Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 91
Found at i:9061252 original size:23 final size:23
Alignment explanation
Indices: 9061226--9061389 Score: 84
Period size: 23 Copynumber: 6.7 Consensus size: 23
9061216 TAATATAATA
9061226 TTAAAAATTAATATTTAATTTAT
1 TTAAAAATTAATATTTAATTTAT
*
9061249 TTAAAAATTAATATTAAAATTAATAT
1 TTAAAAATTAATATT-TAATT--TAT
* * **
9061275 CT-ATAATATAATA-TTAAAATA-
1 TTAAAAAT-TAATATTTAATTTAT
* * *
9061296 TTAATATTTAATTTATTTAAAAATTAAT
1 TTAAAAATTAA--TATTT---AATTTAT
9061324 ATT-AAAATTAATATCTATAATATAATAT
1 -TTAAAAATTAATAT-T-TAAT-T--TAT
*
9061352 TAAAAAATTAATATTTAATTTAT
1 TTAAAAATTAATATTTAATTTAT
9061375 TTAAAAATTAATATT
1 TTAAAAATTAATATT
9061390 AAAATTAATA
Statistics
Matches: 106, Mismatches: 16, Indels: 38
0.66 0.10 0.24
Matches are distributed among these distances:
21 4 0.04
22 6 0.06
23 34 0.32
24 8 0.08
25 9 0.08
26 17 0.16
27 6 0.06
28 20 0.19
29 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAAAATTAATATTTAATTTAT
Found at i:9061270 original size:63 final size:63
Alignment explanation
Indices: 9061200--9061524 Score: 589
Period size: 63 Copynumber: 5.1 Consensus size: 63
9061190 TTATATGATA
9061200 TAAAATTAAATATCTATAATATAATATT-AAAAATTAATATTTAATTTATTTAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
*
9061263 TAAAATTAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
9061326 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
*
9061389 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAAATTAAAAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTT--AAAAATTAATAT
9061454 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTT-AAAAATTAATAT
9061518 TAAAATT
1 TAAAATT
9061525 TGTTGAGTTA
Statistics
Matches: 255, Mismatches: 4, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
62 20 0.08
63 154 0.60
64 19 0.07
65 62 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (63 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
Found at i:9061489 original size:28 final size:24
Alignment explanation
Indices: 9061455--9061518 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 24
9061445 AATTAAAATT
9061455 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATAT-T-TAAT-TAAT-TTAA
*
9061483 AAAATTAATATTTAATTTATTTAA
1 AAAATTAATATTTAATTAATTTAA
9061507 AAAATTAATATT
1 AAAATTAATATT
9061519 AAAATTTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
24 16 0.46
25 3 0.09
26 4 0.11
27 1 0.03
28 11 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAATTAATATTTAATTAATTTAA
Found at i:9061511 original size:24 final size:27
Alignment explanation
Indices: 9061201--9061519 Score: 156
Period size: 26 Copynumber: 12.5 Consensus size: 27
9061191 TATATGATAT
9061201 AAAATTAAATATCTATAATATAATATT-A
1 AAAATT-AATAT-TATAATATAATATTAA
*
9061229 AAAATTAATATT-TAAT-T--TATTTA
1 AAAATTAATATTATAATATAATATTAA
* *
9061252 AAAATTAATATTAAAAT-TAATATCTAT
1 AAAATTAATATTATAATATAATAT-TAA
* *
9061279 AATA-TAATATTAAAATATTAATATT--
1 AAAATTAATATTATAATA-TAATATTAA
* * *
9061304 -TAATTTAT-TTA-AAAATTAATATT--
1 AAAATTAATATTATAATA-TAATATTAA
9061327 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATAT-TATAATATAATATTAA
*
9061355 AAAATTAATATT-TAAT-T--TATTTA
1 AAAATTAATATTATAATATAATATTAA
* *
9061378 AAAATTAATATTAAAAT-TAATATCTAT
1 AAAATTAATATTATAATATAATAT-TAA
* * *
9061405 AATA-TAATATTAAAAAATTAATATT--
1 AAAATTAATATTATAATA-TAATATTAA
* * * * *
9061430 -TAATTTAT-TTAAAAAAATTAAAATT--
1 AAAATTAATATT-ATAATA-TAATATTAA
9061455 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATAT-TATAATATAATATTAA
*
9061483 AAAATTAATATT-TAAT-TTAT-TTAA
1 AAAATTAATATTATAATATAATATTAA
9061507 AAAATTAATATTA
1 AAAATTAATATTA
9061520 AAATTTGTTG
Statistics
Matches: 236, Mismatches: 27, Indels: 59
0.73 0.08 0.18
Matches are distributed among these distances:
22 4 0.02
23 41 0.17
24 38 0.16
25 28 0.12
26 59 0.25
27 25 0.11
28 41 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
AAAATTAATATTATAATATAATATTAA
Found at i:9062464 original size:13 final size:13
Alignment explanation
Indices: 9062446--9062479 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9062436 TGTTTTGATA
*
9062446 TTCGAATAATTCT
1 TTCGAATAATCCT
9062459 TTCGAATAATCCT
1 TTCGAATAATCCT
*
9062472 ATCGAATA
1 TTCGAATA
9062480 TACTTAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (13 bp):
TTCGAATAATCCT
Found at i:9062688 original size:16 final size:16
Alignment explanation
Indices: 9062667--9062698 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9062657 TAGCATTTAG
9062667 AAAACACATTTAACAC
1 AAAACACATTTAACAC
9062683 AAAACACATTTAACAC
1 AAAACACATTTAACAC
9062699 CATTTAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACACATTTAACAC
Found at i:9065015 original size:23 final size:21
Alignment explanation
Indices: 9064989--9065046 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
9064979 CCCCTGTAGG
9064989 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
9065012 GGGGGAATCGGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
*
9065032 GGGGG-ATCGATTCCC
1 GGGGGAATCGGTTCCC
9065047 TCTGCACTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 6 0.18
20 9 0.27
21 2 0.06
22 3 0.09
23 13 0.39
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:9076590 original size:10 final size:10
Alignment explanation
Indices: 9076575--9076605 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
9076565 TTTACTTAAA
9076575 ATTTTATTTC
1 ATTTTATTTC
9076585 ATTTTATTTC
1 ATTTTATTTC
9076595 ATTTTATTTC
1 ATTTTATTTC
9076605 A
1 A
9076606 AATATTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:9083012 original size:21 final size:21
Alignment explanation
Indices: 9082979--9083027 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9082969 CCCCTTTGAG
* * *
9082979 ATCAACATAATTGTCACGCCA
1 ATCATCATAATTGACACACCA
* *
9083000 ATCATCATCATTGACACACTA
1 ATCATCATAATTGACACACCA
9083021 ATCATCA
1 ATCATCA
9083028 GAGTCTAGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.27
Consensus pattern (21 bp):
ATCATCATAATTGACACACCA
Found at i:9088139 original size:38 final size:34
Alignment explanation
Indices: 9088096--9088174 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
9088086 AAAGTATATA
*
9088096 ATTTATATTAATATAATATAAGTTTATGTATAAACTAT
1 ATTTATATT-ATAAAATATAA--TTAT-TATAAACTAT
*
9088134 ATTTATATTATAAAATATAATTATTATAAGCTAT
1 ATTTATATTATAAAATATAATTATTATAAACTAT
*
9088168 ATATATA
1 ATTTATA
9088175 AATTATGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 15 0.39
35 4 0.11
37 10 0.26
38 9 0.24
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (34 bp):
ATTTATATTATAAAATATAATTATTATAAACTAT
Found at i:9088147 original size:18 final size:18
Alignment explanation
Indices: 9088124--9088394 Score: 76
Period size: 18 Copynumber: 15.3 Consensus size: 18
9088114 TAAGTTTATG
*
9088124 TATAAACTATATTTATAT
1 TATAAACTATATATATAT
*
9088142 TATAAAATATA-AT-TAT
1 TATAAACTATATATATAT
*
9088158 TATAAGCTATATATATAAAT
1 TATAAACTATATATAT--AT
***
9088178 TAT-GTTTATATATATA-
1 TATAAACTATATATATAT
*
9088194 TATATA-TATATATATAT
1 TATAAACTATATATATAT
*
9088211 ATATATA-TATATATATAT
1 -TATAAACTATATATATAT
* *
9088229 ATATAAA--A-CTATGTA-
1 -TATAAACTATATATATAT
* * *
9088244 GACAAACTATATATGTAT
1 TATAAACTATATATATAT
* ** *
9088262 AAACTAGAAAAAAATATAGT-T
1 -TA-TA-AACTATATATA-TAT
*
9088283 TATAAACTATA-ATTTA-
1 TATAAACTATATATATAT
*
9088299 TATTAA-TATAGTATATAT
1 TATAAACTATA-TATATAT
*
9088317 ATATAAAC--TATATAT-G
1 -TATAAACTATATATATAT
* *
9088333 TATAAATTATATATGTAT
1 TATAAACTATATATATAT
9088351 GTAT-AACTAATATATATAT
1 -TATAAACT-ATATATATAT
*
9088370 ATATATA-TATATATATAT
1 -TATAAACTATATATATAT
9088388 ATATAAA
1 -TATAAA
9088395 GTAATAAAGT
Statistics
Matches: 188, Mismatches: 38, Indels: 54
0.67 0.14 0.19
Matches are distributed among these distances:
14 4 0.02
15 10 0.05
16 37 0.20
17 28 0.15
18 59 0.31
19 33 0.18
20 8 0.04
21 8 0.04
22 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (18 bp):
TATAAACTATATATATAT
Found at i:9088186 original size:29 final size:31
Alignment explanation
Indices: 9088137--9088236 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 31
9088127 AAACTATATT
*
9088137 TATAT-TATAAAATATAATTAT-TATA-AGC
1 TATATATATAAAATATAATTATATATATAGA
* ** *
9088165 TATATATATAAATTATGTTTATATATATATA
1 TATATATATAAAATATAATTATATATATAGA
* *
9088196 TATATATAT-ATATAT-A-TATATATATATA
1 TATATATATAAAATATAATTATATATATAGA
9088224 TATATATATAAAA
1 TATATATATAAAA
9088237 CTATGTAGAC
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 26 0.44
29 15 0.25
30 8 0.14
31 10 0.17
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (31 bp):
TATATATATAAAATATAATTATATATATAGA
Found at i:9088199 original size:47 final size:47
Alignment explanation
Indices: 9088090--9088233 Score: 124
Period size: 47 Copynumber: 3.2 Consensus size: 47
9088080 ACTATTAAAG
* * *
9088090 TATATA-ATTTATATTAATATAATATAAGTTTATGTATAAACTATATT
1 TATATATATATATA-TAATATAATATAAGTATATATATAAACTATATT
* * * *
9088137 TATAT-TATAAAATATAAT-TATTATAAGCTATATATATAAATTATGTT
1 TATATATAT-ATATATAATATAATATAAG-TATATATATAAACTATATT
* *
9088184 TATATATATATATAT-ATAT-ATAT-A-TATATATATATA-TATATA
1 TATATATATATATATAATATAATATAAGTATATATATAAACTATATT
9088226 TATATATA
1 TATATATA
9088234 AAACTATGTA
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
42 12 0.15
43 11 0.14
45 1 0.01
46 13 0.16
47 37 0.46
48 6 0.08
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (47 bp):
TATATATATATATATAATATAATATAAGTATATATATAAACTATATT
Found at i:9088409 original size:2 final size:2
Alignment explanation
Indices: 9088165--9088392 Score: 130
Period size: 2 Copynumber: 114.0 Consensus size: 2
9088155 TATTATAAGC
* * *
9088165 TA TA TA TA TA AA T- TA TG TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
9088206 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A AA CTA TG TA GA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * * * * * *
9088248 AA CTA TA TA TG TA TA AA CTA GA AA AA AA TA TA GTT TA TA AA CTA
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA
* * *
9088292 TA -A TT TA TA T- TA -A TA TA GTA TA TA TA TA TA AA CTA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* * *
9088333 TA TA AA T- TA TA TA TG TA TG TA TA -A CTA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
9088373 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
9088393 AAGTAATAAA
Statistics
Matches: 175, Mismatches: 35, Indels: 32
0.72 0.14 0.13
Matches are distributed among these distances:
1 8 0.05
2 158 0.90
3 9 0.05
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:9088763 original size:37 final size:37
Alignment explanation
Indices: 9088710--9088789 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
9088700 ACAATAGTTA
* *
9088710 ATATATGTAACATATAGTATATGTATACATGTAAACT
1 ATATATGTAACATATAGTACATGTATACATATAAACT
* **
9088747 ATATATGTAACTTATAGTACATGTATGTATATAAACT
1 ATATATGTAACATATAGTACATGTATACATATAAACT
9088784 ATATAT
1 ATATAT
9088790 ATATTATGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (37 bp):
ATATATGTAACATATAGTACATGTATACATATAAACT
Found at i:9088899 original size:2 final size:2
Alignment explanation
Indices: 9088882--9088943 Score: 56
Period size: 2 Copynumber: 30.5 Consensus size: 2
9088872 ATATGTAACC
*
9088882 TA TA GTA TA T- TA TA TA TA TA TA TA TA TA TA TA -A TC TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
9088923 TA GTT TA TA TA AA CTA TA TA T
1 TA -TA TA TA TA TA -TA TA TA T
9088944 GTAACCTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
1 2 0.04
2 43 0.88
3 4 0.08
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9088920 original size:11 final size:11
Alignment explanation
Indices: 9088894--9088943 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
9088884 TAGTATATTA
*
9088894 TATATATATATA
1 TATATATA-ATC
9088906 TATATATAATC
1 TATATATAATC
*
9088917 TATATATAGT-
1 TATATATAATC
*
9088927 T-TATATAAAC
1 TATATATAATC
9088937 TATATAT
1 TATATAT
9088944 GTAACCTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 16 0.50
12 8 0.25
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (11 bp):
TATATATAATC
Found at i:9089008 original size:21 final size:21
Alignment explanation
Indices: 9088965--9089031 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
9088955 TTTATAAACA
* * *
9088965 ATAGTTTATATTAGTATACTAT
1 ATAGTTTATA-AACTATAGTAT
9088987 ATAGTTTAT-AACATATAGTAT
1 ATAGTTTATAAAC-TATAGTAT
* *
9089008 ATAATTTATAAACTATAGTTT
1 ATAGTTTATAAACTATAGTAT
9089029 ATA
1 ATA
9089032 TTAATGTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 25 0.66
22 12 0.32
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (21 bp):
ATAGTTTATAAACTATAGTAT
Found at i:9089092 original size:15 final size:15
Alignment explanation
Indices: 9089042--9089092 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9089032 TTAATGTACT
*
9089042 ATATAGTTTATATTA
1 ATATAATTTATATTA
* *
9089057 ATGTTAA-TTATCTTA
1 AT-ATAATTTATATTA
9089072 ACTATAATTTATATTA
1 A-TATAATTTATATTA
9089088 ATATA
1 ATATA
9089093 GTATATAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:9089111 original size:36 final size:36
Alignment explanation
Indices: 9089071--9089163 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
9089061 TAATTATCTT
*
9089071 AACTATAATTTATATTAATATAGTATATAGTTTATA
1 AACTATAATTTATATTAATATAGTAGATAGTTTATA
* * *
9089107 AACTATAATTTGTATTCATGTAGTAGATAGTTTATA
1 AACTATAATTTATATTAATATAGTAGATAGTTTATA
*
9089143 AACTATAGTTTATATTAATAT
1 AACTATAATTTATATTAATAT
9089164 TAACATATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (36 bp):
AACTATAATTTATATTAATATAGTAGATAGTTTATA
Found at i:9089194 original size:15 final size:15
Alignment explanation
Indices: 9089168--9089207 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
9089158 TAATATTAAC
*
9089168 ATATTAATTATAGTTT
1 ATATT-ATTATAGTAT
9089184 ATATTATTATAGTAT
1 ATATTATTATAGTAT
*
9089199 ATAATATTA
1 ATATTATTA
9089208 ATATTAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (15 bp):
ATATTATTATAGTAT
Found at i:9089360 original size:6 final size:6
Alignment explanation
Indices: 9089333--9089394 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
9089323 ATTATAAACT
*
9089333 ATATT- ATATTA ATA-TA A-GTTA ATATT- A-ATT- ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
9089375 ATTATT- ATATTA ATATTA AT
1 A-TATTA ATATTA ATATTA AT
9089395 TATAAATAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.08
5 19 0.40
6 21 0.44
7 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
ATATTA
Found at i:9089371 original size:15 final size:15
Alignment explanation
Indices: 9089302--9089398 Score: 85
Period size: 15 Copynumber: 6.3 Consensus size: 15
9089292 AAAATATAGT
9089302 TTATATTAATATTAA
1 TTATATTAATATTAA
* *
9089317 TTACA--AATTATAAA
1 TTATATTAA-TATTAA
*
9089331 CTATATT-ATATTAA
1 TTATATTAATATTAA
9089345 -TATAAGTTAATATTAA
1 TTAT-A-TTAATATTAA
9089361 TTATATTAATATTAATTA
1 TTATATTAATATT-A--A
9089379 TTATATTAATATTAA
1 TTATATTAATATTAA
9089394 TTATA
1 TTATA
9089399 AATAGTTTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
13 5 0.07
14 14 0.21
15 21 0.31
16 9 0.13
17 4 0.06
18 14 0.21
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (15 bp):
TTATATTAATATTAA
Found at i:9089383 original size:18 final size:18
Alignment explanation
Indices: 9089360--9089397 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9089350 GTTAATATTA
9089360 ATTATATTAATATTAATT
1 ATTATATTAATATTAATT
9089378 ATTATATTAATATTAATT
1 ATTATATTAATATTAATT
9089396 AT
1 AT
9089398 AAATAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATATTAATATTAATT
Found at i:9089391 original size:33 final size:30
Alignment explanation
Indices: 9089332--9089398 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 30
9089322 AATTATAAAC
9089332 TATATTATATTAATATAAGTTAATATTAAT
1 TATATTATATTAATATAAGTTAATATTAAT
9089362 TATATTAATATTAATTATTATA-TTAATATTAAT
1 TATATT-ATATTAA-TA-TA-AGTTAATATTAAT
9089395 TATA
1 TATA
9089399 AATAGTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 6 0.18
31 7 0.21
32 2 0.06
33 17 0.52
34 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (30 bp):
TATATTATATTAATATAAGTTAATATTAAT
Found at i:9089421 original size:43 final size:44
Alignment explanation
Indices: 9089325--9089421 Score: 103
Period size: 43 Copynumber: 2.2 Consensus size: 44
9089315 AATTACAAAT
* *
9089325 TATAAACTATATTATATTAATATAAGTTAATATTAATTATATTAA
1 TATAAAAT-TATTATATTAATATAAGTTAATAATAATTATATTAA
* *
9089370 TAT-TAATTATTATATTAATATTAA-TT-ATAAATAGTT-TATTAA
1 TATAAAATTATTATATTAATA-TAAGTTAAT-AATAATTATATTAA
9089412 TATAAAATTA
1 TATAAAATTA
9089422 CATAGGATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
42 11 0.25
43 25 0.57
44 5 0.11
45 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (44 bp):
TATAAAATTATTATATTAATATAAGTTAATAATAATTATATTAA
Found at i:9089843 original size:20 final size:20
Alignment explanation
Indices: 9089808--9089846 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9089798 ATTTCTTAAC
**
9089808 TTGTTCATCCTTGTTCATAA
1 TTGTTCATCCGAGTTCATAA
9089828 TTGTTCATCCGAGTTCATA
1 TTGTTCATCCGAGTTCATA
9089847 CCAAAACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (20 bp):
TTGTTCATCCGAGTTCATAA
Found at i:9089936 original size:123 final size:126
Alignment explanation
Indices: 9089723--9089955 Score: 276
Period size: 123 Copynumber: 1.9 Consensus size: 126
9089713 TGTTCTTTGA
* ** * *
9089723 AAAACCCTTCATTTGATCTTCAAAAACACCAAATCCCAAACATTTTTTTCTGTTTTTTTGGATCA
1 AAAACCCTTCATTTGATCTTCAAAAACACCAAAACCCAAACATAATTCTCTGTTTTTTTCGATCA
*** * * *
9089788 AACACATGGAATTTCTTAACTTGTTCATCCTTGTTCATAATTGTTCATCCGAGTTCATACC
66 AACACACAAAATTTCTTAACATGTTCATCCGTATTCATAATTGTTCATCCGAGTTCATACC
* *
9089849 AAAACCC-TCATTTGATCTTCATAAACACCAAAACCCACACA-AATTCT-TGTTTTTTTCGATCA
1 AAAACCCTTCATTTGATCTTCAAAAACACCAAAACCCAAACATAATTCTCTGTTTTTTTCGATCA
* ** *
9089911 AACACCCAAAATTT-TCTCCCATGTTCATCCGTATTCATATTTGTT
66 AACACACAAAATTTCT-TAACATGTTCATCCGTATTCATAATTGTT
9089956 TTTCACAAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
122 1 0.01
123 47 0.53
124 3 0.03
125 31 0.35
126 7 0.08
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.37
Consensus pattern (126 bp):
AAAACCCTTCATTTGATCTTCAAAAACACCAAAACCCAAACATAATTCTCTGTTTTTTTCGATCA
AACACACAAAATTTCTTAACATGTTCATCCGTATTCATAATTGTTCATCCGAGTTCATACC
Found at i:9090750 original size:21 final size:17
Alignment explanation
Indices: 9090710--9090752 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
9090700 TTGTGTTGTT
9090710 GTTGGTTGTTCATTCGG
1 GTTGGTTGTTCATTCGG
9090727 GTTGGTTGTTCATTCGG
1 GTTGGTTGTTCATTCGG
*
9090744 ATTGGTTGT
1 GTTGGTTGT
9090753 ATAAGGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.07, C:0.09, G:0.35, T:0.49
Consensus pattern (17 bp):
GTTGGTTGTTCATTCGG
Found at i:9091241 original size:18 final size:18
Alignment explanation
Indices: 9091215--9091258 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9091205 TCACGGAATG
9091215 TAAGATTACCGACAGGAA
1 TAAGATTACCGACAGGAA
* *
9091233 TAGGATTACCGACGGGAA
1 TAAGATTACCGACAGGAA
9091251 TAAGATTA
1 TAAGATTA
9091259 TTGGGAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (18 bp):
TAAGATTACCGACAGGAA
Found at i:9095091 original size:18 final size:18
Alignment explanation
Indices: 9095065--9095119 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
9095055 TCAGTTGTCA
*
9095065 TTCGAGACATAGTGGTCC
1 TTCGGGACATAGTGGTCC
*
9095083 TTCGGGACACAGTGGTCC
1 TTCGGGACATAGTGGTCC
*
9095101 TTCAGGACATAGTGGTCC
1 TTCGGGACATAGTGGTCC
9095119 T
1 T
9095120 ACGAGCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (18 bp):
TTCGGGACATAGTGGTCC
Found at i:9096153 original size:13 final size:13
Alignment explanation
Indices: 9096135--9096163 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9096125 TTATTAATTA
9096135 TTTAAATTTAAAT
1 TTTAAATTTAAAT
9096148 TTTAAATTTAAAT
1 TTTAAATTTAAAT
9096161 TTT
1 TTT
9096164 TAGGGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTAAATTTAAAT
Found at i:9097114 original size:23 final size:24
Alignment explanation
Indices: 9097086--9097139 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
9097076 TTATTTTTTC
9097086 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
9097109 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
9097133 TTTACAT
1 TTTACAT
9097140 TTAATCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:9097212 original size:12 final size:13
Alignment explanation
Indices: 9097159--9097220 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 13
9097149 GTTCAATGCT
9097159 AATAATTTTATT-
1 AATAATTTTATTA
* *
9097171 AATCATGTT-TTA
1 AATAATTTTATTA
*
9097183 TATAATTTATATTTA
1 AATAATTT-TA-TTA
9097198 AAT-ATTTTATTA
1 AATAATTTTATTA
9097210 AATAATTTTAT
1 AATAATTTTAT
9097221 ATAATAAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
11 2 0.05
12 18 0.46
13 10 0.26
14 4 0.10
15 5 0.13
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
AATAATTTTATTA
Found at i:9097226 original size:13 final size:12
Alignment explanation
Indices: 9097158--9097227 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 12
9097148 TGTTCAATGC
9097158 TAATAATTTTAT
1 TAATAATTTTAT
* *
9097170 TAATCATGTT-T
1 TAATAATTTTAT
9097181 TATATAATTTATATT
1 TA-ATAATTT-TA-T
9097196 TAA-ATATTTTAT
1 TAATA-ATTTTAT
9097208 TAAATAATTTTAT
1 T-AATAATTTTAT
9097221 ATAATAA
1 -TAATAA
9097228 ATCTATTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
11 3 0.07
12 15 0.33
13 18 0.39
14 7 0.15
15 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (12 bp):
TAATAATTTTAT
Found at i:9097314 original size:35 final size:34
Alignment explanation
Indices: 9097244--9097314 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 34
9097234 TTATTAATTT
9097244 AATTATCATAATAAATTTTTATTATAACATTTAAA
1 AATTATCATAATAAATTTTTATTATAACA-TTAAA
* * *
9097279 AATTAATCATATTAATTTTTTAATTATATCA-TAAA
1 AATT-ATCATAATAAATTTTT-ATTATAACATTAAA
9097314 A
1 A
9097315 TCAAAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 9 0.29
36 14 0.45
37 8 0.26
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (34 bp):
AATTATCATAATAAATTTTTATTATAACATTAAA
Found at i:9100714 original size:21 final size:21
Alignment explanation
Indices: 9100690--9100729 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9100680 AAGACTTTAT
9100690 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
9100711 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
9100730 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:9106848 original size:19 final size:19
Alignment explanation
Indices: 9106824--9106862 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9106814 TAAGGGGGAG
9106824 TAATTTTTCAAAACTTGAT
1 TAATTTTTCAAAACTTGAT
9106843 TAATTTTTCAAAACTTGAT
1 TAATTTTTCAAAACTTGAT
9106862 T
1 T
9106863 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
TAATTTTTCAAAACTTGAT
Found at i:9110232 original size:30 final size:31
Alignment explanation
Indices: 9110160--9110233 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 31
9110150 GGGGCGTGAT
* * * *
9110160 AGCCTACCTAAGACAATTCTCGGGGCCACGG
1 AGCCTACCCAAGAAAAATCTCGGGGCCACAG
* *
9110191 AGGCTTACCCAAGAAAAATCTC-GGGCCGCAG
1 A-GCCTACCCAAGAAAAATCTCGGGGCCACAG
9110222 AGCCTACCCAAG
1 AGCCTACCCAAG
9110234 TCTCGCCTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 10 0.29
31 9 0.26
32 16 0.46
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (31 bp):
AGCCTACCCAAGAAAAATCTCGGGGCCACAG
Found at i:9111114 original size:24 final size:24
Alignment explanation
Indices: 9111087--9111141 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
9111077 AGAGTCAACT
*
9111087 GGTCGGGT-AGGGTCAAATAGTTCG
1 GGTCGGGTCA-GGTCAAACAGTTCG
9111111 GGTCGGGTCAGGTCAAACAGTTCG
1 GGTCGGGTCAGGTCAAACAGTTCG
9111135 GGTCGGG
1 GGTCGGG
9111142 GAAGGCCGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.44, T:0.22
Consensus pattern (24 bp):
GGTCGGGTCAGGTCAAACAGTTCG
Found at i:9111757 original size:2 final size:2
Alignment explanation
Indices: 9111750--9111803 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
9111740 TAAAACAATA
9111750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9111790 -T TT AA AT AT AT AT A
1 AT AT AT AT AT AT AT A
9111804 GGGTGTAGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9115160 original size:20 final size:19
Alignment explanation
Indices: 9115119--9115161 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9115109 CCAACAAAAT
* *
9115119 TAAAAAGGAATCCTGTATC
1 TAAAAAGGAATCCTGAAAC
*
9115138 TAAAAAGGTATCCCTGAAAC
1 TAAAAAGGAAT-CCTGAAAC
9115158 TAAA
1 TAAA
9115162 TTTTAGATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (19 bp):
TAAAAAGGAATCCTGAAAC
Found at i:9118288 original size:12 final size:13
Alignment explanation
Indices: 9118273--9118304 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9118263 GAAATAAATT
9118273 ATATTTT-AAAAA
1 ATATTTTAAAAAA
9118285 ATATTTTAAAAAA
1 ATATTTTAAAAAA
9118298 ATATTTT
1 ATATTTT
9118305 TATAAGATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAAAA
Found at i:9118440 original size:22 final size:20
Alignment explanation
Indices: 9118378--9118441 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 20
9118368 CAAATACAAT
*
9118378 AAATAGTACT-ATTTATTAATA
1 AAATAGTAATAATTTATT--TA
9118399 AAATAGTAATAATATT-TTTA
1 AAATAGTAATAAT-TTATTTA
9118419 AAATAGTAGAATAATTTATTTA
1 AAATAGT--AATAATTTATTTA
9118441 A
1 A
9118442 TATTATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 9 0.24
21 11 0.30
22 15 0.41
23 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (20 bp):
AAATAGTAATAATTTATTTA
Found at i:9118604 original size:19 final size:20
Alignment explanation
Indices: 9118560--9118606 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
9118550 ATTAAAATAA
*
9118560 AATAATATACTATTAATTAT
1 AATAATATACTATTAATGAT
*
9118580 ATTAAT-TACTTATTAA-GAT
1 AATAATATAC-TATTAATGAT
9118599 AATAATAT
1 AATAATAT
9118607 TATTGTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
AATAATATACTATTAATGAT
Found at i:9118670 original size:13 final size:13
Alignment explanation
Indices: 9118652--9118677 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9118642 AAAATATTAT
9118652 ATTATATTTTAAA
1 ATTATATTTTAAA
9118665 ATTATATTTTAAA
1 ATTATATTTTAAA
9118678 TATTCAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATATTTTAAA
Found at i:9118713 original size:24 final size:25
Alignment explanation
Indices: 9118661--9118713 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
9118651 TATTATATTT
*
9118661 TAAA-ATTATATTTTAAATATTCAA
1 TAAATATTATATTTTAAAAATTCAA
9118685 T-AATATTAT-TTTTATAAAATT-AA
1 TAAATATTATATTTTA-AAAATTCAA
9118708 TAAATA
1 TAAATA
9118714 AAATTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATATTATATTTTAAAAATTCAA
Found at i:9118768 original size:29 final size:29
Alignment explanation
Indices: 9118735--9118792 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
9118725 ATTAATAACT
9118735 TATTATATATTATTAA-AATAAAATTATAA
1 TATTATATATTA-TAATAATAAAATTATAA
* *
9118764 TATTATTTATTATAATAATATAATTATAA
1 TATTATATATTATAATAATAAAATTATAA
9118793 CCATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TATTATATATTATAATAATAAAATTATAA
Found at i:9126043 original size:20 final size:21
Alignment explanation
Indices: 9126003--9126050 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
9125993 TTCGGATAAT
*
9126003 ATATTCAGTTAAAAAAATCGG
1 ATATTCAATTAAAAAAATCGG
*
9126024 ATATTCAATT-AAAAAGTCGG
1 ATATTCAATTAAAAAAATCGG
9126044 ATATTCA
1 ATATTCA
9126051 TCGAAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (21 bp):
ATATTCAATTAAAAAAATCGG
Found at i:9126662 original size:31 final size:32
Alignment explanation
Indices: 9126600--9126664 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
9126590 TGTAAATTAG
* *
9126600 ATAATGAATCTGGATTTTTTTTATTATTTTAT
1 ATAATGAATCTGGATTTTTATTATTACTTTAT
9126632 ATAATTGAATCT-GA-TTTTATTATTACTTTAT
1 ATAA-TGAATCTGGATTTTTATTATTACTTTAT
9126663 AT
1 AT
9126665 CAAATGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 17 0.57
32 6 0.20
33 7 0.23
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.57
Consensus pattern (32 bp):
ATAATGAATCTGGATTTTTATTATTACTTTAT
Found at i:9126679 original size:32 final size:31
Alignment explanation
Indices: 9126615--9126681 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
9126605 GAATCTGGAT
* * * **
9126615 TTTTTTTATTATTTTATATAATTGAATCTGA
1 TTTTATTATTACTTTATATAAATGAAAATGA
9126646 TTTTATTATTACTTTATATCAAATGAAAATGA
1 TTTTATTATTACTTTATAT-AAATGAAAATGA
9126678 TTTT
1 TTTT
9126682 TTTCTTGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.57
32 13 0.43
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (31 bp):
TTTTATTATTACTTTATATAAATGAAAATGA
Found at i:9127853 original size:18 final size:17
Alignment explanation
Indices: 9127799--9127847 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
9127789 TTGAACCCTT
* *
9127799 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
9127817 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
9127835 AGTGCATTCGATG
1 AGTGCA-TCGATG
9127848 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:9135698 original size:3 final size:3
Alignment explanation
Indices: 9135690--9135722 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
9135680 ATTAGTTAAT
9135690 TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
9135723 TTTATAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9135711 original size:22 final size:22
Alignment explanation
Indices: 9135686--9135731 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
9135676 ATAAATTAGT
*
9135686 TAATTAATAATAATAATAATAA
1 TAATAAATAATAATAATAATAA
* *
9135708 TAATAAATAATAATATTTATAA
1 TAATAAATAATAATAATAATAA
9135730 TA
1 TA
9135732 TTTTTAAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATAAATAATAATAATAATAA
Found at i:9135729 original size:16 final size:16
Alignment explanation
Indices: 9135690--9135722 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9135680 ATTAGTTAAT
9135690 TAATAAT-AATAATAA
1 TAATAATAAATAATAA
9135705 TAATAATAAATAATAA
1 TAATAATAAATAATAA
9135721 TA
1 TA
9135723 TTTATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATAATAAATAATAA
Found at i:9136050 original size:90 final size:90
Alignment explanation
Indices: 9135898--9136335 Score: 625
Period size: 90 Copynumber: 4.9 Consensus size: 90
9135888 GGAAATTTTA
* * **
9135898 AAAACATCCAGCATTGAAGGTCTTATGG-TTTCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
1 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
* *
9135962 GGCTTAGTTTCTTAAATTTCATTTG
66 GGCTCAGTTTCTTAAATCTCATTTG
* * *
9135987 AAAACATCTTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATAAAGAAACCCCCGAA
1 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
* *
9136052 GGCTCAGTTT-TTAAAATTTAATTTG
66 GGCTCAGTTTCTT-AAATCTCATTTG
* * ** *
9136077 AAAACATCTTACACTGAAGGTCTTATGGATGGCCTGAACAACTTAAAAATCAAGAAACCCCCAAA
1 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
*
9136142 GGCTCAGTTTCTTAGATCTCATTTG
66 GGCTCAGTTTCTTAAATCTCATTTG
*
9136167 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAA-CCCCGAA
1 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
* *
9136231 GACTTAGTTTC-TAAGATCTCATTTG
66 GGCTCAGTTTCTTAA-ATCTCATTTG
*
9136256 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAAAT-AAGAAACCCCTGA
1 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTT-AAAAATCAAGAAACCCCCGA
9136320 AGGCTCAGTTTCTTAA
65 AGGCTCAGTTTCTTAA
9136336 TTGTCACCAA
Statistics
Matches: 311, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
88 2 0.01
89 101 0.32
90 203 0.65
91 5 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (90 bp):
AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
GGCTCAGTTTCTTAAATCTCATTTG
Found at i:9136199 original size:180 final size:179
Alignment explanation
Indices: 9135898--9136335 Score: 648
Period size: 179 Copynumber: 2.4 Consensus size: 179
9135888 GGAAATTTTA
* **
9135898 AAAACATCC-AGCATTGAAGGTCTTATGG-TTTCCTGAAGGACTTAAAAATCAAGAAACCCCCGA
1 AAAACATCCTA-CACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGA
* * *
9135961 AGGCTTAGTTTCTTAAATTTCATTTGAAAACATCTTGCACTGAAGGTCTTATGGATGGCCCGAAG
65 AGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAG
* * *
9136026 GACTTAAAAATAAAGAAACCCCCGAAGGCTCAGTTTTTAAAATTTAATTTG
130 GACTTAAAAATAAAGAAA-CCCCGAAGACTCAGTTTCTAAAATCTAATTTG
* ** *
9136077 AAAACATCTTACACTGAAGGTCTTATGGATGGCCTGAACAACTTAAAAATCAAGAAACCCCCAAA
1 AAAACATCCTACACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
*
9136142 GGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGG
66 GGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGG
* * * *
9136207 ACTTAAAAATCAAGAAACCCCGAAGACTTAGTTTCTAAGATCTCATTTG
131 ACTTAAAAATAAAGAAACCCCGAAGACTCAGTTTCTAAAATCTAATTTG
* *
9136256 AAAACATCCTGCACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAAAT-AAGAAACCCCTGA
1 AAAACATCCTACACTGAAGGTCTTATGGATGGCCTGAAGGACTT-AAAAATCAAGAAACCCCCGA
9136320 AGGCTCAGTTTCTTAA
65 AGGCTCAGTTTCTTAA
9136336 TTGTCACCAA
Statistics
Matches: 231, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
179 116 0.50
180 115 0.50
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (179 bp):
AAAACATCCTACACTGAAGGTCTTATGGATGGCCTGAAGGACTTAAAAATCAAGAAACCCCCGAA
GGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGG
ACTTAAAAATAAAGAAACCCCGAAGACTCAGTTTCTAAAATCTAATTTG
Found at i:9136455 original size:43 final size:43
Alignment explanation
Indices: 9136384--9136697 Score: 393
Period size: 43 Copynumber: 7.3 Consensus size: 43
9136374 CAAGTGTTCA
* * *
9136384 TCAAGTTTGTCATCAAGGAACCCCTACATATCACGATGGTCCC
1 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCTC
* * * * * *
9136427 TCAAGATTTTCGTCAATA-AACCTCTACATATCACGATAGTTTC
1 TCAAGCTTGTCATCAA-AGAACCCCTACATATCACGATGGTCTC
* *
9136470 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATAGTCTT
1 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCTC
* *
9136513 TCAAGCTTTTCATC-AAGAAACCCCTACATATCACGATGGTTTC
1 TCAAGCTTGTCATCAAAG-AACCCCTACATATCACGATGGTCTC
9136556 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTC-C
1 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCTC
* * *
9136598 TTCAAGCTTATCATCAAAGAACCCCTACATATCATGATGGTCTT
1 -TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCTC
*
9136642 TCAAGCTTGTCATC-AAGAAACCCCTACATATCACGATGGTTTC
1 TCAAGCTTGTCATCAAAG-AACCCCTACATATCACGATGGTCTC
* *
9136685 TCAATCTTTTCAT
1 TCAAGCTTGTCAT
9136698 TACATAACGA
Statistics
Matches: 235, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
42 8 0.03
43 224 0.95
44 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (43 bp):
TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCTC
Found at i:9136534 original size:86 final size:85
Alignment explanation
Indices: 9136384--9136681 Score: 438
Period size: 86 Copynumber: 3.5 Consensus size: 85
9136374 CAAGTGTTCA
* * * * *
9136384 TCAAGTTTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGATTTTCGTCAATAAACC
1 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTTTCATCAA-AAACC
* *
9136449 TCTACATATCACGATAGTTTC
65 CCTACATATCACGATGGTTTC
* *
9136470 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATAGTCTTTCAAGCTTTTCATCAAGAAACC
1 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTTTCATCAA-AAACC
9136535 CCTACATATCACGATGGTTTC
65 CCTACATATCACGATGGTTTC
*
9136556 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTATCATCAAAGAACC
1 TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTTTCATCAAA-AACC
*
9136621 CCTACATATCATGATGGTCTT-
65 CCTACATATCACGATGGT-TTC
9136642 TCAAGCTTGTCATC-AAGAAACCCCTACATATCACGATGGT
1 TCAAGCTTGTCATCAAAG-AACCCCTACATATCACGATGGT
9136682 TTCTCAATCT
Statistics
Matches: 195, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
85 4 0.02
86 189 0.97
87 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.29
Consensus pattern (85 bp):
TCAAGCTTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTTTCATCAAAAACCC
CTACATATCACGATGGTTTC
Found at i:9136614 original size:129 final size:125
Alignment explanation
Indices: 9136384--9136782 Score: 462
Period size: 129 Copynumber: 3.2 Consensus size: 125
9136374 CAAGTGTTCA
* ** *
9136384 TCAAG-TTTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGATTTTCGTCAATAAAC
1 TCAAGCTTT-TCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAG-CTTTC-TCAA-AAAC
* * *
9136448 CTCTACATATCACGATAGT-TTCTCAAGCTTGTCATCAAAGAACCCCTACATATCACGATAGTCT
62 C-CTACATATCACGATAGTCCT-TCAAGCTTATCATCAAAGAACCCCTACATATCACGATGGTCT
9136512 T
125 T
9136513 TCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAAGAACC
1 TCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTT-TC-TCAAA-AA-C
* *
9136578 CCTACATATCACGATGGTCCTTCAAGCTTATCATCAAAGAACCCCTACATATCATGATGGTCTT
62 CCTACATATCACGATAGTCCTTCAAGCTTATCATCAAAGAACCCCTACATATCACGATGGTCTT
* * *
9136642 TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAATCTTT-TC----A--TTA
1 TCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTCTCAAAAACCCTA
* * * * *
9136700 CATA--ACGATAGTCCCTCAAACTTCTCCTC-AAGAAACCCCTACATATCACGATGGTCTC
66 CATATCACGATAGTCCTTCAAGCTTATCATCAAAG-AACCCCTACATATCACGATGGTCTT
9136758 TCAAGCTTTTCATCAAGAAACCCCT
1 TCAAGCTTTTCATCAAGAAACCCCT
9136783 GAAAATTAGG
Statistics
Matches: 243, Mismatches: 21, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
115 3 0.01
116 67 0.28
118 6 0.02
121 1 0.00
126 2 0.01
128 4 0.02
129 154 0.63
130 6 0.02
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (125 bp):
TCAAGCTTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTCTCAAAAACCCTA
CATATCACGATAGTCCTTCAAGCTTATCATCAAAGAACCCCTACATATCACGATGGTCTT
Found at i:9136743 original size:41 final size:42
Alignment explanation
Indices: 9136698--9136782 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 42
9136688 ATCTTTTCAT
*
9136698 TACATA-ACGATAGTCCCTCAAACTTCTCCTCAAGAAACCCC
1 TACATACACGATAGTCCCTCAAACTTCTCATCAAGAAACCCC
* * * *
9136739 TACATATCACGATGGTCTCTCAAGCTTTTCATCAAGAAACCCC
1 TACATA-CACGATAGTCCCTCAAACTTCTCATCAAGAAACCCC
9136782 T
1 T
9136783 GAAAATTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 6 0.16
43 31 0.84
ACGTcount: A:0.32, C:0.33, G:0.09, T:0.26
Consensus pattern (42 bp):
TACATACACGATAGTCCCTCAAACTTCTCATCAAGAAACCCC
Found at i:9136857 original size:39 final size:39
Alignment explanation
Indices: 9136804--9136922 Score: 109
Period size: 39 Copynumber: 3.1 Consensus size: 39
9136794 TTAGTTTCTA
* * *
9136804 AAAATATTGTGTTTCGAGCGAAACTATCTCAAGCGAGAT
1 AAAATATTCTGTTTCAAGCGAAACTATCTCAAGCGAGAC
* * * * *
9136843 AAAATCTTCTGTTTCAAGTGAAATTGTCTCAAGGGAGAC
1 AAAATATTCTGTTTCAAGCGAAACTATCTCAAGCGAGAC
* ** *
9136882 -AAA-ATT-TGTTTCAAGGGAAACCGTCTCAAGTGAGAC
1 AAAATATTCTGTTTCAAGCGAAACTATCTCAAGCGAGAC
9136918 AAAAT
1 AAAAT
9136923 TTGTTTCAAG
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
36 26 0.40
37 5 0.08
38 3 0.05
39 31 0.48
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (39 bp):
AAAATATTCTGTTTCAAGCGAAACTATCTCAAGCGAGAC
Found at i:9136895 original size:21 final size:21
Alignment explanation
Indices: 9136866--9136956 Score: 77
Period size: 21 Copynumber: 4.6 Consensus size: 21
9136856 TCAAGTGAAA
*
9136866 TTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAGACAAAAT
9136887 TTGTTTCAA-GG-G---AAA-
1 TTGTTTCAAGGGAGACAAAAT
** * *
9136902 CCGTCTCAAGTGAGACAAAAT
1 TTGTTTCAAGGGAGACAAAAT
*
9136923 TTGTTTCAAGGGAGATAAAAT
1 TTGTTTCAAGGGAGACAAAAT
*
9136944 TTGTTTAAAGGGA
1 TTGTTTCAAGGGA
9136957 AACTATCTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
15 6 0.11
16 4 0.08
17 1 0.02
19 1 0.02
20 5 0.09
21 36 0.68
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (21 bp):
TTGTTTCAAGGGAGACAAAAT
Found at i:9136908 original size:36 final size:36
Alignment explanation
Indices: 9136852--9136935 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
9136842 TAAAATCTTC
* **
9136852 TGTTTCAAGTGAAATTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATT
*
9136888 TGTTTCAAGGGAAACCGTCTCAAGTGAGACAAAATT
1 TGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATT
9136924 TGTTTCAAGGGA
1 TGTTTCAAGGGA
9136936 GATAAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATT
Found at i:9136935 original size:57 final size:57
Alignment explanation
Indices: 9136866--9136977 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 57
9136856 TCAAGTGAAA
* * *
9136866 TTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGTGAGACAAAAT
1 TTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACCATCTCAAGAGAGACAAAAT
* * *
9136923 TTGTTTCAAGGGAGATAAAATTTGTTTAAAGGGAAACTATCTCAAGAGAGACAAA
1 TTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACCATCTCAAGAGAGACAAA
9136978 TTTTCTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (57 bp):
TTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACCATCTCAAGAGAGACAAAAT
Found at i:9137450 original size:33 final size:32
Alignment explanation
Indices: 9137383--9137518 Score: 175
Period size: 33 Copynumber: 4.2 Consensus size: 32
9137373 AGGATATTGA
* *
9137383 ATGCCCCAATATTCGATATTGAATCACCAAAG
1 ATGCCCCAATATTTGATATTGAATCTCCAAAG
* *
9137415 ATGCCCCAATATTTTGATGTTGAATCTCCATAG
1 ATGCCCCAATA-TTTGATATTGAATCTCCAAAG
*
9137448 ATGCCCCAACATTTGATATTGAATCTCCAAAG
1 ATGCCCCAATATTTGATATTGAATCTCCAAAG
* *
9137480 ATGCCCCAA-ACTTTTGATGTTGAATCTTCAAAG
1 ATGCCCCAATA--TTTGATATTGAATCTCCAAAG
9137513 ATGCCC
1 ATGCCC
9137519 TCTATTACTT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
31 1 0.01
32 39 0.42
33 52 0.57
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (32 bp):
ATGCCCCAATATTTGATATTGAATCTCCAAAG
Found at i:9137487 original size:65 final size:65
Alignment explanation
Indices: 9137383--9137518 Score: 211
Period size: 65 Copynumber: 2.1 Consensus size: 65
9137373 AGGATATTGA
* *
9137383 ATGCCCCAATATTCGATATTGAATCACCAAAGATGCCCCAATA-TTTTGATGTTGAATCTCCATA
1 ATGCCCCAACATTCGATATTGAATCACCAAAGATGCCCCAA-ACTTTTGATGTTGAATCTCCAAA
9137447 G
65 G
* * *
9137448 ATGCCCCAACATTTGATATTGAATCTCCAAAGATGCCCCAAACTTTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACATTCGATATTGAATCACCAAAGATGCCCCAAACTTTTGATGTTGAATCTCCAAAG
9137513 ATGCCC
1 ATGCCC
9137519 TCTATTACTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 1 0.02
65 64 0.98
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (65 bp):
ATGCCCCAACATTCGATATTGAATCACCAAAGATGCCCCAAACTTTTGATGTTGAATCTCCAAAG
Found at i:9139819 original size:13 final size:13
Alignment explanation
Indices: 9139801--9139825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9139791 TGTAGAATGT
9139801 AAATGCAAATGCC
1 AAATGCAAATGCC
9139814 AAATGCAAATGC
1 AAATGCAAATGC
9139826 AAAAGGTGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGCAAATGCC
Found at i:9144205 original size:21 final size:20
Alignment explanation
Indices: 9144171--9144209 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9144161 CTTAAATTTA
*
9144171 AATAGAATAAAATATCATAG
1 AATAAAATAAAATATCATAG
9144191 AATAAAATAAAAATATCAT
1 AATAAAAT-AAAATATCAT
9144210 CGTCAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AATAAAATAAAATATCATAG
Found at i:9144417 original size:16 final size:16
Alignment explanation
Indices: 9144392--9144422 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9144382 ATGATACTCA
*
9144392 AACAATGATCAAAATG
1 AACAAAGATCAAAATG
9144408 AACAAAGATCAAAAT
1 AACAAAGATCAAAAT
9144423 AGCCATAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.13, G:0.10, T:0.16
Consensus pattern (16 bp):
AACAAAGATCAAAATG
Found at i:9155121 original size:24 final size:24
Alignment explanation
Indices: 9155093--9155139 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9155083 CTCGTTATCT
9155093 TTGACCGAATCAACCCATTGACCG
1 TTGACCGAATCAACCCATTGACCG
* *
9155117 TTGACCGAGTCAACCCGTTGACC
1 TTGACCGAATCAACCCATTGACC
9155140 AGTCTAACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.21
Consensus pattern (24 bp):
TTGACCGAATCAACCCATTGACCG
Found at i:9155150 original size:16 final size:16
Alignment explanation
Indices: 9155113--9155154 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
9155103 CAACCCATTG
9155113 ACCGTTGACCGAGTCA
1 ACCGTTGACCGAGTCA
9155129 ACCCGTTGACC-AGTCTA
1 A-CCGTTGACCGAGTC-A
9155146 ACCGTTGAC
1 ACCGTTGAC
9155155 TTTGACCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (16 bp):
ACCGTTGACCGAGTCA
Found at i:9157039 original size:15 final size:15
Alignment explanation
Indices: 9157019--9157048 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9157009 TGTCTGATTA
9157019 GACCCATTAGTAATC
1 GACCCATTAGTAATC
9157034 GACCCATTAGTAATC
1 GACCCATTAGTAATC
9157049 TTGTAGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (15 bp):
GACCCATTAGTAATC
Found at i:9159284 original size:19 final size:19
Alignment explanation
Indices: 9159238--9159277 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
9159228 AATATGACAC
9159238 CCCGAATCGGATCGGACCA
1 CCCGAATCGGATCGGACCA
9159257 CCCGAATCGGATCGGACCA
1 CCCGAATCGGATCGGACCA
9159276 CC
1 CC
9159278 TGCATCGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (19 bp):
CCCGAATCGGATCGGACCA
Found at i:9166451 original size:19 final size:18
Alignment explanation
Indices: 9166404--9166462 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
9166394 ATAAAACAAG
9166404 AAAAAATAAAAAATAACA
1 AAAAAATAAAAAATAACA
** *
9166422 AAACACGTAAAAAATAATA
1 AAA-AAATAAAAAATAACA
9166441 AACAAAAT-AAAAATAAACA
1 AA-AAAATAAAAAAT-AACA
9166460 AAA
1 AAA
9166463 TGAATAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
18 10 0.31
19 21 0.66
20 1 0.03
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAAAATAACA
Found at i:9166690 original size:18 final size:17
Alignment explanation
Indices: 9166657--9166704 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9166647 ACATGATATT
*
9166657 AAGAAGAAAA-AAAATA
1 AAGAAAAAAATAAAATA
9166673 ATAGAAAAAAATAAAATA
1 A-AGAAAAAAATAAAATA
*
9166691 AAGTAAAAATATAA
1 AAG-AAAAAAATAA
9166705 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 10 0.37
18 16 0.59
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (17 bp):
AAGAAAAAAATAAAATA
Found at i:9166758 original size:38 final size:38
Alignment explanation
Indices: 9166716--9166800 Score: 104
Period size: 38 Copynumber: 2.2 Consensus size: 38
9166706 ATATATATAT
*
9166716 ATATATATAAATAAAAAC-A-AAATTATAATATTAAGAAA
1 ATATATAT-AAT-AAAACGATAAAATATAATATTAAGAAA
9166754 ATATATAT-ATAAAACGTATAAAATATAATATTAAGAAA
1 ATATATATAATAAAACG-ATAAAATATAATATTAAGAAA
*
9166792 AAATATATA
1 ATATATATA
9166801 TACATAGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 5 0.12
36 2 0.05
37 1 0.02
38 33 0.80
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (38 bp):
ATATATATAATAAAACGATAAAATATAATATTAAGAAA
Found at i:9166760 original size:18 final size:18
Alignment explanation
Indices: 9166734--9166798 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 18
9166724 AAATAAAAAC
9166734 AAAAT-TATAATATTAAG
1 AAAATATATAATATTAAG
*
9166751 AAAATATAT-ATATAAAACG
1 AAAATATATAATAT-TAA-G
9166770 TATAAA-ATATAATATTAAG
1 -A-AAATATATAATATTAAG
*
9166789 AAAAAATATA
1 AAAATATATA
9166799 TATACATAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
17 12 0.31
18 11 0.28
19 2 0.05
20 7 0.18
21 7 0.18
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATATATAATATTAAG
Found at i:9166878 original size:14 final size:14
Alignment explanation
Indices: 9166856--9166911 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
9166846 TATATATATA
*
9166856 ATAATATAAGATATAT
1 ATAATA-AAAATA-AT
9166872 ATAATAAAAATAAT
1 ATAATAAAAATAAT
*
9166886 ATAATATAAATAA-
1 ATAATAAAAATAAT
*
9166899 ATAA-AAATATAAT
1 ATAATAAAAATAAT
9166912 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 6 0.17
13 4 0.11
14 14 0.40
15 5 0.14
16 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
ATAATAAAAATAAT
Found at i:9166883 original size:25 final size:24
Alignment explanation
Indices: 9166841--9166907 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
9166831 CTATACACAC
* *
9166841 ATAAATATATATATAATAATATAAG
1 ATAAATAAATA-AAAATAATATAAG
* *
9166866 ATATATATAATAAAAATAATATAAT
1 ATAAATA-AATAAAAATAATATAAG
9166891 ATAAATAAATAAAAATA
1 ATAAATAAATAAAAATA
9166908 TAATTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.28
25 23 0.64
26 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (24 bp):
ATAAATAAATAAAAATAATATAAG
Found at i:9166892 original size:19 final size:20
Alignment explanation
Indices: 9166844--9166927 Score: 83
Period size: 19 Copynumber: 4.5 Consensus size: 20
9166834 TACACACATA
*
9166844 AATATATATATAAT-AATAT
1 AATATATATATAATAAAAAT
*
9166863 AAGATATATATAATAAAAAT
1 AATATATATATAATAAAAAT
*
9166883 AATATA-ATATAA-ATAAAT
1 AATATATATATAATAAAAAT
9166901 AA-A-A-ATATAATTAAAAAT
1 AATATATATATAA-TAAAAAT
9166919 AA-ATATATA
1 AATATATATA
9166928 GGGGAAGAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.13
17 1 0.02
18 15 0.27
19 20 0.36
20 12 0.22
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (20 bp):
AATATATATATAATAAAAAT
Found at i:9166907 original size:16 final size:16
Alignment explanation
Indices: 9166883--9166925 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
9166873 TAATAAAAAT
9166883 AATATAATATAAATAAA
1 AATA-AATATAAATAAA
*
9166900 TAA-AAATATAATTAAA
1 -AATAAATATAAATAAA
9166916 AATAAATATA
1 AATAAATATA
9166926 TAGGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 18 0.78
17 1 0.04
18 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATAAATAAA
Found at i:9166927 original size:39 final size:41
Alignment explanation
Indices: 9166841--9166927 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 41
9166831 CTATACACAC
9166841 ATAAATATAT-ATATAATAATATAAGATATATATAATAAAA
1 ATAAATATATAATATAATAATATAAGATATATATAATAAAA
9166881 AT--A-ATATAATATAAATAA-ATAA-A-A-ATATAATTAAAA
1 ATAAATATATAATAT-AATAATATAAGATATATATAA-TAAAA
9166917 ATAAATATATA
1 ATAAATATATA
9166928 GGGGAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
35 6 0.15
36 8 0.20
37 5 0.12
38 10 0.24
39 10 0.24
40 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (41 bp):
ATAAATATATAATATAATAATATAAGATATATATAATAAAA
Found at i:9168089 original size:85 final size:83
Alignment explanation
Indices: 9167965--9168150 Score: 198
Period size: 83 Copynumber: 2.2 Consensus size: 83
9167955 CAATTTTCGT
* * * * * *
9167965 TGACAGATAGA-CCTTCTTGCCTTGAGCTATGATGTAAATT-TGATTTACCTCT-GAGTTGAATG
1 TGACAGATA-ACCCTTCTTACCTTGAGCTATGATGCAAATTATG-TGT--CT-TGGAGCTAAACG
9168027 TAATCGAACTCGAAGGTCTTTGA
61 TAATCGAACTCGAAGGTCTTTGA
* * * *
9168050 TGATAGATAACCCTTCTTACCTTGAGTTATGCTGCAAATTATGTGTCTTGGAGCTAAACGTAGTC
1 TGACAGATAACCCTTCTTACCTTGAGCTATGATGCAAATTATGTGTCTTGGAGCTAAACGTAATC
* *
9168115 GAACTCGAAGGTTTTTGT
66 GAACTCGAAGGTCTTTGA
9168133 TGACAGATAACCCTTCTT
1 TGACAGATAACCCTTCTT
9168151 TGAGTTGGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
82 1 0.01
83 46 0.54
84 1 0.01
85 35 0.41
86 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (83 bp):
TGACAGATAACCCTTCTTACCTTGAGCTATGATGCAAATTATGTGTCTTGGAGCTAAACGTAATC
GAACTCGAAGGTCTTTGA
Found at i:9169422 original size:36 final size:36
Alignment explanation
Indices: 9169374--9169552 Score: 142
Period size: 36 Copynumber: 5.1 Consensus size: 36
9169364 GAAGATTTTG
*
9169374 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
9169410 TGTTTTAGGAGAAA-----T--A-A-ATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-AT-T
* **
9169439 TGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
9169475 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * **
9169512 AGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
9169548 TGTTT
1 TGTTT
9169553 TAAAAATATA
Statistics
Matches: 108, Mismatches: 23, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
27 5 0.05
28 2 0.02
29 13 0.12
31 1 0.01
34 1 0.01
36 50 0.46
37 33 0.31
38 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:9169439 original size:67 final size:67
Alignment explanation
Indices: 9169240--9169488 Score: 254
Period size: 65 Copynumber: 3.7 Consensus size: 67
9169230 CAGATGATGC
** * * * *
9169240 TTCAAGAGAAGTTGTCTCAAAAGAGATAAAATTCGTTTTAAGGGAAAT-GATCTCAAAGATATTT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-TTT
9169304 GTTGT
64 G-TGT
* * * * * **
9169309 TTCATGAAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTG
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTTG
9169374 TGT
65 TGT
*
9169377 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTT-AGGAGAAATAAATTCAAAGA-TTT-
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGG-GAAATAAATTCAAAGATTTTG
9169439 TGT
65 TGT
* ** * *
9169442 TTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAA
9169489 CTGTCTCAAG
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
65 41 0.27
66 8 0.05
67 22 0.15
68 30 0.20
69 26 0.17
70 22 0.15
71 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (67 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGT
GT
Found at i:9169534 original size:37 final size:36
Alignment explanation
Indices: 9169449--9169540 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 36
9169439 TGTTTCAAGG
** * * *
9169449 GAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
9169485 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
*
9169522 GAAACTGTCTCAAGGGAGA
1 GAAACTGTCTCAAGAGAGA
9169541 TGAAATTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 22 0.45
37 27 0.55
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:9169675 original size:32 final size:32
Alignment explanation
Indices: 9169630--9169744 Score: 88
Period size: 32 Copynumber: 3.5 Consensus size: 32
9169620 GAGCACGATT
*
9169630 CCCTTCATCGTGAAGTTGAAACCATGGATGAC
1 CCCTTCGTCGTGAAGTTGAAACCATGGATGAC
* * * * * *
9169662 CCCTTCGTTGTGAAATCG-AGCCTTGGAATTGGATA
1 CCCTTCGTCGTGAAGTTGAAACCATGG-A-T-GA-C
* * *
9169697 CCCTTCGTCGTGAACTTGAAACCGTGAATGAC
1 CCCTTCGTCGTGAAGTTGAAACCATGGATGAC
*
9169729 CCCTTCGTTGTGAAGT
1 CCCTTCGTCGTGAAGT
9169745 CGATCCTTGG
Statistics
Matches: 62, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
31 6 0.10
32 29 0.47
33 3 0.05
34 3 0.05
35 16 0.26
36 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (32 bp):
CCCTTCGTCGTGAAGTTGAAACCATGGATGAC
Found at i:9169738 original size:67 final size:67
Alignment explanation
Indices: 9169630--9169784 Score: 247
Period size: 67 Copynumber: 2.3 Consensus size: 67
9169620 GAGCACGATT
* *
9169630 CCCTTCATCGTGAAGTTGAAACCATGGATGACCCCTTCGTTGTGAAATCGAGCCTTGGAATTGGA
1 CCCTTCGTCGTGAAGTTGAAACCATGAATGACCCCTTCGTTGTGAAATCGAGCCTTGGAATTGGA
9169695 TA
66 TA
* * * *
9169697 CCCTTCGTCGTGAACTTGAAACCGTGAATGACCCCTTCGTTGTGAAGTCGATCCTTGGAATTGGA
1 CCCTTCGTCGTGAAGTTGAAACCATGAATGACCCCTTCGTTGTGAAATCGAGCCTTGGAATTGGA
9169762 TA
66 TA
*
9169764 TCCTTCGTCGTGAAGTTGAAA
1 CCCTTCGTCGTGAAGTTGAAA
9169785 TCCAAGTAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 80 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (67 bp):
CCCTTCGTCGTGAAGTTGAAACCATGAATGACCCCTTCGTTGTGAAATCGAGCCTTGGAATTGGA
TA
Found at i:9169778 original size:35 final size:35
Alignment explanation
Indices: 9169662--9169779 Score: 109
Period size: 35 Copynumber: 3.5 Consensus size: 35
9169652 CATGGATGAC
* * *
9169662 CCCTTCGTTGTGAAATCGAGCCTTGGAATTGGATA
1 CCCTTCGTCGTGAAGTCGAACCTTGGAATTGGATA
* * * *
9169697 CCCTTCGTCGTGAACTTGAAACCGT-GAA-T-GA-C
1 CCCTTCGTCGTGAAGTCG-AACCTTGGAATTGGATA
* *
9169729 CCCTTCGTTGTGAAGTCGATCCTTGGAATTGGATA
1 CCCTTCGTCGTGAAGTCGAACCTTGGAATTGGATA
*
9169764 TCCTTCGTCGTGAAGT
1 CCCTTCGTCGTGAAGT
9169780 TGAAATCCAA
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
31 4 0.06
32 18 0.28
33 3 0.05
34 3 0.05
35 32 0.50
36 4 0.06
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (35 bp):
CCCTTCGTCGTGAAGTCGAACCTTGGAATTGGATA
Found at i:9170251 original size:32 final size:32
Alignment explanation
Indices: 9170178--9170252 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
9170168 GTTGAATTCC
* * *
9170178 CAAATATGCCCCAATATTCGATGTTGAATCTA
1 CAAAAATGCCCCAACATTCGATGTTAAATCTA
* * *
9170210 AAAAAATGCCCCAACATTTGATGTTAAATCTT
1 CAAAAATGCCCCAACATTCGATGTTAAATCTA
*
9170242 CAAAGATGCCC
1 CAAAAATGCCC
9170253 TCATTGTTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (32 bp):
CAAAAATGCCCCAACATTCGATGTTAAATCTA
Found at i:9171347 original size:14 final size:12
Alignment explanation
Indices: 9171305--9171355 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 12
9171295 TTTTTTTCAA
9171305 TTTTC-CTTTGTT
1 TTTTCTCTTT-TT
9171317 TTTTCTCTTTTT
1 TTTTCTCTTTTT
9171329 ATTTTCTCTTTACTT
1 -TTTTCTCTTT--TT
9171344 TTTTCTCTTTTT
1 TTTTCTCTTTTT
9171356 GTTCTGATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.26
13 14 0.40
14 10 0.29
15 2 0.06
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:9173426 original size:21 final size:21
Alignment explanation
Indices: 9173384--9173426 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
9173374 ACCTCTTTTG
* *
9173384 AATGATGTAAATGATAAAAAA
1 AATGAAGTAAAAGATAAAAAA
*
9173405 AATGAAGTAAAAGA-AAATAA
1 AATGAAGTAAAAGATAAAAAA
9173425 AA
1 AA
9173427 GTTAAAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (21 bp):
AATGAAGTAAAAGATAAAAAA
Found at i:9174811 original size:36 final size:37
Alignment explanation
Indices: 9174729--9174812 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 37
9174719 TAGTATTTAC
*
9174729 TAAAACAAAT-AAAAATAATAAATATATAATACTAAG
1 TAAAACAAATAAAAAATAATAAATACATAATACTAAG
* * *
9174765 TAAAACAAATAAAAAATAAATATATACATGATATTAAG
1 TAAAACAAATAAAAAAT-AATAAATACATAATACTAAG
9174803 -AAAA-AAATAA
1 TAAAACAAATAA
9174813 TAGAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 16 0.38
37 10 0.24
38 16 0.38
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.24
Consensus pattern (37 bp):
TAAAACAAATAAAAAATAATAAATACATAATACTAAG
Found at i:9174829 original size:15 final size:13
Alignment explanation
Indices: 9174801--9174825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9174791 CATGATATTA
9174801 AGAAAAAAATAAT
1 AGAAAAAAATAAT
9174814 AGAAAAAAATAA
1 AGAAAAAAATAA
9174826 AATAAAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGAAAAAAATAAT
Found at i:9174829 original size:18 final size:18
Alignment explanation
Indices: 9174806--9174862 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
9174796 TATTAAGAAA
9174806 AAAATAATAGAAAAAAAT
1 AAAATAATAGAAAAAAAT
*
9174824 AAAATAA-AG-TAAAAAT
1 AAAATAATAGAAAAAAAT
* * *
9174840 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAAAAAAT
9174859 AAAA
1 AAAA
9174863 ATAAAAATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAATAGAAAAAAAT
Found at i:9174844 original size:31 final size:31
Alignment explanation
Indices: 9174803--9174876 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
9174793 TGATATTAAG
* *
9174803 AAAAAAATAATAGAAAAAAATAAA-ATAAAGT
1 AAAAATATAATAGAAAAAAATAAATA-AAAAT
* * *
9174834 AAAAATATAATATATATAAATAAATAAAAAT
1 AAAAATATAATAGAAAAAAATAAATAAAAAT
*
9174865 AAAAATAGAATA
1 AAAAATATAATA
9174877 TTAAGAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (31 bp):
AAAAATATAATAGAAAAAAATAAATAAAAAT
Found at i:9174889 original size:30 final size:31
Alignment explanation
Indices: 9174824--9174899 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
9174814 AGAAAAAAAT
* *
9174824 AAAAT-AAAGTAAAAATATAATATATATAAA
1 AAAATAAAAATAAAAATAGAATATATATAAA
*
9174854 TAAATAAAAATAAAAATAGAATAT-TA-AGAA
1 AAAATAAAAATAAAAATAGAATATATATA-AA
* *
9174884 AAAATATATATAAAAA
1 AAAATAAAAATAAAAA
9174900 CGTATAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 1 0.03
30 21 0.55
31 16 0.42
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (31 bp):
AAAATAAAAATAAAAATAGAATATATATAAA
Found at i:9174933 original size:17 final size:17
Alignment explanation
Indices: 9174874--9174933 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
9174864 TAAAAATAGA
9174874 ATATTAAGAAAAAATAT
1 ATATTAAGAAAAAATAT
* *
9174891 ATATAAAAACGTATAAAATAT
1 ATAT--TAA-G-AAAAAATAT
9174912 AATATTAAGAAAAAATAT
1 -ATATTAAGAAAAAATAT
9174930 ATAT
1 ATAT
9174934 ACATAGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 8 0.24
18 8 0.24
19 3 0.09
20 3 0.09
21 8 0.24
22 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
ATATTAAGAAAAAATAT
Found at i:9174970 original size:8 final size:8
Alignment explanation
Indices: 9174957--9174999 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9174947 AGAAAAATTA
*
9174957 ATACATCT
1 ATACATAT
9174965 ATACATAT
1 ATACATAT
*
9174973 ATATATAT
1 ATACATAT
*
9174981 ATATATAT
1 ATACATAT
*
9174989 ATATATAT
1 ATACATAT
9174997 ATA
1 ATA
9175000 TAATGATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (8 bp):
ATACATAT
Found at i:9174976 original size:2 final size:2
Alignment explanation
Indices: 9174964--9175020 Score: 82
Period size: 2 Copynumber: 29.0 Consensus size: 2
9174954 TTAATACATC
*
9174964 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
9175006 TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
9175021 ATAAAAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9175024 original size:14 final size:14
Alignment explanation
Indices: 9174969--9175037 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 14
9174959 ACATCTATAC
9174969 ATATATATAT-AT-
1 ATATATATATAATA
9174981 ATATATATAT-AT-
1 ATATATATATAATA
9174993 ATATATATAATGATATA
1 ATATATAT-AT-A-ATA
9175010 ATATATATATAATA
1 ATATATATATAATA
*
9175024 A-AAATAATATAATA
1 ATATAT-ATATAATA
9175038 TAAATAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
12 20 0.40
13 5 0.10
14 12 0.24
15 1 0.02
16 4 0.08
17 8 0.16
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (14 bp):
ATATATATATAATA
Found at i:9175042 original size:14 final size:14
Alignment explanation
Indices: 9174973--9175044 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 14
9174963 CTATACATAT
*
9174973 ATATATATATATATA
1 ATATA-ATATAAATA
*
9174988 TATATATATATATAATG
1 -ATATA-ATATA-AATA
9175005 ATATAATAT--AT-
1 ATATAATATAAATA
*
9175016 ATATAATAAAAATA
1 ATATAATATAAATA
9175030 ATATAATATAAATA
1 ATATAATATAAATA
9175044 A
1 A
9175045 AAAAGGAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.17
12 2 0.04
13 2 0.04
14 14 0.29
15 4 0.08
16 16 0.33
17 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (14 bp):
ATATAATATAAATA
Found at i:9175054 original size:25 final size:22
Alignment explanation
Indices: 9175005--9175071 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 22
9174995 ATATATAATG
*
9175005 ATATAATATATATATAATAAAAAT
1 ATATAATATA-A-ATAAAAAAAAT
9175029 AATATAATATAAATAAAAAAGGAAT
1 -ATATAATATAAATAAAAAA--AAT
9175054 ATAGTAA-ATAAATAAAAA
1 ATA-TAATATAAATAAAAA
9175072 TATATAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 7 0.18
24 15 0.39
25 16 0.42
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (22 bp):
ATATAATATAAATAAAAAAAAT
Found at i:9185608 original size:16 final size:16
Alignment explanation
Indices: 9185571--9185634 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 16
9185561 GAATGCGTGC
*
9185571 ATAAACGAATAAAGT-
1 ATAAACTAATAAAGTA
*
9185586 GTAAACTAATAAAGTA
1 ATAAACTAATAAAGTA
* **
9185602 ATAAACTACTAACTTA
1 ATAAACTAATAAAGTA
* *
9185618 ATGAACTACTAAAGTA
1 ATAAACTAATAAAGTA
9185634 A
1 A
9185635 AGAACAGGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
15 13 0.33
16 26 0.67
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (16 bp):
ATAAACTAATAAAGTA
Found at i:9185775 original size:16 final size:15
Alignment explanation
Indices: 9185754--9185796 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
9185744 TTTACAAGAT
9185754 TAAACTAATAAAGTAC
1 TAAACTAATAAAGT-C
* *
9185770 TAAACTGATACAGTC
1 TAAACTAATAAAGTC
*
9185785 TAAATTAATAAA
1 TAAACTAATAAA
9185797 CGAATAATTC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (15 bp):
TAAACTAATAAAGTC
Found at i:9189761 original size:18 final size:19
Alignment explanation
Indices: 9189738--9189787 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
9189728 GCCAATTTTG
*
9189738 GTATCGATACTCATGG-GA
1 GTATCGATAATCATGGAGA
9189756 GTATCGATAATCATGGTAGA
1 GTATCGATAATCATGG-AGA
9189776 GTATCGATAATC
1 GTATCGATAATC
9189788 CTAGTAGGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 15 0.52
20 14 0.48
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (19 bp):
GTATCGATAATCATGGAGA
Found at i:9189794 original size:20 final size:20
Alignment explanation
Indices: 9189754--9189794 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9189744 ATACTCATGG
*
9189754 GAGTATCGATAATCATGGTA
1 GAGTATCGATAATCATAGTA
*
9189774 GAGTATCGATAATCCTAGTA
1 GAGTATCGATAATCATAGTA
9189794 G
1 G
9189795 GGGTATAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (20 bp):
GAGTATCGATAATCATAGTA
Found at i:9189976 original size:19 final size:19
Alignment explanation
Indices: 9189942--9189992 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
9189932 ATACGCGAGA
* * *
9189942 AAGTATCGATATCCTATAG
1 AAGTACCGATACCCTACAG
* *
9189961 AATTACCGATACCCTACGG
1 AAGTACCGATACCCTACAG
9189980 AAGTACCGATACC
1 AAGTACCGATACC
9189993 TAAAGGGGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (19 bp):
AAGTACCGATACCCTACAG
Found at i:9191704 original size:32 final size:32
Alignment explanation
Indices: 9191644--9191723 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
9191634 GTAGTGCAAC
* **
9191644 ATTCAGATAATGCACAACAGAGTAAGTGTTGT
1 ATTCAGATAATGCATAACAGAGTAAGTGTCAT
** * *
9191676 ATTCAGATAATGCATATGAGTGTTAGTGTCAT
1 ATTCAGATAATGCATAACAGAGTAAGTGTCAT
*
9191708 ATTCAAATAATGCATA
1 ATTCAGATAATGCATA
9191724 GTAGCTACAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (32 bp):
ATTCAGATAATGCATAACAGAGTAAGTGTCAT
Found at i:9196848 original size:81 final size:81
Alignment explanation
Indices: 9196665--9196983 Score: 514
Period size: 81 Copynumber: 4.0 Consensus size: 81
9196655 TTAACCTTTC
*
9196665 TTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTAGCATAATTGGTACC-TTCTACCAATTG
1 TTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTG
*
9196729 CACAGTTTGGCCATTA
66 CACAGTTAGGCCATTA
* *
9196745 TTCTTTTACTCAATGGTATTTAACTGTTCATCTAACTGGCGTAATTGGTACCTTTCTACCAATTG
1 TTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTG
*
9196810 CACAATTAGGCCATTA
66 CACAGTTAGGCCATTA
*
9196826 TTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTG
1 TTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTG
** *
9196891 CATTGTTATGCCATTA
66 CACAGTTAGGCCATTA
* * *
9196907 TTCTTTTACTCAATGGTATTTAACTGTTAATCTAACTCGCATAATTGGTACCTTTCTACCAATTG
1 TTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTG
*
9196972 TACAGTTAGGCC
66 CACAGTTAGGCC
9196984 TCAAAGGCAC
Statistics
Matches: 218, Mismatches: 20, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
80 49 0.22
81 169 0.78
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.40
Consensus pattern (81 bp):
TTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTG
CACAGTTAGGCCATTA
Found at i:9197172 original size:67 final size:68
Alignment explanation
Indices: 9196936--9197187 Score: 353
Period size: 68 Copynumber: 3.7 Consensus size: 68
9196926 TTAACTGTTA
* * ** * * *
9196936 ATCTAACTCGCATAATTGGTACCTTTCTACCAATTGTACAGTTAGGCCTCAAAGGCACTTAGCCT
1 ATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
9197001 TTC
66 TTC
* * *
9197004 ATCTAAATGGCATAAATGACACCTTTCTATCAAATGCATAGTTAGGCCTCAAAGGCATTTAGCCT
1 ATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
9197069 TTC
66 TTC
* *
9197072 ATCTAACTGGCATAATTGACACCTTTCTATCAAATGCAGAGTTAGGCCTCAAAGGCA-TTAGCCT
1 ATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
9197136 TTC
66 TTC
* * * *
9197139 ATCTAACTAGCATAAATGACATCTTTCTGTCAAATGAACAGTTAGGCCT
1 ATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTAGGCCT
9197188 ATTAATCTTT
Statistics
Matches: 165, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 53 0.32
68 112 0.68
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
TTC
Found at i:9197992 original size:19 final size:19
Alignment explanation
Indices: 9197929--9197998 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
9197919 TTCTATATTA
9197929 TGGTATCGATACCCCCTTC
1 TGGTATCGATACCCCCTTC
* * * * *
9197948 TAGTATCAATACTACCATACTA
1 TGGTATCGATAC-CCCCT--TC
9197970 TGGTATCGATACCCCCTTC
1 TGGTATCGATACCCCCTTC
9197989 TGGTATCGAT
1 TGGTATCGAT
9197999 GCCAGTTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 21 0.55
20 3 0.08
21 3 0.08
22 11 0.29
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (19 bp):
TGGTATCGATACCCCCTTC
Found at i:9200227 original size:16 final size:16
Alignment explanation
Indices: 9200202--9200235 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9200192 CTCTTGTGCT
9200202 CTATCAATAGCTTTGG
1 CTATCAATAGCTTTGG
*
9200218 CTATCGATAGCTTTGG
1 CTATCAATAGCTTTGG
9200234 CT
1 CT
9200236 TTGTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (16 bp):
CTATCAATAGCTTTGG
Found at i:9202500 original size:19 final size:19
Alignment explanation
Indices: 9202476--9202566 Score: 103
Period size: 19 Copynumber: 4.7 Consensus size: 19
9202466 TTCTATACTA
9202476 TGGTATCGATACCCCCTTC
1 TGGTATCGATACCCCCTTC
9202495 TGGTATCGATACCCCCTTC
1 TGGTATCGATACCCCCTTC
** *
9202514 TGGTATCGATACTACCATATTA
1 TGGTATCGATAC--CC-CCTTC
* *
9202536 TGGTATCGAT-TCCCCTTT
1 TGGTATCGATACCCCCTTC
9202554 TGGTATCGATACC
1 TGGTATCGATACC
9202567 ATTTTTAGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
18 12 0.20
19 34 0.57
21 2 0.03
22 12 0.20
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (19 bp):
TGGTATCGATACCCCCTTC
Found at i:9204385 original size:20 final size:20
Alignment explanation
Indices: 9204360--9204397 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9204350 TTCCAACAGT
9204360 ACGATAAAATCATAGTAGAA
1 ACGATAAAATCATAGTAGAA
9204380 ACGATAAAATCATAGTAG
1 ACGATAAAATCATAGTAG
9204398 GCACAATAAA
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:0.53, C:0.11, G:0.16, T:0.21
Consensus pattern (20 bp):
ACGATAAAATCATAGTAGAA
Found at i:9204406 original size:20 final size:20
Alignment explanation
Indices: 9204363--9204407 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9204353 CAACAGTACG
*
9204363 ATAAAATCATAGTAGAAACG
1 ATAAAATCATAGTAGAAACA
**
9204383 ATAAAATCATAGTAGGCACA
1 ATAAAATCATAGTAGAAACA
9204403 ATAAA
1 ATAAA
9204408 CGAGTAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (20 bp):
ATAAAATCATAGTAGAAACA
Found at i:9206016 original size:17 final size:18
Alignment explanation
Indices: 9205983--9206016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9205973 TCAATTCTGT
*
9205983 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
9206001 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
9206017 GACCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Found at i:9208717 original size:62 final size:64
Alignment explanation
Indices: 9208602--9208743 Score: 216
Period size: 62 Copynumber: 2.2 Consensus size: 64
9208592 TATTTCTTTA
* * * *
9208602 AATCAATCACTCATCCCTTATCTTGAGATTTATATATATAAAAACAAACCACTCCCCTGTATTC
1 AATCAATCACTTATCTCTTATCTTGAGATATATATATATAAAAACAAACCACTCCCCTGAATTC
* *
9208666 AATCAATCACTTATCTCTTATCTTGA-A-ATATATTTATAAAAACAAATCACTCCCCTGAATTC
1 AATCAATCACTTATCTCTTATCTTGAGATATATATATATAAAAACAAACCACTCCCCTGAATTC
9208728 AATCAATCACTTATCT
1 AATCAATCACTTATCT
9208744 TAGCTTTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
62 47 0.65
63 1 0.01
64 24 0.33
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (64 bp):
AATCAATCACTTATCTCTTATCTTGAGATATATATATATAAAAACAAACCACTCCCCTGAATTC
Found at i:9211693 original size:17 final size:18
Alignment explanation
Indices: 9211660--9211693 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9211650 TCAATTCTGT
*
9211660 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
9211678 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
9211694 GACCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Done.