTA
Statistics
Matches: 284, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
297 23 0.08
298 261 0.92
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (297 bp):
TCCTTAAGTCAATATCTAGCGATAGTTCATAGATCTAGATGTTATGATAGTTTGGCGACTCCGCT
GGGGACATACCGAAAGTCAAGCCAGCAAATAAATTTATATTATCCAAAAGCCTAATAAAATTGAT
TTTTAAACATTTTTTAGTTATTTATTTATTATGTCATTCATATGCATGTGCATAACATGAGCTTT
ATACCTGAGCTCTATCCCTTTAGGAAAAAGTAAAGTACCTATGCTTTCGTAGGGTTTTAATGCCT
CCGCAATGGCTAACAAAATACTTTCACTCAAATTGAA
Found at i:14158853 original size:20 final size:20
Alignment explanation
Indices: 14158830--14158884 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
14158820 CAAGGTTATT
*
14158830 GCATTTGCATCATTAAGAAA
1 GCATTCGCATCATTAAGAAA
14158850 GCATTCGCATCATTAAGAAA
1 GCATTCGCATCATTAAGAAA
14158870 GCATTCGCATCATTA
1 GCATTCGCATCATTA
14158885 TCATACCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (20 bp):
GCATTCGCATCATTAAGAAA
Found at i:14159290 original size:17 final size:16
Alignment explanation
Indices: 14159216--14159380 Score: 71
Period size: 17 Copynumber: 9.9 Consensus size: 16
14159206 TGAATATTTG
*
14159216 AATTTTGTGAATCTTC
1 AATTTTGTGAATCTCC
* * ***
14159232 AATTCTTATGAACCAAA
1 AATT-TTGTGAATCTCC
*
14159249 AATTTTGAGAATCTCC
1 AATTTTGTGAATCTCC
*
14159265 GATTTTTGTGAATCTCC
1 -AATTTTGTGAATCTCC
* **
14159282 AATTCTTGTGAATATGA
1 AATT-TTGTGAATCTCC
** *
14159299 AGATTTTACGAATCTCT
1 A-ATTTTGTGAATCTCC
*
14159316 AATTTT-TACGAATCTCT
1 AATTTTGT--GAATCTCC
* **
14159333 AATTTTGCGAATCTGAA
1 AATTTTGTGAATCT-CC
* *
14159350 AATCTTGTGCATCTCC
1 AATTTTGTGAATCTCC
14159366 AATTTTTGTGAATCT
1 AA-TTTTGTGAATCT
14159381 TATAAATCTC
Statistics
Matches: 107, Mismatches: 33, Indels: 17
0.68 0.21 0.11
Matches are distributed among these distances:
16 26 0.24
17 78 0.73
18 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
AATTTTGTGAATCTCC
Found at i:14159338 original size:16 final size:16
Alignment explanation
Indices: 14159301--14159346 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 16
14159291 GAATATGAAG
14159301 ATTTTACGAATCTCTA
1 ATTTTACGAATCTCTA
14159317 ATTTTTACGAATCTCTA
1 A-TTTTACGAATCTCTA
*
14159334 ATTTTGCGAATCT
1 ATTTTACGAATCT
14159347 GAAAATCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (16 bp):
ATTTTACGAATCTCTA
Found at i:14159379 original size:50 final size:51
Alignment explanation
Indices: 14159257--14159380 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 51
14159247 AAAATTTTGA
* * * *
14159257 GAATCTCCGATTTTTGTGAATCTCCAATTCTTGTGAATATGAAGATTTTAC
1 GAATCTCCAATTTTTGTGAATCTCCAATTCTTGCGAATATGAAAATCTTAC
* ** * * **
14159308 GAATCTCTAATTTTTACGAATCTCTAATT-TTGCGAATCTGAAAATCTTGT
1 GAATCTCCAATTTTTGTGAATCTCCAATTCTTGCGAATATGAAAATCTTAC
*
14159358 GCATCTCCAATTTTTGTGAATCT
1 GAATCTCCAATTTTTGTGAATCT
14159381 TATAAATCTC
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
50 34 0.59
51 24 0.41
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (51 bp):
GAATCTCCAATTTTTGTGAATCTCCAATTCTTGCGAATATGAAAATCTTAC
Found at i:14159858 original size:172 final size:172
Alignment explanation
Indices: 14159563--14160227 Score: 655
Period size: 172 Copynumber: 3.9 Consensus size: 172
14159553 TCATGCTTTG
* * * * **
14159563 GACTTAGTCCAAGTCGA-TCATTTTAGGCTTCGATTTAATCCAGGTCATTTTATTTTCAGATTTC
1 GACTTAGTCCAAGTC-ATTCATTTCAGACTTTGATTCAATCCAGGTCATTTTATTTTTGGATTTC
* * * * * * * * * *
14159627 AACATATGCCAAATCCTTCTTCGACCTAGTCCAAGTCATTCATTTCAGATTTTGGTTCAATCCAA
65 AGCATATGCTAGATCCTTTTTTGGCTTAGTCCAAGTCATTCATTTTAGACTTCGGTTCAATCCAA
* *
14159692 GTCATTTTATTTTTGGATTTCAACATATGCCGGATCCTTTTTC
130 GTCATTTTATTTTTGGATTTCAACATATGCCAGATCCTTCTTC
* *
14159735 GACTTAGTCCAAGTCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGATTTCA
1 GACTTAGTCCAAGTCATTCATTTCAGACTTTGATTCAATCCAGGTCATTTTATTTTTGGATTTCA
* * *
14159800 GCATATGCTAGATCTTTTTTTGGCTTAGTCCAAGTCATTCGTTTTAGACTTCGGTTCAATCCAGG
66 GCATATGCTAGATCCTTTTTTGGCTTAGTCCAAGTCATTCATTTTAGACTTCGGTTCAATCCAAG
*
14159865 TCAGTTTATTTTTGGATTTCAACATATGCCAGAT-CTCTCTTC
131 TCATTTTATTTTTGGATTTCAACATATGCCAGATCCT-TCTTC
* * * * * * * * * * *
14159907 GGCATAGTCTAAGTTATTCGTTTCA-AATTTCAGTTCAATCCAAGTCATTCTATTTTTGAATTTT
1 GACTTAGTCCAAGTCATTCATTTCAGACTTTGA-TTCAATCCAGGTCATTTTATTTTTGGATTTC
* * * * * *
14159971 GGTATATGTTAGATCTTTTTTTGGCTTAGTCTGAA-TCATTCATTTTAGACTTTGGTTCAATCCA
65 AGCATATGCTAGATCCTTTTTTGGCTTAGTC-CAAGTCATTCATTTTAGACTTCGGTTCAATCCA
* * ** *
14160035 AGTCATTCTATTTTTAGATTTCAGTATATGGCAGATCCTTCTTC
129 AGTCATTTTATTTTTGGATTTCAACATATGCCAGATCCTTCTTC
* * * *
14160079 -AGCTTAGTCC-AGATTATTCATTTCAGGCTTTGATTCAGTCCAGGTCATTTTGTTTTTGGATTT
1 GA-CTTAGTCCAAG-TCATTCATTTCAGACTTTGATTCAATCCAGGTCATTTTATTTTTGGATTT
* * * * ** * * *
14160142 C-GACATATGCTAGATCCTTTTTTAGTTTAGTCTAAGTTAATT-AAGTTAGACTTCGATCCCATC
64 CAG-CATATGCTAGATCCTTTTTTGGCTTAGTCCAAG-TCATTCATTTTAGACTTCGGTTCAATC
14160205 CAAGTCATTTTGA-TTTTGGATTT
127 CAAGTCATTTT-ATTTTTGGATTT
14160228 TGACCTATGC
Statistics
Matches: 405, Mismatches: 76, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
171 12 0.03
172 380 0.94
173 13 0.03
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (172 bp):
GACTTAGTCCAAGTCATTCATTTCAGACTTTGATTCAATCCAGGTCATTTTATTTTTGGATTTCA
GCATATGCTAGATCCTTTTTTGGCTTAGTCCAAGTCATTCATTTTAGACTTCGGTTCAATCCAAG
TCATTTTATTTTTGGATTTCAACATATGCCAGATCCTTCTTC
Found at i:14160022 original size:258 final size:258
Alignment explanation
Indices: 14159558--14160160 Score: 721
Period size: 258 Copynumber: 2.3 Consensus size: 258
14159548 TGAAGTCATG
* **
14159558 CTTTGGACTTAGTCCAAGTCGA-TCATTTTAGGCTTCGATTTAATCCAGGTCATTTTATTTTCAG
1 CTTTGG-CTTAGTCCAAGTC-ATTCATTTTAGGCTTCGATTCAATCCAGGTCATTTTATTTTTGG
* * * **
14159622 ATTTCAACATATGCCAAATCCTTCTTCGACCTAGTCCAAGTCATTCATTTCAGATTTTGGTTCAA
64 ATTTCAACATATGCCAGATCCTTCTTCGACATAGTCCAAGTCATTCATTTCAAATTTCAGTTCAA
* * *
14159687 TCCAAGTCATTTTATTTTTGGATTTCAACATATGCCGGATCCTTTTTCGACTTAGTCCAAGTCAT
129 TCCAAGTCATTCTATTTTTGAATTTCAACATATGCCAGATCCTTTTTCGACTTAGTCCAAGTCAT
* * * *
14159752 TCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGATTTCAGCATAT-GCTAGATCTT
194 TCATTTTAGACTTTGGTTCAATCCAAGTCATTCTATTTTTAGATTTCAGCATATGGC-AGATCCT
14159816 T
258 T
* * * * *
14159817 TTTTGGCTTAGTCCAAGTCATTCGTTTTAGACTTCGGTTCAATCCAGGTCAGTTTATTTTTGGAT
1 CTTTGGCTTAGTCCAAGTCATTCATTTTAGGCTTCGATTCAATCCAGGTCATTTTATTTTTGGAT
* * * *
14159882 TTCAACATATGCCAGAT-CTCTCTTCGGCATAGTCTAAGTTATTCGTTTCAAATTTCAGTTCAAT
66 TTCAACATATGCCAGATCCT-TCTTCGACATAGTCCAAGTCATTCATTTCAAATTTCAGTTCAAT
**** ** * * * *
14159946 CCAAGTCATTCTATTTTTGAATTTTGGTATATGTTAGATCTTTTTTTGGCTTAGTCTGAA-TCAT
130 CCAAGTCATTCTATTTTTGAATTTCAACATATGCCAGATCCTTTTTCGACTTAGTC-CAAGTCAT
*
14160010 TCATTTTAGACTTTGGTTCAATCCAAGTCATTCTATTTTTAGATTTCAGTATATGGCAGATCCTT
194 TCATTTTAGACTTTGGTTCAATCCAAGTCATTCTATTTTTAGATTTCAGCATATGGCAGATCCTT
** * * * * *
14160075 CTTCAGCTTAGTCC-AGATTATTCATTTCAGGCTTTGATTCAGTCCAGGTCATTTTGTTTTTGGA
1 CTTTGGCTTAGTCCAAG-TCATTCATTTTAGGCTTCGATTCAATCCAGGTCATTTTATTTTTGGA
* *
14160139 TTTCGACATATGCTAGATCCTT
65 TTTCAACATATGCCAGATCCTT
14160161 TTTTAGTTTA
Statistics
Matches: 289, Mismatches: 49, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
257 5 0.02
258 273 0.94
259 11 0.04
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (258 bp):
CTTTGGCTTAGTCCAAGTCATTCATTTTAGGCTTCGATTCAATCCAGGTCATTTTATTTTTGGAT
TTCAACATATGCCAGATCCTTCTTCGACATAGTCCAAGTCATTCATTTCAAATTTCAGTTCAATC
CAAGTCATTCTATTTTTGAATTTCAACATATGCCAGATCCTTTTTCGACTTAGTCCAAGTCATTC
ATTTTAGACTTTGGTTCAATCCAAGTCATTCTATTTTTAGATTTCAGCATATGGCAGATCCTT
Found at i:14160172 original size:86 final size:86
Alignment explanation
Indices: 14159559--14160178 Score: 584
Period size: 86 Copynumber: 7.2 Consensus size: 86
14159549 GAAGTCATGC
* * * * **
14159559 TTTGGACTTAGTCCAAGTCGA-TCATTTTAGGCTTCGATTTAATCCAGGTCATTTTATTTTCAGA
1 TTTGG-CTTAGTCCAAGTC-ATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGA
* *
14159623 TTTCAACATATGCCAAATCCTTC
64 TTTCAACATATGCCAGATCCTTT
* * * * * *
14159646 TTCGACCTAGTCCAAGTCATTCATTTCAGATTTTGGTTCAATCCAAGTCATTTTATTTTTGGATT
1 TTTGGCTTAGTCCAAGTCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGATT
*
14159711 TCAACATATGCCGGATCCTTT
66 TCAACATATGCCAGATCCTTT
* *
14159732 TTCGACTTAGTCCAAGTCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGATT
1 TTTGGCTTAGTCCAAGTCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGATT
* * *
14159797 TCAGCATATGCTAGATCTTTT
66 TCAACATATGCCAGATCCTTT
* * *
14159818 TTTGGCTTAGTCCAAGTCATTCGTTTTAGACTTCGGTTCAATCCAGGTCAGTTTATTTTTGGATT
1 TTTGGCTTAGTCCAAGTCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGATT
*
14159883 TCAACATATGCCAGAT-CTCTC
66 TCAACATATGCCAGATCCT-TT
* * * * * * * * * * *
14159904 TTCGGCATAGTCTAAGTTATTCGTTTCA-AATTTCAGTTCAATCCAAGTCATTCTATTTTTGAAT
1 TTTGGCTTAGTCCAAGTCATTCATTTTAGACTTT-GGTTCAATCCAGGTCATTTTATTTTTGGAT
**** ** *
14159968 TTTGGTATATGTTAGATCTTTT
65 TTCAACATATGCCAGATCCTTT
* * * *
14159990 TTTGGCTTAGTCTGAA-TCATTCATTTTAGACTTTGGTTCAATCCAAGTCATTCTATTTTTAGAT
1 TTTGGCTTAGTC-CAAGTCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGAT
** * *
14160054 TTCAGTATATGGCAGATCCTTC
65 TTCAACATATGCCAGATCCTTT
** * * * * * *
14160076 TTCAGCTTAGTCC-AGATTATTCATTTCAGGCTTTGATTCAGTCCAGGTCATTTTGTTTTTGGAT
1 TTTGGCTTAGTCCAAG-TCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGAT
* *
14160140 TTCGACATATGCTAGATCCTTT
65 TTCAACATATGCCAGATCCTTT
* * *
14160162 TTTAGTTTAGTCTAAGT
1 TTTGGCTTAGTCCAAGT
14160179 TAATTAAGTT
Statistics
Matches: 435, Mismatches: 89, Indels: 19
0.80 0.16 0.03
Matches are distributed among these distances:
84 1 0.00
85 5 0.01
86 417 0.96
87 12 0.03
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (86 bp):
TTTGGCTTAGTCCAAGTCATTCATTTTAGACTTTGGTTCAATCCAGGTCATTTTATTTTTGGATT
TCAACATATGCCAGATCCTTT
Found at i:14161628 original size:21 final size:20
Alignment explanation
Indices: 14161594--14161633 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14161584 TCTGGTATTG
* *
14161594 CATTTTTTTTTTTAGTTTTAA
1 CATTTATTTATTTA-TTTTAA
14161615 CATTTATTTATTTATTTTA
1 CATTTATTTATTTATTTTA
14161634 TTTTCACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
CATTTATTTATTTATTTTAA
Found at i:14161854 original size:16 final size:16
Alignment explanation
Indices: 14161833--14161869 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14161823 AGTATCAATT
14161833 TTTTTTTAAAATAAA-A
1 TTTTTTTAAAA-AAATA
14161849 TTTTTTTAAAAAAATA
1 TTTTTTTAAAAAAATA
14161865 TTTTT
1 TTTTT
14161870 GAGAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTTTAAAAAAATA
Found at i:14161968 original size:119 final size:119
Alignment explanation
Indices: 14161736--14162241 Score: 542
Period size: 120 Copynumber: 4.2 Consensus size: 119
14161726 TAAAAATTTC
* * * * * * *
14161736 AAAAAGACATTTTTAAGGAACAGTTCAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAG
1 AAAAAG-CATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAAA
* * * * **
14161801 GTATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTTTTTAAAATAAAATTTTTTTAA
65 GTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA--TTTAAAA
* **
14161858 AAAAA-TATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAGGAA-
1 AAAAAGCATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAG
* * *
14161921 CATTTCTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAAATTAAAAA
66 TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAATTTAAAA
* * *
14161975 AAAAAGCA-TTTTGAGAAAAAGTTGAAAGA-ATTATATTTTCCTTGAAAATATAATTTT-AAAAA
1 AAAAAGCATTTTTGAGAAAAAGTTGAAA-ATATCA-ATTTTTCTTGAAAATAAAATTTTCAAAAA
*
14162037 AATATATGTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAAAA
64 AGTAT-T-TTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAAAA
* * *
14162095 AAAAAGCATTTTT-AGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATATAATTTTCAAAAAA
1 AAAAAGCATTTTTGAGAAAAAGTTGAAAATATCAATTTTTC-TTGAAAATAAAATTTTC-AAAAA
* * * **
14162158 AGTATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAA
64 AGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAAAA
* * * * *
14162214 AAAATGAATTTTTAAGGAAATGTTGAAA
1 AAAAAGCATTTTTGAGAAAAAGTTGAAA
14162242 GTATTGATTT
Statistics
Matches: 329, Mismatches: 41, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
117 35 0.11
118 33 0.10
119 110 0.33
120 128 0.39
121 18 0.05
122 5 0.02
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (119 bp):
AAAAAGCATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAG
TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAAAA
Found at i:14162150 original size:18 final size:19
Alignment explanation
Indices: 14162116--14162151 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14162106 TTAGGAAAAG
*
14162116 TTGAAAGTATCAATTTTCT
1 TTGAAAATATCAATTTTCT
14162135 TTGAAAATAT-AATTTTC
1 TTGAAAATATCAATTTTC
14162152 AAAAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (19 bp):
TTGAAAATATCAATTTTCT
Found at i:14162252 original size:60 final size:59
Alignment explanation
Indices: 14161721--14162245 Score: 524
Period size: 59 Copynumber: 8.8 Consensus size: 59
14161711 CAAAAAAAAT
* * *
14161721 AAAAGTAAAAATTTC-AAAAAGACATTTTTAAGGAACAGTTCAAAGTATCAATTTTTCTTG
1 AAAA-TAAAATTTTCAAAAAAGA-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * * * * *
14161781 AAAATAAAAATTTCAAAAAGGTATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTTTTT
1 AAAATAAAATTTTCAAAAAAGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * *
14161840 AAAATAAAATTTTTTTAAAAAA-ATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTG
1 AAAATAAAA--TTTTCAAAAAAGA-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
** * *
14161901 AAAATAAAATTTTCAAGGAA-CATTTCTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTTG
1 AAAATAAAATTTTCAAAAAAGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTG
*** * * * * * *
14161959 AAAATAAAATTAAAAAAAAAAGCA-TTTTGAGAAAAAGTTGAAAGAATTATATTTTCCTTG
1 AAAATAAAATT-TTCAAAAAAGAATTTTTAAGGAAAAGTTGAAAGTATCA-ATTTTTCTTG
* * * *
14162019 AAAATATAATTTTAAAAAAATATATGTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTTCAAAAAAGA-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
** *
14162079 AAAATAAAATTTAAAAAAAAAGCATTTTT-AGGAAAAGTTGAAAGTATCAA-TTTTCTTTG
1 AAAATAAAATTT-TCAAAAAAGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTG
* * * * *
14162138 AAAATATAATTTTCAAAAAAAGTATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTTC-AAAAAAGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
*
14162198 AAAATAAAATTTTCAAAAAATGAATTTTTAAGGAAATGTTGAAAGTAT
1 AAAATAAAATTTTCAAAAAA-GAATTTTTAAGGAAAAGTTGAAAGTAT
14162246 TGATTTTCAT
Statistics
Matches: 385, Mismatches: 63, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
57 5 0.01
58 43 0.11
59 144 0.37
60 108 0.28
61 85 0.22
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (59 bp):
AAAATAAAATTTTCAAAAAAGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:14162989 original size:28 final size:28
Alignment explanation
Indices: 14162948--14163004 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14162938 ATTTTTGCAT
**
14162948 TGTAAGTTTCGGTTAGTAGTTTAATTTA
1 TGTAAGTTTCGGTTAGTAAATTAATTTA
* *
14162976 TGTAAGTTTTGGTTTGTAAATTAATTTA
1 TGTAAGTTTCGGTTAGTAAATTAATTTA
14163004 T
1 T
14163005 TTAATTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (28 bp):
TGTAAGTTTCGGTTAGTAAATTAATTTA
Found at i:14164599 original size:34 final size:33
Alignment explanation
Indices: 14164508--14164600 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 33
14164498 CCATAAGTTT
* *
14164508 TATAACTTTTTAGAAATTCATTTTGAAAAAGATA
1 TATAACTTTTTGGAAATT-ATTTTCAAAAAGATA
* * * *
14164542 TATAACTTATTGGCAATGGATTTTCAAAAAGTTA
1 TATAACTTTTTGGAAAT-TATTTTCAAAAAGATA
14164576 TA-ATACTTTTTGGAAATCTATTTTC
1 TATA-ACTTTTTGGAAAT-TATTTTC
14164601 CTAAATGCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
33 1 0.02
34 46 0.98
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (33 bp):
TATAACTTTTTGGAAATTATTTTCAAAAAGATA
Found at i:14165287 original size:669 final size:673
Alignment explanation
Indices: 14164086--14165411 Score: 2132
Period size: 670 Copynumber: 2.0 Consensus size: 673
14164076 TTAAAAGGGA
* * *
14164086 AATTGTTTCACTGTTAACAGAGTTTTTAAACTTCAAAGTTAATAAGATCAATATGGTGCTGCATT
1 AATTATTTCACTGCTAACAGAGTTTTTAAACTTCAAAGTTAATAAGATCAATATGGTGCTACATT
*
14164151 CTTCTTATAGTATTTTAAAAAATAATAATTTAATTTTAAAATAAAATATATATCAATTTTTTAAT
66 CTCCTTATAGTATTTTAAAAAATAATAATTTAATTTTAAAATAAAATATATATCAATTTTTTAAT
14164216 TCTATTTTTAAATAAAAAATTAGAGTGAAAAAATACCAAATATTACCTTATAATAAAATATTATA
131 TCTATTTTTAAATAAAAAATTAGAGTGAAAAAATACCAAATATTACCTTATAATAAAATATTATA
14164281 AATAAAAATACTATTTACACAAAGTTTTGATCACATCACCTCCGTATGCCAAACATTGTCAGCGT
196 AATAAAAATACTATTTACACAAAGTTTTGATCACATCACCTCCGTATGCCAAACATTGTCAGCGT
14164346 CCTCGGTGTTGCCATGAAAAATAATTTTTGTAATTAAGAAGAACTAAATGCACTACAACTTTTGC
261 CCTCGGTGTTGCCATGAAAAATAATTTTTGTAATTAAGAAGAACTAAATGCACTACAACTTTTGC
* * * *
14164411 TTTCCTATCCCACCTTTTTTCTTAAAAAATTTTTTATAAATAAAATTATTTAAATACTCTTCTCA
326 TTTCCTATCCCACATTTTTTCATAAAAAAATTTTTATAAACAAAATTATTTAAATACTCTTCTCA
* * * **
14164476 CAAGTTTTTGAATATTCGTATCCCATAAGTTTTATAACTTTTTAGAAATTCATTTTGAAAAAGAT
391 CAAGTTTTTGAATATCCATATCCCATAAGTTTTATAACATTTTAGAAATTCATTTCAAAAAAGAT
*
14164541 ATATAACTTATTGGCAATGGATTTTCAAAAAGTTATAATACTTTTTGGAAATCTATTTTCCTAAA
456 ATATAACTTATTGGAAATGGATTTTCAAAAAGTTATAATACTTTTTGGAAATCTATTTTCCTAAA
*
14164606 TGCATAGAGTCAAATGTTATGAA-AATTAAAAATAAGAGAATTTTGTTAAAATTTTTTATAAATT
521 TGCATAGAGTCAAAAGTTATGAACAATTAAAAATAAGAGAATTTTGTTAAAATTTTTTATAAATT
*
14164670 AATGTAATAAAAAATGTTATTCTTAGAAAAATAATAAATTTTAAAATTTATAAAAAAGTTACTTT
586 AATATAATAAAAAATGTTATTCTTAGAAAAATAATAAATTTTAAAATTTATAAAAAAGTTACTTT
14164735 TAATATTAATTCTAGATATTAAT
651 TAATATTAATTCTAGATATTAAT
* *
14164758 AATTATTTCACTGCTAATAGAGTTTTTAAACTTCAAAGTTAATAAGATCAA-ATGGTGTTACATT
1 AATTATTTCACTGCTAACAGAGTTTTTAAACTTCAAAGTTAATAAGATCAATATGGTGCTACATT
*
14164822 CTCCTTATAGTATATTTAAAAAATAA-AATTTTAA-TTTAAAA-ATAATATATATCAATTTTTTA
66 CTCCTTATAGTAT-TTTAAAAAATAATAA-TTTAATTTTAAAATAAAATATATATCAATTTTTTA
* * *
14164884 ATTCTATTTTTAAAATAAAAAAATTAGAGTG-AAAAATACCAACTATTATCTTATAATAAAATTT
129 ATTCTATTTTT-AAAT-AAAAAATTAGAGTGAAAAAATACCAAATATTACCTTATAATAAAATAT
14164948 TATAAATAAAAATACTATTTACACAAA-TTTCTGATCACATCACCTCCGTATGCCAAACATTGTC
192 TATAAATAAAAATACTATTTACACAAAGTTT-TGATCACATCACCTCCGTATGCCAAACATTGTC
* *
14165012 AGCGTCCTCGGTGTTGCCATG-AAAATAATTTTTGTGATTGAA-AAGAACTAAATGCACTACAAT
256 AGCGTCCTCGGTGTTGCCATGAAAAATAATTTTTGTAATT-AAGAAGAACTAAATGCACTACAAC
* *
14165075 TTTTGTTTTCCTATCCCACATTTTTT-ATAAAAAAATTTTTATAAGCAAAATTATTTAAATACTC
320 TTTTGCTTTCCTATCCCACATTTTTTCATAAAAAAATTTTTATAAACAAAATTATTTAAATACTC
** * * *
14165139 TTCTTTCAAGTTTTTGAATATCCATATTCGATAAGTTTTATAACATTTTATAAATTCATTTCAAA
385 TTCTCACAAGTTTTTGAATATCCATATCCCATAAGTTTTATAACATTTTAGAAATTCATTTCAAA
*** *
14165204 AAAGATATATAACTTATTGGAAATGGATTTTTTGAAAGTTATAATATTTTTTGGAAATCTATTTT
450 AAAGATATATAACTTATTGGAAATGGATTTTCAAAAAGTTATAATACTTTTTGGAAATCTATTTT
** * * *
14165269 TGTAAGTGCATGGAGTCAAAAGTTATGAACAATTACAAATAAGAGAATTTTGTTAAAATTTTTTA
515 CCTAAATGCATAGAGTCAAAAGTTATGAACAATTAAAAATAAGAGAATTTTGTTAAAATTTTTTA
* *
14165334 TGAATTAATATAATAAAAAATGTTATTCTTAGAAAAATCATAAATTTTAAAATTTATAAAAAAGT
580 TAAATTAATATAATAAAAAATGTTATTCTTAGAAAAATAATAAATTTTAAAATTTATAAAAAAGT
* *
14165399 TTCTTTTACTATT
645 TACTTTTAATATT
14165412 TTGATTTTAA
Statistics
Matches: 603, Mismatches: 44, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
669 173 0.29
670 202 0.33
671 149 0.25
672 79 0.13
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.40
Consensus pattern (673 bp):
AATTATTTCACTGCTAACAGAGTTTTTAAACTTCAAAGTTAATAAGATCAATATGGTGCTACATT
CTCCTTATAGTATTTTAAAAAATAATAATTTAATTTTAAAATAAAATATATATCAATTTTTTAAT
TCTATTTTTAAATAAAAAATTAGAGTGAAAAAATACCAAATATTACCTTATAATAAAATATTATA
AATAAAAATACTATTTACACAAAGTTTTGATCACATCACCTCCGTATGCCAAACATTGTCAGCGT
CCTCGGTGTTGCCATGAAAAATAATTTTTGTAATTAAGAAGAACTAAATGCACTACAACTTTTGC
TTTCCTATCCCACATTTTTTCATAAAAAAATTTTTATAAACAAAATTATTTAAATACTCTTCTCA
CAAGTTTTTGAATATCCATATCCCATAAGTTTTATAACATTTTAGAAATTCATTTCAAAAAAGAT
ATATAACTTATTGGAAATGGATTTTCAAAAAGTTATAATACTTTTTGGAAATCTATTTTCCTAAA
TGCATAGAGTCAAAAGTTATGAACAATTAAAAATAAGAGAATTTTGTTAAAATTTTTTATAAATT
AATATAATAAAAAATGTTATTCTTAGAAAAATAATAAATTTTAAAATTTATAAAAAAGTTACTTT
TAATATTAATTCTAGATATTAAT
Found at i:14167836 original size:3 final size:3
Alignment explanation
Indices: 14167828--14167876 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
14167818 TCATTTTTAA
14167828 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14167876 T
1 T
14167877 TTCATTTAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14167923 original size:25 final size:26
Alignment explanation
Indices: 14167890--14167941 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
14167880 ATTTAGGATT
14167890 AATTAAATTAATAA-AAAAATTACAAA
1 AATTAAATTAATAATAAAAATTA-AAA
* *
14167916 AATT-AATTATTAATTAAAATTAAAA
1 AATTAAATTAATAATAAAAATTAAAA
14167941 A
1 A
14167942 TAAATTGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
AATTAAATTAATAATAAAAATTAAAA
Found at i:14177372 original size:150 final size:148
Alignment explanation
Indices: 14177114--14177397 Score: 428
Period size: 150 Copynumber: 1.9 Consensus size: 148
14177104 TTTAAGGTCC
* * **
14177114 AGGGTAAAAAGTAAATAAAGTTTCAGTTAGAATCTTAAGTTAAAAAAAAAAAAAATAGGATTCAA
1 AGGGTAAAAAGTAAATAAAGCTTCAGTTAGAATCTTAAGTAAAAAAAAAAAAAAATAAAATTCAA
*
14177179 GAAAGTAAAATGCCAAAGTTGAAGATAGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACATTCA
66 GAAAGTAAAATGCCAAAGTTGAAGATAGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACATGCA
14177244 CCTTAGAGAGAAGGATCT
131 CCTTAGAGAGAAGGATCT
*
14177262 AGGGTAAAAAGTGAATAAAGCTTCAGTTAGAATCTTAAGTAAAAGAAAAAAAAAAGATAAAATTC
1 AGGGTAAAAAGTAAATAAAGCTTCAGTTAGAATCTTAAGTAAAA-AAAAAAAAAA-ATAAAATTC
* * * *
14177327 AAGAAA-TGAGAATGCTAAAGTTGAAG-TCAGATGTTTCCAAGAAAGAGCAAAGAAAGAAAGGCA
64 AAGAAAGT-AAAATGCCAAAGTTGAAGAT-AGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACA
14177390 TGCACCTT
127 TGCACCTT
14177398 GAAGATAAGA
Statistics
Matches: 122, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
148 41 0.34
149 12 0.10
150 69 0.57
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.20
Consensus pattern (148 bp):
AGGGTAAAAAGTAAATAAAGCTTCAGTTAGAATCTTAAGTAAAAAAAAAAAAAAATAAAATTCAA
GAAAGTAAAATGCCAAAGTTGAAGATAGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACATGCA
CCTTAGAGAGAAGGATCT
Found at i:14177422 original size:150 final size:148
Alignment explanation
Indices: 14177118--14177445 Score: 412
Period size: 150 Copynumber: 2.2 Consensus size: 148
14177108 AGGTCCAGGG
* * * **
14177118 TAAAAAGTAAATAAAGTTTCAGTTAGAATCTTAAGTTAAAAAAAAAAAAAATAGGATTCAAGAAA
1 TAAAAAGTGAATAAAGCTTCAGTTAGAATCTTAAGTAAAAAAAAAAAAAAATAAAATTCAAGAAA
*
14177183 GTAAAATGCCAAAGTTGAAGATAGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACATTCACCTT
66 GTAAAATGCCAAAGTTGAAGATAGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACATGCACCTT
* * **
14177248 AGAGAGAAGGATCTAGGG
131 AGAGAGAAGAATCGAGAA
14177266 TAAAAAGTGAATAAAGCTTCAGTTAGAATCTTAAGTAAAAGAAAAAAAAAAGATAAAATTCAAGA
1 TAAAAAGTGAATAAAGCTTCAGTTAGAATCTTAAGTAAAA-AAAAAAAAAA-ATAAAATTCAAGA
* * * *
14177331 AA-TGAGAATGCTAAAGTTGAAG-TCAGATGTTTCCAAGAAAGAGCAAAGAAAGAAAGGCATGCA
64 AAGT-AAAATGCCAAAGTTGAAGAT-AGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACATGCA
*
14177394 CCTT-GAAGATAAGAATCCGA-AA
127 CCTTAG-AGAGAAGAAT-CGAGAA
* * *
14177416 TGAAAAGTGAATAAAACTTCAATTAGAATC
1 TAAAAAGTGAATAAAGCTTCAGTTAGAATC
14177446 CAAGCAAAAA
Statistics
Matches: 156, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
148 37 0.24
149 13 0.08
150 104 0.67
151 2 0.01
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (148 bp):
TAAAAAGTGAATAAAGCTTCAGTTAGAATCTTAAGTAAAAAAAAAAAAAAATAAAATTCAAGAAA
GTAAAATGCCAAAGTTGAAGATAGATGTTTCCAAGAAAGAGCAAAAAAAGAAAGACATGCACCTT
AGAGAGAAGAATCGAGAA
Found at i:14177563 original size:14 final size:14
Alignment explanation
Indices: 14177544--14177582 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14177534 AATGTTTTCT
14177544 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
* *
14177558 AAAAAATAACAAAG
1 AAAAAAAAACAAAA
*
14177572 AAAGAAAAACA
1 AAAAAAAAACA
14177583 CATGGCTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.85, C:0.08, G:0.05, T:0.03
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:14181499 original size:20 final size:20
Alignment explanation
Indices: 14181465--14181514 Score: 91
Period size: 21 Copynumber: 2.5 Consensus size: 20
14181455 CCCGAAATTA
14181465 ATAAATATTATTTTTTAAAT
1 ATAAATATTATTTTTTAAAT
14181485 ATAAAATATTATTTTTTAAAT
1 AT-AAATATTATTTTTTAAAT
14181506 ATAAATATT
1 ATAAATATT
14181515 TAAAAATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAAATATTATTTTTTAAAT
Found at i:14181523 original size:30 final size:30
Alignment explanation
Indices: 14181487--14181543 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14181477 TTTTAAATAT
* * *
14181487 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
14181517 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
14181544 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:14181891 original size:16 final size:16
Alignment explanation
Indices: 14181870--14181928 Score: 65
Period size: 15 Copynumber: 4.0 Consensus size: 16
14181860 AATTTTTATA
14181870 AAATATTTTATCGATG
1 AAATATTTTATCGATG
14181886 AAATATTTTAT---TG
1 AAATATTTTATCGATG
*
14181899 ATA-ATTTTATCGAT-
1 AAATATTTTATCGATG
*
14181913 AAATATTTTATTGATG
1 AAATATTTTATCGATG
14181929 GATTATCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
12 7 0.20
13 4 0.11
14 2 0.06
15 11 0.31
16 11 0.31
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (16 bp):
AAATATTTTATCGATG
Found at i:14181924 original size:27 final size:28
Alignment explanation
Indices: 14181874--14181927 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
14181864 TTTATAAAAT
14181874 ATTTTATCGATGAAATATTTTATTGATA
1 ATTTTATCGATGAAATATTTTATTGATA
14181902 ATTTTATCGAT-AAATATTTTATTGAT
1 ATTTTATCGATGAAATATTTTATTGAT
14181928 GGATTATCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (28 bp):
ATTTTATCGATGAAATATTTTATTGATA
Found at i:14192950 original size:19 final size:18
Alignment explanation
Indices: 14192903--14192955 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
14192893 AAAATCTAGG
*
14192903 AAAAATAGTAGCAAACAA
1 AAAAATAGGAGCAAACAA
14192921 AAAAGAGTAGGAGCAAACAA
1 AAAA-A-TAGGAGCAAACAA
*
14192941 AAAAACTAGGTGCAA
1 AAAAA-TAGGAGCAA
14192956 GAGCAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 10 0.33
20 16 0.53
ACGTcount: A:0.60, C:0.11, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAATAGGAGCAAACAA
Found at i:14194024 original size:3 final size:3
Alignment explanation
Indices: 14194016--14194044 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14194006 TCTATAAAAT
14194016 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14194045 GATTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14194139 original size:3 final size:3
Alignment explanation
Indices: 14194131--14194156 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14194121 AGAATAATTA
14194131 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14194157 CTTTTAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14199585 original size:14 final size:15
Alignment explanation
Indices: 14199563--14199596 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
14199553 GAATTAAAAG
*
14199563 GAAACAAAAGTG-AA
1 GAAAAAAAAGTGTAA
14199577 GAAAAAAAAGTGTAA
1 GAAAAAAAAGTGTAA
14199592 GAAAA
1 GAAAA
14199597 TGCAAAGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.09
Consensus pattern (15 bp):
GAAAAAAAAGTGTAA
Found at i:14212217 original size:3 final size:3
Alignment explanation
Indices: 14212209--14212241 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14212199 TTTTTAATCT
14212209 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14212242 GATTTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14212337 original size:3 final size:3
Alignment explanation
Indices: 14212329--14212354 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14212319 AGAATAATTA
14212329 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14212355 CTTTTAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14217786 original size:14 final size:16
Alignment explanation
Indices: 14217761--14217795 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
14217751 GAATTAAAAG
14217761 GAAAACAAAAGTG-AA
1 GAAAACAAAAGTGTAA
14217776 GAAAA-AAAAGTGTAA
1 GAAAACAAAAGTGTAA
14217791 GAAAA
1 GAAAA
14217796 TGCAAAGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.09
Consensus pattern (16 bp):
GAAAACAAAAGTGTAA
Found at i:14233157 original size:20 final size:20
Alignment explanation
Indices: 14233132--14233169 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14233122 TAAATAGTTT
14233132 TCTATGAATAAGGAGGAATC
1 TCTATGAATAAGGAGGAATC
14233152 TCTATGAATAAGGAGGAA
1 TCTATGAATAAGGAGGAA
14233170 ACTATTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (20 bp):
TCTATGAATAAGGAGGAATC
Found at i:14237030 original size:17 final size:17
Alignment explanation
Indices: 14237008--14237041 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14236998 CAAGAAAAGT
14237008 TAAGCAAAAC-AACAAAA
1 TAAGC-AAACGAACAAAA
14237025 TAAGCAAACGAACAAAA
1 TAAGCAAACGAACAAAA
14237042 CAAGAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.68, C:0.18, G:0.09, T:0.06
Consensus pattern (17 bp):
TAAGCAAACGAACAAAA
Found at i:14238980 original size:22 final size:22
Alignment explanation
Indices: 14238955--14239003 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
14238945 TTTTCTCACA
* *
14238955 AAAATT-AATGCATAGAAAGATC
1 AAAATTAAATGCACA-AAACATC
14238977 AAAATTAAATGCACAAAACATC
1 AAAATTAAATGCACAAAACATC
14238999 AAAAT
1 AAAAT
14239004 CATAATCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.20
Consensus pattern (22 bp):
AAAATTAAATGCACAAAACATC
Found at i:14239016 original size:22 final size:22
Alignment explanation
Indices: 14238974--14239017 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
14238964 GCATAGAAAG
* *
14238974 ATCAAAATTAAATGCACAAAAC
1 ATCAAAATCAAATCCACAAAAC
*
14238996 ATCAAAATCATAATCCAAAAAA
1 ATCAAAATCA-AATCCACAAAA
14239018 AAAAAAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.61, C:0.18, G:0.02, T:0.18
Consensus pattern (22 bp):
ATCAAAATCAAATCCACAAAAC
Found at i:14244987 original size:9 final size:10
Alignment explanation
Indices: 14244964--14244988 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14244954 CTCTATATAA
14244964 TTTTTTCTTC
1 TTTTTTCTTC
14244974 TTTTTTCTTC
1 TTTTTTCTTC
14244984 TTTTT
1 TTTTT
14244989 GGACACAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:14245059 original size:18 final size:18
Alignment explanation
Indices: 14245017--14245059 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14245007 CTTGCTTATT
14245017 TTCTTTTCCATTCTTTTA
1 TTCTTTTCCATTCTTTTA
* *
14245035 TTTTTTTCC-TTTTTTTCA
1 TTCTTTTCCATTCTTTT-A
14245053 TTCTTTT
1 TTCTTTT
14245060 TTCAAGCTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTTTCCATTCTTTTA
Found at i:14250425 original size:27 final size:27
Alignment explanation
Indices: 14250387--14250446 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
14250377 AAGTGCAAAT
* *
14250387 TAAGGAAATAGTCAATCAATCACCTAG
1 TAAGGAAATAGTCAACCAATCACATAG
* **
14250414 TAAGGAGATAGTGGACCAATCACATAG
1 TAAGGAAATAGTCAACCAATCACATAG
14250441 TAAGGA
1 TAAGGA
14250447 CAGAATATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (27 bp):
TAAGGAAATAGTCAACCAATCACATAG
Found at i:14253614 original size:2 final size:2
Alignment explanation
Indices: 14253609--14253639 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14253599 TTTTTTTCCT
14253609 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
14253640 TGGCCGAGTA
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:14254140 original size:10 final size:9
Alignment explanation
Indices: 14254112--14254155 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
14254102 ACATTAAATT
14254112 AAATAAT-A
1 AAATAATAA
14254120 AAATAAT--
1 AAATAATAA
14254127 AAATAATAGA
1 AAATAATA-A
14254137 AAATAATAA
1 AAATAATAA
14254146 AAAT-ATAA
1 AAATAATAA
14254154 AA
1 AA
14254156 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.21
8 13 0.39
9 5 0.15
10 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATAATAA
Found at i:14254302 original size:13 final size:13
Alignment explanation
Indices: 14254272--14254354 Score: 87
Period size: 13 Copynumber: 6.4 Consensus size: 13
14254262 TTGTAATTTT
*
14254272 CTAAAATCAAATC
1 CTAAAATGAAATC
* *
14254285 GTAAAATGAAATT
1 CTAAAATGAAATC
* *
14254298 CTAAAATAAAACC
1 CTAAAATGAAATC
14254311 CTAAAATGAAA-C
1 CTAAAATGAAATC
* *
14254323 CTTAAAGTGAAACC
1 C-TAAAATGAAATC
14254337 CTAAAATGAAATC
1 CTAAAATGAAATC
14254350 CTAAA
1 CTAAA
14254355 CCATAGGTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
12 2 0.04
13 53 0.93
14 2 0.04
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (13 bp):
CTAAAATGAAATC
Found at i:14257515 original size:20 final size:20
Alignment explanation
Indices: 14257487--14257528 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
14257477 ATAAAATTCT
*
14257487 TTGTAAAAT-TCTTTTTTTTG
1 TTGTAAAATGT-TTTTTTATG
*
14257507 TTGTGAAATGTTTTTTTATG
1 TTGTAAAATGTTTTTTTATG
14257527 TT
1 TT
14257529 AATATGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.64
Consensus pattern (20 bp):
TTGTAAAATGTTTTTTTATG
Found at i:14257887 original size:14 final size:14
Alignment explanation
Indices: 14257868--14257897 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14257858 AATCTAGATG
14257868 AACAGAGGAAATAT
1 AACAGAGGAAATAT
*
14257882 AACAGATGAAATAT
1 AACAGAGGAAATAT
14257896 AA
1 AA
14257898 TCTTTTGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.17
Consensus pattern (14 bp):
AACAGAGGAAATAT
Found at i:14259426 original size:20 final size:20
Alignment explanation
Indices: 14259354--14259426 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
14259344 AATACCTTAA
14259354 AGAAAAAAATGAAAGAAAAAAAG
1 AGAAAAAAA-G-AA-AAAAAAAG
*
14259377 TGGAAAAAAAGAAAAAAAAAG
1 -AGAAAAAAAGAAAAAAAAAG
* * * *
14259398 ACAATAAAAGATAATAAAAG
1 AGAAAAAAAGAAAAAAAAAG
14259418 AGAAAAAAA
1 AGAAAAAAA
14259427 TAAAGTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 22 0.54
21 8 0.20
22 2 0.05
23 1 0.02
24 8 0.20
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (20 bp):
AGAAAAAAAGAAAAAAAAAG
Found at i:14260686 original size:11 final size:11
Alignment explanation
Indices: 14260670--14260725 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
14260660 GAAGAAAATG
14260670 AAGAAAAAGGA
1 AAGAAAAAGGA
*
14260681 AAGAAAAGGGA
1 AAGAAAAAGGA
*
14260692 AAGAAAGAAAG-
1 AAGAAA-AAGGA
14260703 AAGAACAAAGG-
1 AAGAA-AAAGGA
14260714 AA-AAAAAGGA
1 AAGAAAAAGGA
14260724 AA
1 AA
14260726 ATAAAGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 5 0.13
10 4 0.11
11 26 0.68
12 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGGA
Found at i:14260721 original size:33 final size:33
Alignment explanation
Indices: 14260669--14260734 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14260659 TGAAGAAAAT
*
14260669 GAAGAAAAAGGAAAGAAAAGGGAAAGAAAGAAA
1 GAAGAAAAAGGAAAGAAAAGGAAAAGAAAGAAA
*
14260702 GAAGAACAAAGGAAA-AAAAGGAAAATAAAGAAA
1 GAAGAA-AAAGGAAAGAAAAGGAAAAGAAAGAAA
14260735 TAAAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.02
Consensus pattern (33 bp):
GAAGAAAAAGGAAAGAAAAGGAAAAGAAAGAAA
Found at i:14261653 original size:32 final size:32
Alignment explanation
Indices: 14261615--14261718 Score: 101
Period size: 32 Copynumber: 3.4 Consensus size: 32
14261605 TTGCACCTAG
14261615 GTTTTAAGCCCAGATTATCTAGCACCAATGAA
1 GTTTTAAGCCCAGATTATCTAGCACCAATGAA
* * *
14261647 GTTTTAAACCTA-ATATAGCTAGCACCAA--AA
1 GTTTTAAGCCCAGAT-TATCTAGCACCAATGAA
* * *
14261677 --TTTAAGCCCAGATTATCTGGCACTAATGAT
1 GTTTTAAGCCCAGATTATCTAGCACCAATGAA
*
14261707 GTTCTAAGCCCA
1 GTTTTAAGCCCA
14261719 ATTTAGCTGG
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
28 18 0.32
29 2 0.04
30 3 0.05
31 2 0.04
32 31 0.55
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (32 bp):
GTTTTAAGCCCAGATTATCTAGCACCAATGAA
Found at i:14261841 original size:21 final size:22
Alignment explanation
Indices: 14261817--14261912 Score: 61
Period size: 22 Copynumber: 4.1 Consensus size: 22
14261807 GCTAGCATGC
*
14261817 AAGCCTAGATTAG-TGGCACAT
1 AAGCCCAGATTAGCTGGCACAT
*
14261838 AAGCCCAGGTTAGCTGGCACCTAGGATTT
1 AAGCCCAGATTAGCTGGCA-C----A--T
*
14261867 AAGCCCAGATTA-ATAGGCACAT
1 AAGCCCAGATTAGCT-GGCACAT
* *
14261889 AAGCCCATATTAACTGGCACAT
1 AAGCCCAGATTAGCTGGCACAT
14261911 AA
1 AA
14261913 ACCTAGTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
21 11 0.19
22 26 0.44
23 2 0.03
24 1 0.02
27 1 0.02
28 2 0.03
29 16 0.27
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (22 bp):
AAGCCCAGATTAGCTGGCACAT
Found at i:14261891 original size:22 final size:22
Alignment explanation
Indices: 14261866--14261912 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
14261856 ACCTAGGATT
14261866 TAAGCCCAGATTAA-TAGGCACA
1 TAAGCCCAGATTAACT-GGCACA
*
14261888 TAAGCCCATATTAACTGGCACA
1 TAAGCCCAGATTAACTGGCACA
14261910 TAA
1 TAA
14261913 ACCTAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.21
Consensus pattern (22 bp):
TAAGCCCAGATTAACTGGCACA
Found at i:14264810 original size:34 final size:34
Alignment explanation
Indices: 14264711--14264821 Score: 95
Period size: 34 Copynumber: 3.2 Consensus size: 34
14264701 TTCACCCAAG
* * *
14264711 TTTTAAGCCTATTTTAGCTAATA-CTTATGCAAAGA
1 TTTTAAGCCTAGTTTAGCT-ATACCCTATG-AAAAA
* *
14264746 -TTTAAGCCTAGCTTAGCTA-GCACCTAATG-AAAA
1 TTTTAAGCCTAGTTTAGCTATAC-CCT-ATGAAAAA
14264779 TTTTAAGCCTAGTTTAGCTGATACCCTATGAAAAAA
1 TTTTAAGCCTAGTTTAGCT-ATACCCTATG-AAAAA
14264815 TTTTAAG
1 TTTTAAG
14264822 TCTAAATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
33 4 0.07
34 38 0.62
35 7 0.11
36 12 0.20
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (34 bp):
TTTTAAGCCTAGTTTAGCTATACCCTATGAAAAA
Found at i:14265127 original size:9 final size:9
Alignment explanation
Indices: 14265113--14265196 Score: 70
Period size: 8 Copynumber: 9.8 Consensus size: 9
14265103 GATCGTCATA
14265113 AAAAAAATC
1 AAAAAAATC
14265122 -AAAAAATC
1 AAAAAAATC
14265130 AAAAAAATC
1 AAAAAAATC
* *
14265139 AAAAACATTA
1 AAAAA-AATC
14265149 AAAAAAAT-
1 AAAAAAATC
*
14265157 TAAAAAA-C
1 AAAAAAATC
*
14265165 AAGAAAA-C
1 AAAAAAATC
* *
14265173 AAGAAAATA
1 AAAAAAATC
14265182 AAAAAAAT-
1 AAAAAAATC
14265190 AAAAAAA
1 AAAAAAA
14265197 AACAACATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
8 34 0.54
9 22 0.35
10 7 0.11
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:14265187 original size:8 final size:8
Alignment explanation
Indices: 14265113--14265211 Score: 65
Period size: 8 Copynumber: 11.9 Consensus size: 8
14265103 GATCGTCATA
14265113 AAAAAAAT
1 AAAAAAAT
*
14265121 CAAAAAAT
1 AAAAAAAT
14265129 CAAAAAAAT
1 -AAAAAAAT
*
14265138 CAAAAACATT
1 -AAAAA-AAT
14265148 AAAAAAAAT
1 -AAAAAAAT
* *
14265157 TAAAAAAC
1 AAAAAAAT
* *
14265165 AAGAAAAC
1 AAAAAAAT
*
14265173 AAGAAAAT
1 AAAAAAAT
14265181 AAAAAAAAT
1 -AAAAAAAT
14265190 AAAAAAA-
1 AAAAAAAT
* *
14265197 AACAACAT
1 AAAAAAAT
14265205 AAAAAAA
1 AAAAAAA
14265212 ATTAAGAGGT
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
7 5 0.07
8 38 0.53
9 22 0.31
10 7 0.10
ACGTcount: A:0.80, C:0.08, G:0.02, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:14265195 original size:24 final size:22
Alignment explanation
Indices: 14265159--14265212 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
14265149 AAAAAAATTA
* * *
14265159 AAAAACAAGAAAACAAGAAAAT
1 AAAAAAAAGAAAAAAAAAAAAT
*
14265181 AAAAAAAATAAAAAAAAACAACAT
1 AAAAAAAAGAAAAAAAAA-AA-AT
14265205 AAAAAAAA
1 AAAAAAAA
14265213 TTAAGAGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 14 0.54
23 2 0.08
24 10 0.38
ACGTcount: A:0.83, C:0.07, G:0.04, T:0.06
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAAAAAT
Found at i:14265197 original size:9 final size:9
Alignment explanation
Indices: 14265110--14265197 Score: 61
Period size: 9 Copynumber: 9.1 Consensus size: 9
14265100 CCTGATCGTC
14265110 ATAAAAAAA
1 ATAAAAAAA
*
14265119 AT-CAAAAA
1 ATAAAAAAA
*
14265127 ATCAAAAAA
1 ATAAAAAAA
*
14265136 ATCAAAAACA
1 AT-AAAAAAA
*
14265146 TTAAAAAAA
1 ATAAAAAAA
14265155 ATTAAAAAACAA
1 A-T-AAAAA-AA
*
14265167 GAAAACAAGAAA
1 -ATAA-AA-AAA
14265179 ATAAAAAAA
1 ATAAAAAAA
14265188 ATAAAAAAA
1 ATAAAAAAA
14265197 A
1 A
14265198 ACAACATAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
8 7 0.11
9 28 0.45
10 9 0.15
11 10 0.16
12 6 0.10
13 2 0.03
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:14265578 original size:27 final size:26
Alignment explanation
Indices: 14265555--14265642 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
14265545 TGAAAATTCC
14265555 AAATAAATATAAAAATATAAAAATATA
1 AAATAAATAT-AAAATATAAAAATATA
* *
14265582 AAATATATATAACATATAAAAAATCACTA
1 AAATAAATATAAAATAT-AAAAAT-A-TA
* * * *
14265611 AATTAATTATTAAATATAAAATGTATA
1 AAATAAATATAAAATATAAAA-ATATA
14265638 AAATA
1 AAATA
14265643 TTATTAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.12
27 21 0.44
28 6 0.12
29 15 0.31
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (26 bp):
AAATAAATATAAAATATAAAAATATA
Found at i:14265589 original size:9 final size:8
Alignment explanation
Indices: 14265559--14265603 Score: 63
Period size: 8 Copynumber: 5.4 Consensus size: 8
14265549 AATTCCAAAT
14265559 AAATATAA
1 AAATATAA
14265567 AAATATAA
1 AAATATAA
14265575 AAATATAA
1 AAATATAA
14265583 AATATATATA
1 AA-ATATA-A
*
14265593 ACATATAA
1 AAATATAA
14265601 AAA
1 AAA
14265604 ATCACTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 21 0.64
9 10 0.30
10 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (8 bp):
AAATATAA
Found at i:14270012 original size:576 final size:571
Alignment explanation
Indices: 14268925--14270073 Score: 1958
Period size: 576 Copynumber: 2.0 Consensus size: 571
14268915 CTAAACTTAG
14268925 TACAATGGATTTAATCTTGACTTATTATTAGTTTATGGATTCTAAAACAATTTGGTTTTACTTTT
1 TACAATGGATTTAATCTTGACTTATTATTAGTTTATGGATTCTAAAACAATTTGGTTTTACTTTT
* *
14268990 ATTTCAAATGTTATTAAATATCTTGTACTTTATTATACATTTGTTTTTTATTATTTGAAACCATA
66 ATTTCAAATGTTATTAAACATCTTATACTTTATTATACATTTGTTTTTTATTATTTGAAACCATA
*
14269055 TCAGATTACAATTATAAATAATTTAACATTAATGTTTATAATTCAATTTCAAAAAACAATTTTTA
131 TCAGATTACAATTATAAATAATTTAACATTAATATTTATAATTCAATTTCAAAAAACAATTTTTA
* *
14269120 CTGACACCTTAACATCTATATCAACACATTTTAATGTTAGAATATTTCAAGCTATATTGACAACT
196 CTGACACCTGAACATCTATATCAACACATTTTAATGTTAGAATATTTCAAACTATATTGACAACT
* *
14269185 ATTTATTGTCAATAAAATATAGCGCTAGATTGACTATCGATATAAGTAAAAACACATGGGTTATA
261 ATTTATTGTCAATAAAATATAGCACCAGATTGACTATCGATATAAGTAAAAACACATGGGTTATA
14269250 CTAACAAGCATCAACCATTAGTAAAAATAATAATGTTCAATGTACTATCAGTATAGGTGAAATAC
326 CTAACAAGCATCAACCATTAGTAAAAATAATAATGTTCAATGTACTATCAGTATAGGTGAAATAC
* *
14269315 ACAAAGAAATACTGATGGACACAGACAGTCAATAATAGTATAATGTCAGATAATTTGTTACTATA
391 ACAAAGAAATACTGATGGACACAGACAATCAATAATAGTATAATGTCAGACAATTTGTTACTATA
*
14269380 TGTTAAACAAATCAAAACATACAAGTCTATACCAACGAAAGATAATTGTTAGTAAAAGATTTAAT
456 TGTTAAACAAATCAAAACATACAAGTCTATACCAACGAAAGATAATCGTTAGTAAAAGATTTAAT
* *
14269445 GATGGAAAACACAACAAATGCTACACCAACAACGATACATATGTTTGTAGA
521 GATGGAAAACACAACAAATGCTACACCAACAACGATACATATGCTTATAGA
14269496 TACAATGGATTTAATCTTGACTTATTATTAGTTTATGGATTCTAAAACAATTTGGTTTTACTTTT
1 TACAATGGATTTAATCTTGACTTATTATTAGTTTATGGATTCTAAAACAATTTGGTTTTACTTTT
14269561 ATTTCAAATGTTATTAAACATCTTATACTTTATTATACATTTGTTTTTTATTATTTGAAACCATA
66 ATTTCAAATGTTATTAAACATCTTATACTTTATTATACATTTGTTTTTTATTATTTGAAACCATA
* **
14269626 TTAGATTACAATTATAAATAATTTAATGTTAATATTTATAATTCAAAATATAATTCAAAAAACAA
131 TCAGATTACAATTATAAATAATTTAACATTAATATTTATAATTC---A-AT--TTCAAAAAACAA
14269691 TTTTTACTGACACCTGAACATCTATATCAACACATTTTAATGTTAGAATATTTCAAACTATATTG
190 TTTTTACTGACACCTGAACATCTATATCAACACATTTTAATGTTAGAATATTTCAAACTATATTG
* * *
14269756 ACGACTATTTATTGTCAATAAAA-ATAGCACCAGATTGACTATTGATATAAGTAAAAACACATTG
255 ACAACTATTTATTGTCAATAAAATATAGCACCAGATTGACTATCGATATAAGTAAAAACACATGG
* * * * *
14269820 GTTATACTAACAGGCATCGACCATTAGTAAAAATAATAATGTTCGATGTACTATTATTATAGGTG
320 GTTATACTAACAAGCATCAACCATTAGTAAAAATAATAATGTTCAATGTACTATCAGTATAGGTG
*
14269885 AAATACACAAAGAAATATTGATGGACACAGACAATCAATAATAGTATAATGTCAGACAATTTGTT
385 AAATACACAAAGAAATACTGATGGACACAGACAATCAATAATAGTATAATGTCAGACAATTTGTT
* * * * *
14269950 GCTATATGTTAAATAAATCAAAACATACAAGTCTATACCGATGGAAGATAATCGTTAGTAAAAGA
450 ACTATATGTTAAACAAATCAAAACATACAAGTCTATACCAACGAAAGATAATCGTTAGTAAAAGA
* *
14270015 TTTAATGATGGAAAACACAACAAATGCTATACCAACAATGATACATATGCTTATAGA
515 TTTAATGATGGAAAACACAACAAATGCTACACCAACAACGATACATATGCTTATAGA
14270072 TA
1 TA
14270074 TCTAATTTTG
Statistics
Matches: 541, Mismatches: 31, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
571 168 0.31
574 1 0.00
575 2 0.00
576 273 0.50
577 97 0.18
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (571 bp):
TACAATGGATTTAATCTTGACTTATTATTAGTTTATGGATTCTAAAACAATTTGGTTTTACTTTT
ATTTCAAATGTTATTAAACATCTTATACTTTATTATACATTTGTTTTTTATTATTTGAAACCATA
TCAGATTACAATTATAAATAATTTAACATTAATATTTATAATTCAATTTCAAAAAACAATTTTTA
CTGACACCTGAACATCTATATCAACACATTTTAATGTTAGAATATTTCAAACTATATTGACAACT
ATTTATTGTCAATAAAATATAGCACCAGATTGACTATCGATATAAGTAAAAACACATGGGTTATA
CTAACAAGCATCAACCATTAGTAAAAATAATAATGTTCAATGTACTATCAGTATAGGTGAAATAC
ACAAAGAAATACTGATGGACACAGACAATCAATAATAGTATAATGTCAGACAATTTGTTACTATA
TGTTAAACAAATCAAAACATACAAGTCTATACCAACGAAAGATAATCGTTAGTAAAAGATTTAAT
GATGGAAAACACAACAAATGCTACACCAACAACGATACATATGCTTATAGA
Found at i:14272324 original size:14 final size:13
Alignment explanation
Indices: 14272277--14272322 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
14272267 TAAAATAATT
*
14272277 CCTTAAATCAAAA
1 CCTTAAATCGAAA
*
14272290 CCCTAAAT-GAAA
1 CCTTAAATCGAAA
14272302 CTCTTAAATCGAAA
1 C-CTTAAATCGAAA
14272316 CCTTAAA
1 CCTTAAA
14272323 ATTTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.14
13 19 0.68
14 5 0.18
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (13 bp):
CCTTAAATCGAAA
Found at i:14272347 original size:13 final size:13
Alignment explanation
Indices: 14272328--14272463 Score: 74
Period size: 13 Copynumber: 10.3 Consensus size: 13
14272318 TTAAAATTTG
14272328 AATTGAAACCCTA
1 AATTGAAACCCTA
* **
14272341 TATTGAAATGCTAA
1 AATTGAAACCCT-A
*
14272355 AATTAAAACCCTA
1 AATTGAAACCCTA
*
14272368 AATTGAAATCCTA
1 AATTGAAACCCTA
***
14272381 AACCAAAACCCTA
1 AATTGAAACCCTA
* *
14272394 CATTTAAAACCCTA
1 -AATTGAAACCCTA
* *
14272408 AATTGAAGCCTTA
1 AATTGAAACCCTA
* * * *
14272421 ACTCGAAATCCAA
1 AATTGAAACCCTA
* *
14272434 AATTAAAACCTTA
1 AATTGAAACCCTA
**
14272447 AATCAAAACCCTA
1 AATTGAAACCCTA
14272460 AATT
1 AATT
14272464 ACAATACCAA
Statistics
Matches: 86, Mismatches: 35, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
13 67 0.78
14 19 0.22
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.25
Consensus pattern (13 bp):
AATTGAAACCCTA
Found at i:14272358 original size:27 final size:27
Alignment explanation
Indices: 14272328--14272449 Score: 88
Period size: 27 Copynumber: 4.6 Consensus size: 27
14272318 TTAAAATTTG
* * *
14272328 AATTGAAACCCTATATTGAAATGCTAA
1 AATTAAAACCCTAAATTGAAATCCTAA
14272355 AATTAAAACCCTAAATTGAAATCCT-A
1 AATTAAAACCCTAAATTGAAATCCTAA
** * * *
14272381 AACCAAAACCCTACATTTAAAACCCT-A
1 AATTAAAACCCTA-AATTGAAATCCTAA
* * * * *
14272408 AATTGAAGCCTTAACTCGAAATCC-AA
1 AATTAAAACCCTAAATTGAAATCCTAA
*
14272434 AATTAAAACCTTAAAT
1 AATTAAAACCCTAAAT
14272450 CAAAACCCTA
Statistics
Matches: 73, Mismatches: 20, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
26 33 0.45
27 40 0.55
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.25
Consensus pattern (27 bp):
AATTAAAACCCTAAATTGAAATCCTAA
Found at i:14272373 original size:40 final size:38
Alignment explanation
Indices: 14272328--14272460 Score: 104
Period size: 40 Copynumber: 3.4 Consensus size: 38
14272318 TTAAAATTTG
*
14272328 AATTGAAACCCTATATTGAAATGCTAAAATTAAAACCCTA
1 AATTGAAACCCTA-ATCGAAAT-CTAAAATTAAAACCCTA
* * * * * *
14272368 AATTGAAATCCTAAACCAAAACCCTACATTTAAAACCCTA
1 AATTGAAACCCT-AATCGAAA-TCTAAAATTAAAACCCTA
* * * *
14272408 AATTGAAGCCTTAACTCGAAATCCAAAATTAAAACCTTA
1 AATTGAAACCCTAA-TCGAAATCTAAAATTAAAACCCTA
**
14272447 AATCAAAACCCTAA
1 AATTGAAACCCTAA
14272461 ATTACAATAC
Statistics
Matches: 69, Mismatches: 21, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
39 25 0.36
40 43 0.62
41 1 0.01
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.24
Consensus pattern (38 bp):
AATTGAAACCCTAATCGAAATCTAAAATTAAAACCCTA
Found at i:14276484 original size:3 final size:3
Alignment explanation
Indices: 14276476--14276512 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14276466 AAAAGTAAAT
14276476 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14276513 GGTTATATCA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14279320 original size:6 final size:6
Alignment explanation
Indices: 14279296--14279386 Score: 62
Period size: 6 Copynumber: 14.3 Consensus size: 6
14279286 GAAAGAATGC
* *
14279296 AAAAGA AAAAGTG AGAAGA AAAAGAA AAAATTGA AAGAATGA AAAAGA
1 AAAAGA AAAAG-A AAAAGA AAAAG-A AAAA--GA AA-AA-GA AAAAGA
*
14279344 ACAAAGGA AAAAGA AAAAGA AAAAG- AGAA-A AAAAG- AAAAGA AA
1 A-AAA-GA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
14279387 TGAATGGGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
5 11 0.16
6 27 0.39
7 17 0.25
8 11 0.16
9 3 0.04
ACGTcount: A:0.75, C:0.01, G:0.20, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:14279342 original size:42 final size:43
Alignment explanation
Indices: 14279285--14279367 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
14279275 AAAAAAGAAG
* *
14279285 TGAAAGAATGCAAAAGAA-AAAGTG-AGAAGAAAAAGAAAAAAT
1 TGAAAGAATGAAAAAGAACAAAG-GAAAAAGAAAAAGAAAAAAT
14279327 TGAAAGAATGAAAAAGAACAAAGGAAAAAGAAAAAGAAAAA
1 TGAAAGAATGAAAAAGAACAAAGGAAAAAGAAAAAGAAAAA
14279368 GAGAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 18 0.49
43 19 0.51
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.07
Consensus pattern (43 bp):
TGAAAGAATGAAAAAGAACAAAGGAAAAAGAAAAAGAAAAAAT
Found at i:14279362 original size:13 final size:13
Alignment explanation
Indices: 14279296--14279374 Score: 63
Period size: 13 Copynumber: 5.8 Consensus size: 13
14279286 GAAAGAATGC
14279296 AAAAGAAAAAGTG-
1 AAAAGAAAAAG-GA
* *
14279309 AGAAGAAAAAGAA
1 AAAAGAAAAAGGA
*
14279322 AAAATTGAAAGAATGA
1 AAAA--GAAA-AAGGA
14279338 AAAAGAACAAAGGA
1 AAAAGAA-AAAGGA
14279352 AAAAGAAAAA-GA
1 AAAAGAAAAAGGA
14279364 AAAAGAGAAAA
1 AAAAGA-AAAA
14279375 AAAGAAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
12 8 0.15
13 20 0.37
14 14 0.26
15 5 0.09
16 7 0.13
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.05
Consensus pattern (13 bp):
AAAAGAAAAAGGA
Found at i:14279374 original size:8 final size:7
Alignment explanation
Indices: 14279314--14279386 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
14279304 AAGTGAGAAG
14279314 AAAAAGA
1 AAAAAGA
14279321 AAAAATTGA
1 AAAAA--GA
*
14279330 AAGAATG-
1 AA-AAAGA
14279337 AAAAAGA
1 AAAAAGA
* *
14279344 ACAAAGG
1 AAAAAGA
14279351 AAAAAG-
1 AAAAAGA
14279357 AAAAAGA
1 AAAAAGA
14279364 AAAAGAGA
1 AAAA-AGA
14279372 AAAAA-A
1 AAAAAGA
*
14279378 GAAAAGA
1 AAAAAGA
14279385 AA
1 AA
14279387 TGAATGGGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
6 14 0.27
7 24 0.46
8 8 0.15
9 4 0.08
10 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (7 bp):
AAAAAGA
Found at i:14280010 original size:97 final size:97
Alignment explanation
Indices: 14279838--14280029 Score: 305
Period size: 97 Copynumber: 2.0 Consensus size: 97
14279828 CTAAATATGA
* * *
14279838 TAGATACTGAACAAAGATAAGCTAAATCATTTTGAAAGATTTGAATATCAAAGTCCCAAAAGTTT
1 TAGATACTGAACAAAGATAAGCTAAACCATTTTGAAAGATCTAAATATCAAAGTCCCAAAAGTTT
* *
14279903 AAGAAGGGTTGATTTTCAAAAATCTCAATCAG
66 AAGAAAGGTTGATTTTAAAAAATCTCAATCAG
*
14279935 TAGATACTGAACAAAGATAAGCCT-AACCTTTTTGAAAGATCTAAATATCAAAGTCCCAAAAGTT
1 TAGATACTGAACAAAGATAAG-CTAAACCATTTTGAAAGATCTAAATATCAAAGTCCCAAAAGTT
*
14279999 TGAGAAAGGTTGATTTTAAAAAATCTCAATC
65 TAAGAAAGGTTGATTTTAAAAAATCTCAATC
14280030 CTATTCATTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
97 85 0.98
98 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (97 bp):
TAGATACTGAACAAAGATAAGCTAAACCATTTTGAAAGATCTAAATATCAAAGTCCCAAAAGTTT
AAGAAAGGTTGATTTTAAAAAATCTCAATCAG
Found at i:14282657 original size:18 final size:17
Alignment explanation
Indices: 14282604--14282661 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
14282594 TATAACATGG
14282604 TTATAACAAAGTAAAAGT
1 TTATAACAAAGTAAAA-T
* *
14282622 TTAGAAC--AG-AAATT
1 TTATAACAAAGTAAAAT
14282636 TTATAACAAAGTAAAAT
1 TTATAACAAAGTAAAAT
14282653 ATTATAACA
1 -TTATAACA
14282662 TAAATTAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 7 0.22
15 3 0.09
16 4 0.12
17 4 0.12
18 14 0.44
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (17 bp):
TTATAACAAAGTAAAAT
Found at i:14282674 original size:32 final size:32
Alignment explanation
Indices: 14282606--14282681 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
14282596 TAACATGGTT
**
14282606 ATAACAAAGTAAAAGTTTAGAACAGAAATTTT
1 ATAACAAAGTAAAAGTTTAGAACAGAAATTAG
* *
14282638 ATAACAAAGTAAAA-TATTATAACATAAATTAG
1 ATAACAAAGTAAAAGT-TTAGAACAGAAATTAG
*
14282670 ATAACAATGTAA
1 ATAACAAAGTAA
14282682 GGGACATGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 1 0.03
32 37 0.97
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (32 bp):
ATAACAAAGTAAAAGTTTAGAACAGAAATTAG
Found at i:14283313 original size:42 final size:42
Alignment explanation
Indices: 14283216--14283334 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
14283206 AGTAGAAGAT
* *
14283216 ATAGCTAAGGTAATAGAGAATGAAATGG-TAGAAAATCAACAC
1 ATAGCTAAGGCAGTAGAGAATGAAA-GGATAGAAAATCAACAC
* *
14283258 ATAGCTAATGCAGTAGAGAATGAAAGGATAGAAAATCAACAT
1 ATAGCTAAGGCAGTAGAGAATGAAAGGATAGAAAATCAACAC
* * * *
14283300 GTAGGTGAGGCAGTAGGGAATGAAAGGATA-AAAAT
1 ATAGCTAAGGCAGTAGAGAATGAAAGGATAGAAAAT
14283335 TGAAGAGGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 7 0.10
42 60 0.90
ACGTcount: A:0.48, C:0.08, G:0.26, T:0.18
Consensus pattern (42 bp):
ATAGCTAAGGCAGTAGAGAATGAAAGGATAGAAAATCAACAC
Found at i:14287539 original size:23 final size:23
Alignment explanation
Indices: 14287494--14287559 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
14287484 ATTAGGAAAC
* * * *
14287494 AAATACCAGCAAACACACTAAAG
1 AAATACCAGTAAAAATACCAAAG
*
14287517 CAATACCAGTAAAAATACCAAAG
1 AAATACCAGTAAAAATACCAAAG
* *
14287540 AAATACTAGTAAATATACCA
1 AAATACCAGTAAAAATACCA
14287560 CCCTACAATC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.56, C:0.21, G:0.08, T:0.15
Consensus pattern (23 bp):
AAATACCAGTAAAAATACCAAAG
Found at i:14287654 original size:75 final size:77
Alignment explanation
Indices: 14287518--14287711 Score: 221
Period size: 75 Copynumber: 2.5 Consensus size: 77
14287508 ACACTAAAGC
** * *
14287518 AATACCAGTAAAAATACCAAAGAAATACTAGTAAATATACCACCCTACAATCACAC-AAAAAAAA
1 AATACCAACAAAAACACCAAAGAAATACTAGCAAATATACCACCCTACAATCACACAAAAAAAAA
14287582 -ATCATGAAACA
66 TATCATGAAACA
* ** * * * * * ** *
14287593 AATATCAGTAAAAGCATCAAAGAAATACTAGCAAATTTACCGCCCTATAATTGCACCAAAAAAAA
1 AATACCAACAAAAACACCAAAGAAATACTAGCAAATATACCACCCTACAATCACACAAAAAAAAA
*
14287658 TATCATGAAATA
66 TATCATGAAACA
*
14287670 AATACCAACAAAAACACCAAAGAAATACTAGCAAAAATACCA
1 AATACCAACAAAAACACCAAAGAAATACTAGCAAATATACCA
14287712 AAGAAATATT
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
75 46 0.47
76 8 0.08
77 44 0.45
ACGTcount: A:0.56, C:0.21, G:0.07, T:0.17
Consensus pattern (77 bp):
AATACCAACAAAAACACCAAAGAAATACTAGCAAATATACCACCCTACAATCACACAAAAAAAAA
TATCATGAAACA
Found at i:14287693 original size:77 final size:75
Alignment explanation
Indices: 14287518--14287711 Score: 246
Period size: 77 Copynumber: 2.6 Consensus size: 75
14287508 ACACTAAAGC
* *
14287518 AATACCAGTAAAAATACCAAAGAAATACTAGTAAATATACCACCCTACAATCACACAAAAAAAAA
1 AATACCAGTAAAAACACCAAAGAAATACTAGCAAATATACCACCCTACAATCACACAAAAAAAAA
14287583 TCATGAAACA
66 TCATGAAACA
* * * * * *
14287593 AATATCAGTAAAAGCATCAAAGAAATACTAGCAAATTTACCGCCCTATAATTGCAC-CAAAAAAA
1 AATACCAGTAAAAACACCAAAGAAATACTAGCAAATATACCACCCTACAA-T-CACACAAAAAAA
*
14287657 ATATCATGAAATA
64 A-ATCATGAAACA
** *
14287670 AATACCAACAAAAACACCAAAGAAATACTAGCAAAAATACCA
1 AATACCAGTAAAAACACCAAAGAAATACTAGCAAATATACCA
14287712 AAGAAATATT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
75 42 0.42
76 10 0.10
77 47 0.47
ACGTcount: A:0.56, C:0.21, G:0.07, T:0.17
Consensus pattern (75 bp):
AATACCAGTAAAAACACCAAAGAAATACTAGCAAATATACCACCCTACAATCACACAAAAAAAAA
TCATGAAACA
Found at i:14287736 original size:23 final size:23
Alignment explanation
Indices: 14287669--14287719 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
14287659 ATCATGAAAT
* * *
14287669 AAATACCAACAAAAACACCAAAG
1 AAATACTAGCAAAAATACCAAAG
14287692 AAATACTAGCAAAAATACCAAAG
1 AAATACTAGCAAAAATACCAAAG
14287715 AAATA
1 AAATA
14287720 TTAGTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.65, C:0.20, G:0.06, T:0.10
Consensus pattern (23 bp):
AAATACTAGCAAAAATACCAAAG
Found at i:14288689 original size:101 final size:101
Alignment explanation
Indices: 14288584--14288765 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 101
14288574 GACATCAATA
* *
14288584 AAAGA-TTATAGCCCAATTT-AATTGGTATCAATGAAAGATTTAAGCCCAATTTAACTGGCACAT
1 AAAGATTTA-AGCCCAATTTGAA-TGGTATCAATGAAAGATGTAAGCCCAATTTAACTAGCACAT
14288647 T-ATGAAAAGATT-TAAGTCTAGTATTAACTGGCATTAAT
64 TAAT-AAAAG-TTGTAAGTCTAGTATTAACTGGCATTAAT
* * * *
14288685 AAAGATTTAAGCCCAATTTGGATGGTGTCAATGAAAGATGTAAGCCCAGTTTGACTAGCACATTA
1 AAAGATTTAAGCCCAATTTGAATGGTATCAATGAAAGATGTAAGCCCAATTTAACTAGCACATTA
14288750 ATAAAAGTTGTAAGTC
66 ATAAAAGTTGTAAGTC
14288766 CAATTCAGTT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
100 2 0.03
101 63 0.89
102 6 0.08
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (101 bp):
AAAGATTTAAGCCCAATTTGAATGGTATCAATGAAAGATGTAAGCCCAATTTAACTAGCACATTA
ATAAAAGTTGTAAGTCTAGTATTAACTGGCATTAAT
Found at i:14288926 original size:33 final size:33
Alignment explanation
Indices: 14288881--14289189 Score: 217
Period size: 33 Copynumber: 9.2 Consensus size: 33
14288871 CTAGCACCTC
* * *
14288881 AATGAAAAATTTAAGCCTAGTTTGATCGATATT
1 AATGAAAGATTTAAGCCTAGTTTGAACGACATT
**
14288914 AATGAAAGATTTAAGCCTAGTATT-AACTGACACC
1 AATGAAAGATTTAAGCCTAGT-TTGAAC-GACATT
* **
14288948 AATG-AAGATTTAAGCCCAGTTTGGTCGACATT
1 AATGAAAGATTTAAGCCTAGTTTGAACGACATT
*
14288980 AATGAAAGATTTAAGCCTAATTTAAGTAAC-ACATT
1 AATGAAAGATTTAAGCCTAGTTT--G-AACGACATT
**
14289015 -ATGAAAAGATTTAAGCCTAGTATT-AACTGACACC
1 AATG-AAAGATTTAAGCCTAGT-TTGAAC-GACATT
* **
14289049 AATG-AAGATTTAAGCCCAGTTTGGTCGACATT
1 AATGAAAGATTTAAGCCTAGTTTGAACGACATT
*
14289081 AATGAAAGATTTAAGCCTAATTTAAGTAAC-ACATT
1 AATGAAAGATTTAAGCCTAGTTT--G-AACGACATT
* * **
14289116 -ATGAAAAGATTTAAGCCTAGTATT-AATTGGCACC
1 AATG-AAAGATTTAAGCCTAGT-TTGAA-CGACATT
*
14289150 AATG-AAGATTTAAGCCTAGTATT-AACTGACATC
1 AATGAAAGATTTAAGCCTAGT-TTGAAC-GACATT
14289183 AATGAAA
1 AATGAAA
14289190 TTAAACCAAT
Statistics
Matches: 218, Mismatches: 34, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
32 25 0.11
33 115 0.53
34 22 0.10
35 50 0.23
36 6 0.03
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (33 bp):
AATGAAAGATTTAAGCCTAGTTTGAACGACATT
Found at i:14289023 original size:35 final size:34
Alignment explanation
Indices: 14288975--14289134 Score: 161
Period size: 35 Copynumber: 4.7 Consensus size: 34
14288965 AGTTTGGTCG
14288975 ACATTAATGAAAGATTTAAGCCTAATTTAAGTAAC
1 ACATT-ATGAAAGATTTAAGCCTAATTTAAGTAAC
* * *
14289010 ACATTATGAAAAGATTTAAGCCTAGTATTAACTGAC
1 ACATTATG-AAAGATTTAAGCCTAAT-TTAAGTAAC
* * *
14289046 ACCA--ATG-AAGATTTAAGCCCAGTTT-GGT--C
1 A-CATTATGAAAGATTTAAGCCTAATTTAAGTAAC
14289075 GACATTAATGAAAGATTTAAGCCTAATTTAAGTAAC
1 -ACATT-ATGAAAGATTTAAGCCTAATTTAAGTAAC
14289111 ACATTATGAAAAGATTTAAGCCTA
1 ACATTATG-AAAGATTTAAGCCTA
14289135 GTATTAATTG
Statistics
Matches: 104, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
29 3 0.03
30 1 0.01
31 1 0.01
32 5 0.05
33 31 0.30
34 8 0.08
35 44 0.42
36 9 0.09
37 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (34 bp):
ACATTATGAAAGATTTAAGCCTAATTTAAGTAAC
Found at i:14289023 original size:101 final size:101
Alignment explanation
Indices: 14288918--14289165 Score: 478
Period size: 101 Copynumber: 2.5 Consensus size: 101
14288908 GATATTAATG
14288918 AAAGATTTAAGCCTAGTATTAACTGACACCAATGAAGATTTAAGCCCAGTTTGGTCGACATTAAT
1 AAAGATTTAAGCCTAGTATTAACTGACACCAATGAAGATTTAAGCCCAGTTTGGTCGACATTAAT
14288983 GAAAGATTTAAGCCTAATTTAAGTAACACATTATGA
66 GAAAGATTTAAGCCTAATTTAAGTAACACATTATGA
14289019 AAAGATTTAAGCCTAGTATTAACTGACACCAATGAAGATTTAAGCCCAGTTTGGTCGACATTAAT
1 AAAGATTTAAGCCTAGTATTAACTGACACCAATGAAGATTTAAGCCCAGTTTGGTCGACATTAAT
14289084 GAAAGATTTAAGCCTAATTTAAGTAACACATTATGA
66 GAAAGATTTAAGCCTAATTTAAGTAACACATTATGA
* *
14289120 AAAGATTTAAGCCTAGTATTAATTGGCACCAATGAAGATTTAAGCC
1 AAAGATTTAAGCCTAGTATTAACTGACACCAATGAAGATTTAAGCC
14289166 TAGTATTAAC
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 145 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (101 bp):
AAAGATTTAAGCCTAGTATTAACTGACACCAATGAAGATTTAAGCCCAGTTTGGTCGACATTAAT
GAAAGATTTAAGCCTAATTTAAGTAACACATTATGA
Found at i:14289057 original size:134 final size:133
Alignment explanation
Indices: 14288914--14289188 Score: 294
Period size: 134 Copynumber: 2.0 Consensus size: 133
14288904 GATCGATATT
* * *
14288914 AATGAAAGATTTAAGCCTAGTATTAACT-GACACCAATG-AAGATTTAAGCCCAGTTT-GGT-CG
1 AATG-AAGATTTAAGCCCAGT-TT-ACTCGACACCAATGAAAGATTTAAGCCCAATTTAAGTAC-
14288975 ACATTAATG-AAAGATTTAAGCCTAAT-TTAAGTAACA-CATTATGAAAAGATTTAAGCCTAGTA
62 ACATT-ATGAAAAGATTTAAGCCTAATATTAAGTAACACCA--ATG--AAGATTTAAGCCTAGTA
14289037 TTAACTGACACC
122 TTAACTGACACC
** ** *
14289049 AATGAAGATTTAAGCCCAGTTTGGTCGACATTAATGAAAGATTTAAGCCTAATTTAAGTAACACA
1 AATGAAGATTTAAGCCCAGTTTACTCGACACCAATGAAAGATTTAAGCCCAATTTAAGT-ACACA
* * **
14289114 TTATGAAAAGATTTAAGCCTAGTATTAATTGGCACCAATGAAGATTTAAGCCTAGTATTAACTGA
65 TTATGAAAAGATTTAAGCCTAATATTAAGTAACACCAATGAAGATTTAAGCCTAGTATTAACTGA
*
14289179 CATC
130 CACC
14289183 AATGAA
1 AATGAA
14289189 ATTAAACCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
132 1 0.01
133 10 0.08
134 65 0.55
135 9 0.08
136 24 0.20
137 8 0.07
138 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (133 bp):
AATGAAGATTTAAGCCCAGTTTACTCGACACCAATGAAAGATTTAAGCCCAATTTAAGTACACAT
TATGAAAAGATTTAAGCCTAATATTAAGTAACACCAATGAAGATTTAAGCCTAGTATTAACTGAC
ACC
Found at i:14289063 original size:68 final size:65
Alignment explanation
Indices: 14288914--14289189 Score: 192
Period size: 68 Copynumber: 4.1 Consensus size: 65
14288904 GATCGATATT
* * ** * **
14288914 AATGAAAGATTTAAGCCTAGTATTAACTGACACCAATG-AAGATTTAAGCCCAGT-TT-GGTCGA
1 AATGAAAGATTTAAGCCTAGT-TTAAGTCACA-TTATGAAAGATTTAAGCCTAGTATTAACT-GA
*
14288976 CATT
63 CA-C
*
14288980 AATGAAAGATTTAAGCCTAATTTAAGTAACACATTATGAAAAGATTTAAGCCTAGTATTAACTGA
1 AATGAAAGATTTAAGCCTAGTTTAAGT--CACATTATG-AAAGATTTAAGCCTAGTATTAACTGA
14289045 CACC
63 CA-C
* * * * *
14289049 AATG-AAGATTTAAGCCCAGTTT-GGTCGACATTAATGAAAGATTTAAGCCTAAT-TTAAGTAAC
1 AATGAAAGATTTAAGCCTAGTTTAAGTC-ACATT-ATGAAAGATTTAAGCCTAGTATTAACTGAC
14289111 AC
64 AC
*
14289113 ATTATGAAAAGATTTAAGCCTAGTATTAATTGGCACCA--ATG-AAGATTTAAGCCTAGTATTAA
1 A--ATG-AAAGATTTAAGCCTAGT-TTAA--GTCA-CATTATGAAAGATTTAAGCCTAGTATTAA
14289175 CTGACATC
59 CTGACA-C
14289183 AATGAAA
1 AATGAAA
14289190 TTAAACCAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 37
0.74 0.10 0.16
Matches are distributed among these distances:
64 2 0.01
65 14 0.08
66 47 0.28
67 11 0.07
68 64 0.38
69 23 0.14
70 3 0.02
71 1 0.01
72 4 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (65 bp):
AATGAAAGATTTAAGCCTAGTTTAAGTCACATTATGAAAGATTTAAGCCTAGTATTAACTGACAC
Found at i:14289478 original size:36 final size:36
Alignment explanation
Indices: 14289387--14289483 Score: 101
Period size: 35 Copynumber: 2.8 Consensus size: 36
14289377 ACCTGTGGTA
* *
14289387 TTATCTCGATCGTTCTTTATTTT-TTACTTATGATG
1 TTATCTCGATCGTTCTTTATTTTCTAACTTATGAGG
* * *
14289422 TTACCTCGATCATTCCTTATTTTCTAACTTGATG-GG
1 TTATCTCGATCGTTCTTTATTTTCTAACTT-ATGAGG
* *
14289458 TTTTCTCGATCGTGCTTTA-TTTCTAA
1 TTATCTCGATCGTTCTTTATTTTCTAA
14289484 TCTATGGTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
35 27 0.54
36 20 0.40
37 3 0.06
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.52
Consensus pattern (36 bp):
TTATCTCGATCGTTCTTTATTTTCTAACTTATGAGG
Found at i:14289622 original size:36 final size:35
Alignment explanation
Indices: 14289574--14290902 Score: 259
Period size: 36 Copynumber: 37.6 Consensus size: 35
14289564 GTTATCCCAG
* * *
14289574 TCATGCTTTATTTGTAGACTTATGGTGTTGTCCTGA
1 TCATTCTTTATTT-TTGACTTATGATGTTGTCCTGA
** * *
14289610 TCATTCTTTATTTTTTGACTTGCGATATTGT-CTCAA
1 TCATTCTTTA-TTTTTGACTTATGATGTTGTCCT-GA
* * * * * **
14289646 TCGTGCTTTATTTTTTACTTATGGTGTTATCCCAA
1 TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
* * * *
14289681 TCATTTTTTATTTTTGACTTTTAATGTTGTCCCGA
1 TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
* * * * *
14289716 TCATTTTTTATTTTTTAACTTGTGCTGTTGCCCTGA
1 TCATTCTTTA-TTTTTGACTTATGATGTTGTCCTGA
*** *
14289752 TCATTCTTTA-TTTTGCCAACTTGCAATGTTGT-CTCA
1 TCATTCTTTATTTTTG---ACTTATGATGTTGTCCTGA
* * *
14289788 GTCGTTCTTTATTTTTTGACTTGT-AGTGTTGTCTTGA
1 -TCATTCTTTA-TTTTTGACTTATGA-TGTTGTCCTGA
* ** *
14289825 TCA-T-TTT-TTTTTGACTGACAATGTTGTCC-AA
1 TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
* * * * * *
14289856 GTCATTTTTTATTTTTAACTTGTGGTATTGT-CTCAA
1 -TCATTCTTTATTTTTGACTTATGATGTTGTCCT-GA
* * * * * *
14289892 TTATTTTTTATTTTTTGACTTGTGCTGTTGT-ATCA
1 TCATTCTTTA-TTTTTGACTTATGATGTTGTCCTGA
* * *
14289927 GTCATCCCTTATGTTCTT-ACTTAT-AGTGTTGCCCT-A
1 -TCATTCTTTAT-TT-TTGACTTATGA-TGTTGTCCTGA
* * * *
14289963 GTCATGCTTTA--TTTGACTTATGGTGTTGTCTTAA
1 -TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
* * * * * *
14289997 TCATTCTTTATTTTTCAACTTGTGGTATTAT-CTCA
1 TCATTCTTTATTTTT-GACTTATGATGTTGTCCTGA
* *
14290032 GTCATTCTTTA-TTTTGCCAACTTATGGTGTTGTCC-CA
1 -TCATTCTTTATTTTTG---ACTTATGATGTTGTCCTGA
* * * * * *
14290069 GT-TTTATTTATTTTTTGACTTATGATATTAT-TTCGT
1 -TCATTCTTTA-TTTTTGACTTATGATGTTGTCCT-GA
* * *
14290105 TCATTTTTTATTTTTCGACTTATGGTGTTGTCCTAA
1 TCATTCTTTATTTTT-GACTTATGATGTTGTCCTGA
* * * * *
14290141 TCGTGCTTTATTTTTGACTTACGGTGTTGTCCTAA
1 TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
* * *
14290176 T--TGTCTTTTATTTTTTACTTGTGATATTGT-CTCGA
1 TCAT-TC-TTTATTTTTGACTTATGATGTTGTCCT-GA
* * * * ** **
14290211 TCGTTTTTTGTTTTTCGACTTATGGTGTTACCCCAA
1 TCATTCTTTATTTTT-GACTTATGATGTTGTCCTGA
* * * *
14290247 TCGTTCTTTATTTTGCTGACTTGTGTTGTT-T-CAG-
1 TCATTCTTTATTTT--TGACTTATGATGTTGTCCTGA
* * * * *
14290281 TCATCCTTATTTTTTTGACTTGCT-ATGTTGCCCTTA
1 TCATTCTT-TATTTTTGACTT-ATGATGTTGTCCTGA
** * * *
14290317 TCATTCTTTATTTTCAACTTGTGATGTTGTCTTAA
1 TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
* *
14290352 TCATTCTTTATTTTTTGACTTGTGATGTTGTCCTAA
1 TCATTCTTTA-TTTTTGACTTATGATGTTGTCCTGA
* * *
14290388 TCATTCCTTATTTTTTAACTTATGGTGTTGTCCT-A
1 TCATTCTTTA-TTTTTGACTTATGATGTTGTCCTGA
** * *
14290423 GTCATTCTTTATTTCTCAACTTGTTG-TGTTGTCCCGA
1 -TCATTCTTTATTT-TTGACTT-ATGATGTTGTCCTGA
* * * ** *
14290460 TCGTCCCTTATTTTTGACTTGCGATGTTGTTCC-AA
1 TCATTCTTTATTTTTGACTTATGATGTTG-TCCTGA
* * * * *
14290495 TCATGCTTTATTTTTTACCTATGTTGTTGTCCCG-
1 TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
** ** *
14290529 --A-T-TTT-TTTTT-ACTTGCGATGTTAACCCGA
1 TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
* * * *
14290558 TCATTC-TTATTTTCTTAAGTTACTG-TGTTGTTCTGG
1 TCATTCTTTA-TTT-TTGACTTA-TGATGTTGTCCTGA
* * * * * *
14290594 TCATGGCTTATTTTTTTTATTTATGGTGTTGT-CTCAA
1 TCAT-TCTT-TATTTTTGACTTATGATGTTGTCCT-GA
* * * * *
14290631 TCGTTCTTTATTTTTTTACTTATGGTGTTATCCCGA
1 TCATTCTTTA-TTTTTGACTTATGATGTTGTCCTGA
* * * *
14290667 TCATTC-TTATTTTCTTAAGTTACTG-TGTTGTTCTGG
1 TCATTCTTTA-TTT-TTGACTTA-TGATGTTGTCCTGA
* * * * * *
14290703 TCATGGCTTATTTTTTTTATTTATGGTGTTGT-CTCAA
1 TCAT-TCTT-TATTTTTGACTTATGATGTTGTCCT-GA
* * * * *
14290740 TCGTTCTTTATTTTTTTACTTATGGTGTTATCCCGA
1 TCATTCTTTA-TTTTTGACTTATGATGTTGTCCTGA
* * * *
14290776 TCATGCTTTTATTTTTAACCTAT-AGTGTTGTTCT-A
1 TCATTC-TTTATTTTTGACTTATGA-TGTTGTCCTGA
* * * *
14290811 GCCGTTCTTTATTTTTGACTTGT-AGTGTTGTCCCGA
1 -TCATTCTTTATTTTTGACTTATGA-TGTTGTCCTGA
* * * *
14290847 TCATTTTTTATTTTTGGACTTGTGGTGTTGT-CTGG
1 TCATTCTTTATTTTT-GACTTATGATGTTGTCCTGA
* *
14290882 TCGTCCTTTATTTTTTGACTT
1 TCATTCTTTA-TTTTTGACTT
14290903 GTGGTATTAT
Statistics
Matches: 948, Mismatches: 246, Indels: 199
0.68 0.18 0.14
Matches are distributed among these distances:
28 12 0.01
29 5 0.01
30 3 0.00
31 2 0.00
32 25 0.03
33 36 0.04
34 30 0.03
35 286 0.30
36 427 0.45
37 100 0.11
38 15 0.02
39 7 0.01
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.53
Consensus pattern (35 bp):
TCATTCTTTATTTTTGACTTATGATGTTGTCCTGA
Found at i:14289682 original size:35 final size:35
Alignment explanation
Indices: 14289332--14290980 Score: 217
Period size: 36 Copynumber: 46.6 Consensus size: 35
14289322 AGGTCATTTT
* * * *
14289332 TTTATTTTTGACTTATGATGTTATCCCTATTATGC
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
** * * * * *
14289367 TTTATTCATGACCTGTGGTATTATCTCGATCGTTC
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* *
14289402 TTTATTTTTTACTTATGATGTTA-CCTCGATCATTC
1 TTTATTTTTGACTTATGGTGTTATCC-CGATCATTC
* * * * * *
14289437 CTTATTTTCTAACTTGATGG-GTTTTCTCGATCGTGC
1 TTTATTTT-TGACTT-ATGGTGTTATCCCGATCATTC
* * * * **
14289473 TTTATTTCT-AATCTATGGTGTTGT-CCTAGTTGTTC
1 TTTATTTTTGACT-TATGGTGTTATCCCGA-TCATTC
* * * * **
14289508 TTTACTTTTTGACTTGTGGTGTTGTCTCGGT-GGTC
1 TTTA-TTTTTGACTTATGGTGTTATCCCGATCATTC
* * * * *
14289543 TTTATTTTCTTAACCTACGATGTTATCCC-AGTCATGC
1 TTTA-TTT-TTGACTTATGGTGTTATCCCGA-TCATTC
* * *
14289580 TTTATTTGTAGACTTATGGTGTTGTCCTGATCATTC
1 TTTATTT-TTGACTTATGGTGTTATCCCGATCATTC
** * * * * * * *
14289616 TTTATTTTTTGACTTGCGATATTGTCTCAATCGTGC
1 TTTA-TTTTTGACTTATGGTGTTATCCCGATCATTC
* * *
14289652 TTTATTTTTTACTTATGGTGTTATCCCAATCATTT
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* ** * *
14289687 TTTATTTTTGACTTTTAATGTTGTCCCGATCATTT
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * *
14289722 TTTATTTTTTAACTTGTGCTGTT-GCCCTGATCATTC
1 TTTA-TTTTTGACTTATGGTGTTATCCC-GATCATTC
**** * * *
14289758 TTTA-TTTTGCCAACTTGCAATGTTGTCTC-AGTCGTTC
1 TTTATTTTTG---ACTTATGGTGTTATCCCGA-TCATTC
* * * **
14289795 TTTATTTTTTGACTTGTAGTGTTGTCTTGATCA-T-
1 TTTA-TTTTTGACTTATGGTGTTATCCCGATCATTC
* *** * * *
14289829 TTT-TTTTTGACTGACAATGTTGT-CCAAGTCATTT
1 TTTATTTTTGACTTATGGTGTTATCCCGA-TCATTC
* * * * * * * *
14289863 TTTATTTTTAACTTGTGGTATTGTCTCAATTATTT
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * *
14289898 TTTATTTTTTGACTTGTGCTGTTGTAT-CAG-TCATCC
1 TTTA-TTTTTGACTTATGGTG-T-TATCCCGATCATTC
* * * * *
14289934 CTTATGTTCTT-ACTTATAGTGTT-GCCCTAGTCATGC
1 TTTAT-TT-TTGACTTATGGTGTTATCCCGA-TCATTC
* ***
14289970 TTTA--TTTGACTTATGGTGTTGTCTTAATCATTC
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * *
14290003 TTTATTTTTCAACTTGTGGTATTATCTC-AGTCATTC
1 TTTATTTTT-GACTTATGGTGTTATCCCGA-TCATTC
* * *
14290039 TTTA-TTTTGCCAACTTATGGTGTTGTCCC-AGT-TTTA
1 TTTATTTTTG---ACTTATGGTGTTATCCCGA-TCATTC
* * ** * *
14290075 TTTATTTTTTGACTTATGATATTATTTCGTTCATTT
1 TTTA-TTTTTGACTTATGGTGTTATCCCGATCATTC
* ** * *
14290111 TTTATTTTTCGACTTATGGTGTTGTCCTAATCGTGC
1 TTTATTTTT-GACTTATGGTGTTATCCCGATCATTC
* * **
14290147 TTTATTTTTGACTTACGGTGTTGTCCTAAT--TGTC
1 TTTATTTTTGACTTATGGTGTTATCCCGATCAT-TC
* * * * * * * *
14290181 TTTTATTTTTTACTTGTGATATTGTCTCGATCGTTT
1 -TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * *
14290217 TTTGTTTTTCGACTTATGGTGTTACCCCAATCGTTC
1 TTTATTTTT-GACTTATGGTGTTATCCCGATCATTC
* * * *
14290253 TTTATTTTGCTGACTTGTGTTGTT-T-CAG-TCATCC
1 TTTATTTT--TGACTTATGGTGTTATCCCGATCATTC
* * * * *
14290287 TTATTTTTTTGACTTGCT-ATGTT-GCCCTTATCATTC
1 TT-TATTTTTGACTT-ATGGTGTTATCCC-GATCATTC
** * * * ***
14290323 TTTATTTTCAACTTGTGATGTTGTCTTAATCATTC
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * **
14290358 TTTATTTTTTGACTTGTGATGTTGTCCTAATCATTC
1 TTTA-TTTTTGACTTATGGTGTTATCCCGATCATTC
* * * *
14290394 CTTATTTTTTAACTTATGGTGTTGT-CCTAGTCATTC
1 TTTA-TTTTTGACTTATGGTGTTATCCCGA-TCATTC
** * * * * *
14290430 TTTATTTCTCAACTTGTTGTGTTGTCCCGATCGTCC
1 TTTATTT-TTGACTTATGGTGTTATCCCGATCATTC
* ** * * * * *
14290466 CTTATTTTTGACTTGCGATGTTGTTCCAATCATGC
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * *
14290501 TTTATTTTTTACCTATGTTGTTGTCCCG---A-T-
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
** * *
14290531 TTT-TTTTT-ACTTGCGATGTTAACCCGATCATTC
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * * * * *
14290564 -TTATTTTCTTAAGTTACT-GTGTTGTTCTGGTCATGGC
1 TTTA-TTT-TTGACTTA-TGGTGTTATCCCGATCAT-TC
* * * * * * *
14290601 TTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTC
1 TT-TATTTTTGACTTATGGTGTTATCCCGATCATTC
*
14290637 TTTATTTTTTTACTTATGGTGTTATCCCGATCATTC
1 TTTA-TTTTTGACTTATGGTGTTATCCCGATCATTC
* * * * * * *
14290673 -TTATTTTCTTAAGTTACT-GTGTTGTTCTGGTCATGGC
1 TTTA-TTT-TTGACTTA-TGGTGTTATCCCGATCAT-TC
* * * * * * *
14290710 TTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTC
1 TT-TATTTTTGACTTATGGTGTTATCCCGATCATTC
* *
14290746 TTTATTTTTTTACTTATGGTGTTATCCCGATCATGC
1 TTTA-TTTTTGACTTATGGTGTTATCCCGATCATTC
* * * * * * * *
14290782 TTTTATTTTTAACCTATAGTGTTGT-TCTAGCCGTTC
1 -TTTATTTTTGACTTATGGTGTTATCCCGA-TCATTC
* * * *
14290818 TTTATTTTTGACTTGTAGTGTTGTCCCGATCATTT
1 TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
* * * * * *
14290853 TTTATTTTTGGACTTGTGGTGTTGT-CTGGTCGTCC
1 TTTATTTTT-GACTTATGGTGTTATCCCGATCATTC
* *
14290888 TTTATTTTTTGACTTGTGGTATTATCCTCG-TCATT-
1 TTTA-TTTTTGACTTATGGTGTTATCC-CGATCATTC
* * * *
14290923 TTTATTTTCTCGACTTGTGGTATTGTCCC-AGTTATTC
1 TTTATTTT-T-GACTTATGGTGTTATCCCGA-TCATTC
* *
14290960 TTTA-TTTTCATTTATGGTGTT
1 TTTATTTTTGACTTATGGTGTT
14290981 GTCTTAGTTG
Statistics
Matches: 1163, Mismatches: 347, Indels: 209
0.68 0.20 0.12
Matches are distributed among these distances:
28 12 0.01
29 5 0.00
30 3 0.00
31 2 0.00
32 25 0.02
33 33 0.03
34 49 0.04
35 387 0.33
36 509 0.44
37 113 0.10
38 18 0.02
39 7 0.01
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.53
Consensus pattern (35 bp):
TTTATTTTTGACTTATGGTGTTATCCCGATCATTC
Found at i:14289900 original size:68 final size:69
Alignment explanation
Indices: 14289637--14289905 Score: 158
Period size: 73 Copynumber: 3.8 Consensus size: 69
14289627 ACTTGCGATA
* * * * * * * * *
14289637 TTGTCTCAATCGTGCTTTATTTTTT-ACTTATGGTGTTATCCCAATCATTTTTTATTTTTGACTT
1 TTGTCTCAGTCATTCTTTATTTTTTAACTTGTAGTATTGTCTCAATCA-TTTTTA-TTTTGACTG
**
14289701 TTAATG
64 ACAATG
* * * * *
14289707 TTGTC-CCGATCATTTTTTATTTTTTAACTTGT-GCTGTTG-CCCTGATCATTCTTTATTTTGCC
1 TTGTCTCAG-TCATTCTTTATTTTTTAACTTGTAG-TATTGTCTC-AATCATT-TTTATTTTG--
14289769 AACTTG-CAATG
60 -AC-TGACAATG
* * * **
14289780 TTGTCTCAGTCGTTCTTTATTTTTTGACTTGTAGTGTTGTCTTGATCATTTTT-TTTTGACTGAC
1 TTGTCTCAGTCATTCTTTATTTTTTAACTTGTAGTATTGTCTCAATCATTTTTATTTTGACTGAC
14289844 AATG
66 AATG
* * *
14289848 TTGTC-CAAGTCATTTTTTA-TTTTTAACTTGTGGTATTGTCTCAATTATTTTTTATTTT
1 TTGTCTC-AGTCATTCTTTATTTTTTAACTTGTAGTATTGTCTCAATCA-TTTTTATTTT
14289906 TTGACTTGTG
Statistics
Matches: 159, Mismatches: 24, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
67 25 0.16
68 27 0.17
69 5 0.03
70 29 0.18
71 22 0.14
72 3 0.02
73 43 0.27
74 5 0.03
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.55
Consensus pattern (69 bp):
TTGTCTCAGTCATTCTTTATTTTTTAACTTGTAGTATTGTCTCAATCATTTTTATTTTGACTGAC
AATG
Found at i:14289989 original size:33 final size:33
Alignment explanation
Indices: 14289945--14290009 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
14289935 TTATGTTCTT
*
14289945 ACTTATAGTGTTGCCCTAGTCATGCTTTATTTG
1 ACTTATAGTGTTGCCCTAATCATGCTTTATTTG
* * * *
14289978 ACTTATGGTGTTGTCTTAATCATTCTTTATTT
1 ACTTATAGTGTTGCCCTAATCATGCTTTATTT
14290010 TTCAACTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (33 bp):
ACTTATAGTGTTGCCCTAATCATGCTTTATTTG
Found at i:14290402 original size:107 final size:107
Alignment explanation
Indices: 14290242--14290511 Score: 277
Period size: 107 Copynumber: 2.5 Consensus size: 107
14290232 ATGGTGTTAC
* * * * *
14290242 CCCAATCGTTCTTTATTTTGCTGACTTGTGTTGTT-T-CAGTCA-TCCTTATTTTTTTGACTTGC
1 CCCAATCGTTCTTTATTTT-TTGACTTGTGATGTTGTCCAATCATTCCTTA-TTTTTTAACTT-A
14290304 T-ATGTTGCCCTTA-TCATTCTTTATTT-TCAACTTG-TGATGTTGT
63 TGATGTTGCCC-TAGTCATTCTTTATTTCTCAACTTGTTG-TGTTGT
** *
14290347 CTTAATCATTCTTTATTTTTTGACTTGTGATGTTGTCCTAATCATTCCTTATTTTTTAACTTATG
1 CCCAATCGTTCTTTATTTTTTGACTTGTGATGTTGTCC-AATCATTCCTTATTTTTTAACTTATG
* *
14290412 GTGTTGTCCTAGTCATTCTTTATTTCTCAACTTGTTGTGTTGT
65 ATGTTGCCCTAGTCATTCTTTATTTCTCAACTTGTTGTGTTGT
* * * * * *
14290455 CCCGATCGTCCCTTA-TTTTTGACTTGCGATGTTGTTCCAATCATGCTTTATTTTTTA
1 CCCAATCGTTCTTTATTTTTTGACTTGTGATGTTG-TCCAATCATTCCTTATTTTTTA
14290512 CCTATGTTGT
Statistics
Matches: 137, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
104 13 0.09
105 17 0.12
106 4 0.03
107 69 0.50
108 32 0.23
109 2 0.01
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.52
Consensus pattern (107 bp):
CCCAATCGTTCTTTATTTTTTGACTTGTGATGTTGTCCAATCATTCCTTATTTTTTAACTTATGA
TGTTGCCCTAGTCATTCTTTATTTCTCAACTTGTTGTGTTGT
Found at i:14290604 original size:37 final size:36
Alignment explanation
Indices: 14290556--14290734 Score: 114
Period size: 37 Copynumber: 4.9 Consensus size: 36
14290546 ATGTTAACCC
*
14290556 GATCATTCTTATTTTCTTAAGTTACT-GTGTTGTTCT
1 GATCATGCTTATTTTCTTAAGTTA-TGGTGTTGTTCT
* * * *
14290592 GGTCATGGCTTATTTTTTTTATTTATGGTGTTG-TCT
1 GATCAT-GCTTATTTTCTTAAGTTATGGTGTTGTTCT
* * * * * * * *
14290628 CAATCGTTCTTTATTTT-TTTACTTATGGTGTTATCCC
1 -GATCATGC-TTATTTTCTTAAGTTATGGTGTTGTTCT
*
14290665 GATCATTCTTATTTTCTTAAGTTACT-GTGTTGTTCT
1 GATCATGCTTATTTTCTTAAGTTA-TGGTGTTGTTCT
* * * *
14290701 GGTCATGGCTTATTTTTTTTATTTATGGTGTTGT
1 GATCAT-GCTTATTTTCTTAAGTTATGGTGTTGT
14290735 CTCAATCGTT
Statistics
Matches: 109, Mismatches: 25, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
35 7 0.06
36 49 0.45
37 53 0.49
ACGTcount: A:0.15, C:0.12, G:0.17, T:0.56
Consensus pattern (36 bp):
GATCATGCTTATTTTCTTAAGTTATGGTGTTGTTCT
Found at i:14290717 original size:109 final size:109
Alignment explanation
Indices: 14290532--14290779 Score: 460
Period size: 109 Copynumber: 2.3 Consensus size: 109
14290522 TGTCCCGATT
** * *
14290532 TTTTTTTACTTGCGATGTTAACCCGATCATTCTTATTTTCTTAAGTTACTGTGTTGTTCTGGTCA
1 TTTTTTTACTTATGGTGTTATCCCGATCATTCTTATTTTCTTAAGTTACTGTGTTGTTCTGGTCA
14290597 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
66 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
14290641 TTTTTTTACTTATGGTGTTATCCCGATCATTCTTATTTTCTTAAGTTACTGTGTTGTTCTGGTCA
1 TTTTTTTACTTATGGTGTTATCCCGATCATTCTTATTTTCTTAAGTTACTGTGTTGTTCTGGTCA
14290706 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
66 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
14290750 TTTTTTTACTTATGGTGTTATCCCGATCAT
1 TTTTTTTACTTATGGTGTTATCCCGATCAT
14290780 GCTTTTATTT
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 135 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (109 bp):
TTTTTTTACTTATGGTGTTATCCCGATCATTCTTATTTTCTTAAGTTACTGTGTTGTTCTGGTCA
TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
Found at i:14290804 original size:109 final size:109
Alignment explanation
Indices: 14290532--14290809 Score: 425
Period size: 109 Copynumber: 2.6 Consensus size: 109
14290522 TGTCCCGATT
** * * * **
14290532 TTTTTTTACTTGCGATGTTAACCCGATCATTCTTATTTTCTTAAGTTACTGTGTTGTTCTGGTCA
1 TTTTTTTACTTATGGTGTTATCCCGATCATGCTTATTTTCTTAACCTACTGTGTTGTTCTGGTCA
14290597 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
66 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
* **
14290641 TTTTTTTACTTATGGTGTTATCCCGATCATTCTTATTTTCTTAAGTTACTGTGTTGTTCTGGTCA
1 TTTTTTTACTTATGGTGTTATCCCGATCATGCTTATTTTCTTAACCTACTGTGTTGTTCTGGTCA
14290706 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
66 TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
*
14290750 TTTTTTTACTTATGGTGTTATCCCGATCATGCTT-TTATTTTTAACCTA-TAGTGTTGTTCT
1 TTTTTTTACTTATGGTGTTATCCCGATCATGCTTATT-TTCTTAACCTACT-GTGTTGTTCT
14290810 AGCCGTTCTT
Statistics
Matches: 159, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
108 3 0.02
109 156 0.98
ACGTcount: A:0.15, C:0.14, G:0.15, T:0.55
Consensus pattern (109 bp):
TTTTTTTACTTATGGTGTTATCCCGATCATGCTTATTTTCTTAACCTACTGTGTTGTTCTGGTCA
TGGCTTATTTTTTTTATTTATGGTGTTGTCTCAATCGTTCTTTA
Found at i:14290875 original size:71 final size:71
Alignment explanation
Indices: 14290741--14290948 Score: 217
Period size: 71 Copynumber: 2.9 Consensus size: 71
14290731 TTGTCTCAAT
* * * * * * *
14290741 CGTTCTTTATTTTTTTACTTATGGTGTTATCCCGATCATGCTTTTATTTTTAACCTATAGTGTTG
1 CGTTCTTTATTTTTTGACTTGTGGTGTTATCCCGATCAT-TTTTTATTTTTGACTTGTGGTGTTG
14290806 TTCTAGC
65 TTCTAGC
* *
14290813 CGTTCTTTA-TTTTTGACTTGTAGTGTTGTCCCGATCATTTTTTATTTTTGGACTTGTGGTGTTG
1 CGTTCTTTATTTTTTGACTTGTGGTGTTATCCCGATCATTTTTTATTTTT-GACTTGTGGTGTTG
* *
14290877 -TCTGGT
65 TTCTAGC
* * *
14290883 CGTCCTTTATTTTTTGACTTGTGGTATTATCCTCG-TCA-TTTTTATTTTCTCGACTTGTGGTAT
1 CGTTCTTTATTTTTTGACTTGTGGTGTTATCC-CGATCATTTTTTATTTT-T-GACTTGTGGTGT
14290946 TGT
63 TGT
14290949 CCCAGTTATT
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
70 32 0.28
71 71 0.62
72 11 0.10
ACGTcount: A:0.13, C:0.15, G:0.18, T:0.54
Consensus pattern (71 bp):
CGTTCTTTATTTTTTGACTTGTGGTGTTATCCCGATCATTTTTTATTTTTGACTTGTGGTGTTGT
TCTAGC
Found at i:14291042 original size:36 final size:36
Alignment explanation
Indices: 14290815--14291055 Score: 162
Period size: 35 Copynumber: 6.8 Consensus size: 36
14290805 GTTCTAGCCG
* * *
14290815 TTCTTTATTTT-TGACTTGTAGTGTTGTCC-CGATCA
1 TTCTTTATTTTATGACTTGTGGTATTGTCCTAG-TCA
* * * *
14290850 TTTTTTATTTT-TGGACTTGTGGTGTTGT-CTGGTCG
1 TTCTTTATTTTAT-GACTTGTGGTATTGTCCTAGTCA
* * * *
14290885 TCCTTTATTTTTTGACTTGTGGTATTATCCTCGTCA
1 TTCTTTATTTTATGACTTGTGGTATTGTCCTAGTCA
* * *
14290921 TT-TTTATTTTCTCGACTTGTGGTATTGTCCCAGTTA
1 TTCTTTATTTTAT-GACTTGTGGTATTGTCCTAGTCA
* * *
14290957 TTCTTTATTTTCAT---TTATGGTGTTGTCTTAGT--
1 TTCTTTATTTT-ATGACTTGTGGTATTGTCCTAGTCA
*
14290989 TGTCTTTAGTTTT-TGACTTGTGCTATTGTCCTAGTCA
1 T-TCTTTA-TTTTATGACTTGTGGTATTGTCCTAGTCA
* * *
14291026 TTCCTTATTTTATGACTTGTTGTGTTGTCC
1 TTCTTTATTTTATGACTTGTGGTATTGTCC
14291056 CGATTGTGTT
Statistics
Matches: 162, Mismatches: 29, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
32 2 0.01
33 6 0.04
34 18 0.11
35 63 0.39
36 63 0.39
37 9 0.06
38 1 0.01
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (36 bp):
TTCTTTATTTTATGACTTGTGGTATTGTCCTAGTCA
Found at i:14291174 original size:36 final size:36
Alignment explanation
Indices: 14290818--14291267 Score: 155
Period size: 36 Copynumber: 12.7 Consensus size: 36
14290808 CTAGCCGTTC
*
14290818 TTTA-TTTTTGACTTGTAGTGTTGTCCC-GATCATTT
1 TTTATTTTTTGACTTGTGGTGTTGTCCCAG-TCATTT
* ** * **
14290853 TTTATTTTTGGACTTGTGGTGTTGT-CTGGTCGTCC
1 TTTATTTTTTGACTTGTGGTGTTGTCCCAGTCATTT
* *
14290888 TTTATTTTTTGACTTGTGGTATTATCCTC-GTCA-TT
1 TTTATTTTTTGACTTGTGGTGTTGTCC-CAGTCATTT
* * * *
14290923 TTTATTTTCTCGACTTGTGGTATTGTCCCAGTTATTC
1 TTTATTTT-TTGACTTGTGGTGTTGTCCCAGTCATTT
* * * ** *
14290960 TTTA--TTTTCATTTATGGTGTTGTCTTAGT--TGTC
1 TTTATTTTTTGACTTGTGGTGTTGTCCCAGTCAT-TT
* * * * *
14290993 TTTAGTTTTTGACTTGTGCTATTGTCCTAGTCATTC
1 TTTATTTTTTGACTTGTGGTGTTGTCCCAGTCATTT
* * *
14291029 CTTATTTTATGACTTGTTGTGTTGTCCC-G--ATTGT
1 TTTATTTTTTGACTTGTGGTGTTGTCCCAGTCATT-T
* *** * * * **
14291063 GTTT-TCTTTCTGACTTGCAATATTAT-CCATTTGTTT
1 -TTTAT-TTTTTGACTTGTGGTGTTGTCCCAGTCATTT
* * * * *
14291099 TTTACTTTCT-ACTTAG-AGTGTTGTCTCAGTCATTC
1 TTTATTTTTTGACTT-GTGGTGTTGTCCCAGTCATTT
* *
14291134 TTTATTTTTTGACTTGTGGTATTATCCCAGTCATTT
1 TTTATTTTTTGACTTGTGGTGTTGTCCCAGTCATTT
* * * * * *
14291170 TTTATTTTGCTAACTTATGATGTTATCCCA-AC-TGTT
1 TTTATTTT-TTGACTTGTGGTGTTGTCCCAGTCAT-TT
* ** * *
14291206 CTTTATTTTTTGACTTGGGGTGTTACCCCAGTCGTTC
1 -TTTATTTTTTGACTTGTGGTGTTGTCCCAGTCATTT
* * *
14291243 CTTATTTTCTAACTTGT-GTGTTGTC
1 TTTATTTTTTGACTTGTGGTGTTGTC
14291268 GTAGTCATCC
Statistics
Matches: 304, Mismatches: 83, Indels: 56
0.69 0.19 0.13
Matches are distributed among these distances:
32 1 0.00
33 9 0.03
34 28 0.09
35 107 0.35
36 124 0.41
37 34 0.11
38 1 0.00
ACGTcount: A:0.14, C:0.16, G:0.17, T:0.53
Consensus pattern (36 bp):
TTTATTTTTTGACTTGTGGTGTTGTCCCAGTCATTT
Found at i:14291735 original size:13 final size:12
Alignment explanation
Indices: 14291719--14291818 Score: 67
Period size: 13 Copynumber: 7.8 Consensus size: 12
14291709 TAATAATAAT
14291719 AAAAAATAAAAAC
1 AAAAAA-AAAAAC
14291732 AAAAAACAAAAAC
1 AAAAAA-AAAAAC
14291745 AAAAACAAAACAAC
1 AAAAA-AAAA-AAC
*
14291759 AAAACAACAAAAC
1 AAAA-AAAAAAAC
**
14291772 AATAAAAGGAAAC
1 AA-AAAAAAAAAC
* *
14291785 -AACAAAATAAC
1 AAAAAAAAAAAC
**
14291796 AAAACCAAAAAC
1 AAAAAAAAAAAC
14291808 AAAAAATAAAA
1 AAAAAA-AAAA
14291819 TGGGGATTTT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
11 6 0.09
12 12 0.18
13 35 0.52
14 13 0.19
15 1 0.01
ACGTcount: A:0.79, C:0.15, G:0.02, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:14291771 original size:40 final size:42
Alignment explanation
Indices: 14291726--14291818 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 42
14291716 AATAAAAAAT
14291726 AAAAACAAAAAA-CAAA-AAC-AAA-AACAAAACAACAAAACA
1 AAAAACAAAAAAGCAAACAACAAAATAACAAAACAA-AAAACA
* *
14291765 ACAAAACAATAAAAGGAAACAACAAAATAACAAAACCAAAAACA
1 A-AAAACAA-AAAAGCAAACAACAAAATAACAAAACAAAAAACA
*
14291809 AAAAATAAAA
1 AAAAACAAAA
14291819 TGGGGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
39 1 0.02
40 7 0.16
41 4 0.09
42 5 0.11
43 9 0.20
44 10 0.22
45 9 0.20
ACGTcount: A:0.78, C:0.16, G:0.02, T:0.03
Consensus pattern (42 bp):
AAAAACAAAAAAGCAAACAACAAAATAACAAAACAAAAAACA
Found at i:14291772 original size:21 final size:19
Alignment explanation
Indices: 14291727--14291811 Score: 75
Period size: 21 Copynumber: 4.2 Consensus size: 19
14291717 ATAAAAAATA
14291727 AAAACAAAAAACAAA-AAC
1 AAAACAAAAAACAAACAAC
14291745 AAAAACAAAACAACAAAACAAC
1 -AAAACAAAA-AAC-AAACAAC
*
14291767 AAAACAATAAAAGGAAACAAC
1 AAAACAA-AAAA-CAAACAAC
*
14291788 AAAATAACAAAACCAAA-AAC
1 AAAACAA-AAAA-CAAACAAC
14291808 AAAA
1 AAAA
14291812 AATAAAATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.16
20 10 0.18
21 32 0.57
22 5 0.09
ACGTcount: A:0.78, C:0.18, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAACAAAAAACAAACAAC
Found at i:14291788 original size:29 final size:26
Alignment explanation
Indices: 14291729--14291811 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 26
14291719 AAAAAATAAA
14291729 AACAAAAAACAAAAACAAAAACAAAAC
1 AACAAAAAAC-AAAACAAAAACAAAAC
14291756 AACAAAACAACAAAACAATAAA-AGGAAAC
1 AACAAAA-AACAAAACAA-AAACA--AAAC
14291785 AACAAAATAACAAAACCAAAAACAAAA
1 AACAAAA-AACAAAA-CAAAAACAAAA
14291812 AATAAAATGG
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
27 15 0.31
28 9 0.18
29 21 0.43
30 4 0.08
ACGTcount: A:0.77, C:0.18, G:0.02, T:0.02
Consensus pattern (26 bp):
AACAAAAAACAAAACAAAAACAAAAC
Found at i:14291813 original size:8 final size:8
Alignment explanation
Indices: 14291726--14291799 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
14291716 AATAAAAAAT
14291726 AAAAAC-A
1 AAAAACAA
14291733 AAAAACAA
1 AAAAACAA
14291741 AAACAA-AA
1 AAA-AACAA
14291749 ACAAAACAA
1 A-AAAACAA
*
14291758 CAAAACAA
1 AAAAACAA
*
14291766 CAAAACAA
1 AAAAACAA
* **
14291774 TAAAAGGA
1 AAAAACAA
*
14291782 AACAACAA
1 AAAAACAA
*
14291790 AATAACAA
1 AAAAACAA
14291798 AA
1 AA
14291800 CCAAAAACAA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
7 6 0.11
8 42 0.78
9 6 0.11
ACGTcount: A:0.78, C:0.16, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAACAA
Found at i:14294136 original size:12 final size:13
Alignment explanation
Indices: 14294118--14294150 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
14294108 TAAAATAATT
14294118 CCTTAAATCAAAC
1 CCTTAAATCAAAC
*
14294131 CC-TAAATGAAAC
1 CCTTAAATCAAAC
14294143 CCTTAAAT
1 CCTTAAAT
14294151 TGAAACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.24
Consensus pattern (13 bp):
CCTTAAATCAAAC
Found at i:14294227 original size:40 final size:39
Alignment explanation
Indices: 14294181--14294291 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
14294171 CTAAACCCTT
*
14294181 AACTAAAACGCTAAAATTAAAACCCTAAATTGAAGTACTA
1 AACTAAAACCCTAAAATTAAAACCCTAAATTGAAG-ACTA
* * * *
14294221 AACTAAAACCCTAAATTTAAAACCCTAAATCGAAGCCTT
1 AACTAAAACCCTAAAATTAAAACCCTAAATTGAAGACTA
*
14294260 AACTTAAAACCCT-GAATTAAAACCCTAAATTG
1 AAC-TAAAACCCTAAAATTAAAACCCTAAATTG
14294292 CAACCCTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 21 0.34
40 41 0.66
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.23
Consensus pattern (39 bp):
AACTAAAACCCTAAAATTAAAACCCTAAATTGAAGACTA
Found at i:14294234 original size:13 final size:13
Alignment explanation
Indices: 14294173--14294320 Score: 64
Period size: 13 Copynumber: 10.9 Consensus size: 13
14294163 ATTTACCCCT
*
14294173 AAACCCTTAACTA
1 AAACCCTAAACTA
* *
14294186 AAACGCTAAAATTA
1 AAACCCT-AAACTA
* *
14294200 AAACCCTAAATTG
1 AAACCCTAAACTA
***
14294213 AAGTACTAAACTA
1 AAACCCTAAACTA
*
14294226 AAACCCTAAATTTA
1 AAACCCTAAA-CTA
*
14294240 AAACCCTAAA-TC
1 AAACCCTAAACTA
* * *
14294252 GAAGCCTTAACTTA
1 AAACCCTAAAC-TA
* *
14294266 AAACCCTGAATTA
1 AAACCCTAAACTA
* *
14294279 AAACCCTAAATTG
1 AAACCCTAAACTA
*
14294292 CAACCCTAAAGCTA
1 AAACCCTAAA-CTA
14294306 CCCAAACCCTAAACT
1 ---AAACCCTAAACT
14294321 TATTTTTAAA
Statistics
Matches: 98, Mismatches: 29, Indels: 13
0.70 0.21 0.09
Matches are distributed among these distances:
12 8 0.08
13 48 0.49
14 31 0.32
16 2 0.02
17 9 0.09
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.22
Consensus pattern (13 bp):
AAACCCTAAACTA
Done.