Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 65 of 182
Found at i:19820156 original size:29 final size:30
Alignment explanation
Indices: 19820117--19820175 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
19820107 CTAAATTTCA
* *
19820117 TAAAATTATACA-AAATCAAAATTTATATG
1 TAAAATTATACATAAACCAAAATTCATATG
19820146 TAAAATTATACATTAAACCAAAATTCATAT
1 TAAAATTATACA-TAAACCAAAATTCATAT
19820176 AAAATTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
31 14 0.54
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (30 bp):
TAAAATTATACATAAACCAAAATTCATATG
Found at i:19820178 original size:29 final size:27
Alignment explanation
Indices: 19820116--19820181 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
19820106 TCTAAATTTC
* *
19820116 ATAAAATTATACAAAATCAAAATTTAT
1 ATAAAATTATACAAAACCAAAATTCAT
19820143 ATGTAAAATTATACATTAAACCAAAATTCAT
1 A--TAAAATTATACA--AAACCAAAATTCAT
19820174 ATAAAATT
1 ATAAAATT
19820182 TGAGATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.03
29 19 0.58
31 13 0.39
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (27 bp):
ATAAAATTATACAAAACCAAAATTCAT
Found at i:19824257 original size:21 final size:21
Alignment explanation
Indices: 19824231--19824271 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19824221 ATCTGCTCAA
* *
19824231 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19824252 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19824272 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19834335 original size:34 final size:34
Alignment explanation
Indices: 19834289--19834465 Score: 131
Period size: 34 Copynumber: 5.1 Consensus size: 34
19834279 AATGTTTTGC
*
19834289 GCCCAGTGCTAGTCAGATAACCGACGATGGTTGT
1 GCCCAGCGCTAGTCAGATAACCGACGATGGTTGT
* ** ** *
19834323 GCCCAGCACTAGTCAGATAAATTGACGAAAGTTGC
1 GCCCAGCGCTAGTCAGAT-AACCGACGATGGTTGT
* * * * *
19834358 GCCCAGTGCTAATCGGATAACAGACGATGATTGT
1 GCCCAGCGCTAGTCAGATAACCGACGATGGTTGT
* * * * * * *
19834392 ACCCAACGCTGGTTAGATAAACTGACAGA-AGTTGC
1 GCCCAGCGCTAGTCAGAT-AACCGAC-GATGGTTGT
* *
19834427 GCCCAGCGCTAGTCGGACAACCGACGATGGTTGT
1 GCCCAGCGCTAGTCAGATAACCGACGATGGTTGT
19834461 GCCCA
1 GCCCA
19834466 ACACTAGTTG
Statistics
Matches: 102, Mismatches: 37, Indels: 8
0.69 0.25 0.05
Matches are distributed among these distances:
33 2 0.02
34 52 0.51
35 46 0.45
36 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (34 bp):
GCCCAGCGCTAGTCAGATAACCGACGATGGTTGT
Found at i:19834377 original size:35 final size:35
Alignment explanation
Indices: 19834285--19834377 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 35
19834275 TAACAATGTT
**
19834285 TTGCGCCCAGTGCTAGTCAGAT-AACCGACGATGG
1 TTGCGCCCAGTGCTAGTCAGATAAACCGACGAAAG
* ** **
19834319 TTGTGCCCAGCACTAGTCAGATAAATTGACGAAAG
1 TTGCGCCCAGTGCTAGTCAGATAAACCGACGAAAG
* *
19834354 TTGCGCCCAGTGCTAATCGGATAA
1 TTGCGCCCAGTGCTAGTCAGATAA
19834378 CAGACGATGA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
34 19 0.41
35 27 0.59
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (35 bp):
TTGCGCCCAGTGCTAGTCAGATAAACCGACGAAAG
Found at i:19834377 original size:69 final size:69
Alignment explanation
Indices: 19834285--19834473 Score: 254
Period size: 69 Copynumber: 2.7 Consensus size: 69
19834275 TAACAATGTT
* * *
19834285 TTGCGCCCAGTGCTAGTCAGATAACCGACGATGGTTGTGCCCAGCACTAGTCAGATAAATTGAC-
1 TTGCGCCCAGTGCTAGTCGGATAACCGACGATGGTTGTGCCCAACACTAGTCAGATAAACTGACA
19834349 GAAAG
66 G-AAG
* * * * * * *
19834354 TTGCGCCCAGTGCTAATCGGATAACAGACGATGATTGTACCCAACGCTGGTTAGATAAACTGACA
1 TTGCGCCCAGTGCTAGTCGGATAACCGACGATGGTTGTGCCCAACACTAGTCAGATAAACTGACA
19834419 GAAG
66 GAAG
* *
19834423 TTGCGCCCAGCGCTAGTCGGACAACCGACGATGGTTGTGCCCAACACTAGT
1 TTGCGCCCAGTGCTAGTCGGATAACCGACGATGGTTGTGCCCAACACTAGT
19834474 TGAACGAATC
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
69 100 0.99
70 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (69 bp):
TTGCGCCCAGTGCTAGTCGGATAACCGACGATGGTTGTGCCCAACACTAGTCAGATAAACTGACA
GAAG
Found at i:19835530 original size:11 final size:12
Alignment explanation
Indices: 19835514--19835545 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
19835504 TAAATGTTAC
19835514 TATATAAT-TAA
1 TATATAATATAA
19835525 TATAT-ATATAA
1 TATATAATATAA
19835536 TATATAATAT
1 TATATAATAT
19835546 CCTCGTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 13 0.68
12 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATAATATAA
Found at i:19841815 original size:22 final size:22
Alignment explanation
Indices: 19841766--19841816 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
19841756 ATATTGAATT
*
19841766 GCGATATTGAAGATTGGGTATC
1 GCGATATCGAAGATTGGGTATC
** *
19841788 ATGATATCGAAGTTTGGGTATC
1 GCGATATCGAAGATTGGGTATC
19841810 GCGATAT
1 GCGATAT
19841817 TAATACCTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.33
Consensus pattern (22 bp):
GCGATATCGAAGATTGGGTATC
Found at i:19842069 original size:4 final size:4
Alignment explanation
Indices: 19842060--19842092 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
19842050 GTTAATTTGA
19842060 TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAGT T
1 TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAGT T
19842093 TTATTGTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TAGT
Found at i:19843797 original size:19 final size:17
Alignment explanation
Indices: 19843759--19843812 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
19843749 ATTAAAGTTC
*
19843759 AATTA-TTATTTTTTTA
1 AATTATTTATTTATTTA
19843775 AATTATTTATATTATTTA
1 AATTATTTAT-TTATTTA
19843793 TAATTACTTTATTT-TTTA
1 -AATTA-TTTATTTATTTA
19843811 AA
1 AA
19843813 AAATAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 5 0.15
17 6 0.18
18 10 0.30
19 7 0.21
20 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTATTTATTTATTTA
Found at i:19852485 original size:9 final size:9
Alignment explanation
Indices: 19852471--19852507 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19852461 TATAGTTTAA
19852471 TATTCGAAT
1 TATTCGAAT
19852480 TATTCGAAT
1 TATTCGAAT
*
19852489 TATTCGAGT
1 TATTCGAAT
19852498 TATTCGAAT
1 TATTCGAAT
19852507 T
1 T
19852508 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19852578 original size:9 final size:9
Alignment explanation
Indices: 19852561--19852591 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19852551 TCGAGTTGAT
19852561 TCGAATAAC
1 TCGAATAAC
*
19852570 TCGATTAAC
1 TCGAATAAC
19852579 TCGAATAAC
1 TCGAATAAC
19852588 TCGA
1 TCGA
19852592 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19857038 original size:15 final size:15
Alignment explanation
Indices: 19857012--19857054 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
19857002 TTATATATCC
19857012 AATTTT-ATTATTTT
1 AATTTTGATTATTTT
19857026 AATTTTGATTATTTT
1 AATTTTGATTATTTT
*
19857041 ATTATTTGA-TATTT
1 AAT-TTTGATTATTT
19857055 AATAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.23
15 15 0.58
16 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
AATTTTGATTATTTT
Found at i:19857893 original size:27 final size:27
Alignment explanation
Indices: 19857855--19857924 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
19857845 TAACTAAATT
19857855 AATTTAA-T-TACTTTTTATACAATAA
1 AATTTAATTATACTTTTTATACAATAA
*
19857880 AATTTAATTATACTTTTTTTACAATAA
1 AATTTAATTATACTTTTTATACAATAA
*
19857907 AATTTAATTATAATTTTT
1 AATTTAATTATACTTTTT
19857925 GTAATGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 7 0.17
26 1 0.02
27 33 0.80
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (27 bp):
AATTTAATTATACTTTTTATACAATAA
Found at i:19858183 original size:19 final size:19
Alignment explanation
Indices: 19858136--19858208 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
19858126 CAAAATGCAT
19858136 CTTATCAACAAAATGTTCC
1 CTTATCAACAAAATGTTCC
** * *
19858155 AATATAAACAAGATGTTCC
1 CTTATCAACAAAATGTTCC
**
19858174 CTTATCAACAAACGGTTCC
1 CTTATCAACAAAATGTTCC
* * *
19858193 CATATGAATAAAATGT
1 CTTATCAACAAAATGT
19858209 ACCAATCTTG
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (19 bp):
CTTATCAACAAAATGTTCC
Found at i:19867363 original size:13 final size:14
Alignment explanation
Indices: 19867340--19867372 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19867330 TTTTGTTCTA
19867340 AAAAAAGTGAAAAG
1 AAAAAAGTGAAAAG
*
19867354 AAAAAA-TGAAAAT
1 AAAAAAGTGAAAAG
19867367 AAAAAA
1 AAAAAA
19867373 AATTGAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAAAAGTGAAAAG
Found at i:19870066 original size:15 final size:17
Alignment explanation
Indices: 19870042--19870081 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
19870032 CTTTAAATAT
*
19870042 ATTATTAATTA-TTAAA
1 ATTATTAATTACATAAA
19870058 ATT-TTAATTACATAAA
1 ATTATTAATTACATAAA
19870074 ATTATTAA
1 ATTATTAA
19870082 ATATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATTAATTACATAAA
Found at i:19873098 original size:17 final size:18
Alignment explanation
Indices: 19873076--19873114 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
19873066 TAAATTTTCG
*
19873076 AAAAATAATTT-TACAAA
1 AAAAATAATTTGAACAAA
*
19873093 AAAAATCATTTGAACAAA
1 AAAAATAATTTGAACAAA
19873111 AAAA
1 AAAA
19873115 TTTATTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAATAATTTGAACAAA
Found at i:19882263 original size:17 final size:16
Alignment explanation
Indices: 19882237--19882272 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
19882227 TAAATATTTG
*
19882237 TTTTAATTTATTTTAA
1 TTTTAATTTAATTTAA
19882253 TTTTGAATTTAATTTAA
1 TTTT-AATTTAATTTAA
19882270 TTT
1 TTT
19882273 ACGTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTAATTTAATTTAA
Found at i:19884461 original size:90 final size:90
Alignment explanation
Indices: 19884305--19884468 Score: 229
Period size: 90 Copynumber: 1.8 Consensus size: 90
19884295 AAAAAAGGGA
* * **
19884305 GGGCTTTTTCACCATTTTTCTTCATCCCTTTTGACTCCATCACCACCACCATTTTCTTATTGTCC
1 GGGCTTTTTCACCATTTTTCTTCATCCCTCTCGACTCCATCACCACCACCATTTTCTTATCATCC
*
19884370 CTCTCACATGCAACTACTAAACAGG
66 CTCTAACATGCAACTACTAAACAGG
* * * * * *
19884395 GGGCTTTTTCACCATTTTTTTTTATCCCTCTCGACTCCTTCGCCATCGCCATTTTCTTATCATCC
1 GGGCTTTTTCACCATTTTTCTTCATCCCTCTCGACTCCATCACCACCACCATTTTCTTATCATCC
19884460 CTCTAACAT
66 CTCTAACAT
19884469 TCCACCATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 63 1.00
ACGTcount: A:0.18, C:0.34, G:0.09, T:0.40
Consensus pattern (90 bp):
GGGCTTTTTCACCATTTTTCTTCATCCCTCTCGACTCCATCACCACCACCATTTTCTTATCATCC
CTCTAACATGCAACTACTAAACAGG
Found at i:19888838 original size:16 final size:15
Alignment explanation
Indices: 19888782--19888840 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 15
19888772 AATAATTTTT
19888782 ATTTTTGAATTTTAAA
1 ATTTTT-AATTTTAAA
19888798 GAGTTTTT-ATTTTAACA
1 -A-TTTTTAATTTTAA-A
*
19888815 A-TTATAATTTTTAAA
1 ATTTTTAA-TTTTAAA
19888830 ATTTTTAATTT
1 ATTTTTAATTT
19888841 GTTTTCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
14 3 0.09
15 6 0.17
16 19 0.54
17 2 0.06
18 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:19889378 original size:21 final size:20
Alignment explanation
Indices: 19889354--19889410 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
19889344 AAAAATAGCG
*
19889354 GTAGCAATGAAATTAATTATT
1 GTAGCAATGAGATTAA-TATT
**
19889375 GTAGTGATGAGATTGAATATT
1 GTAGCAATGAGATT-AATATT
19889396 GTAGCAATGAGATTA
1 GTAGCAATGAGATTA
19889411 GAAACAAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (20 bp):
GTAGCAATGAGATTAATATT
Found at i:19889855 original size:17 final size:17
Alignment explanation
Indices: 19889835--19889867 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19889825 ATTTAATATA
19889835 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
19889852 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
19889868 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:19897927 original size:46 final size:46
Alignment explanation
Indices: 19897768--19897951 Score: 158
Period size: 46 Copynumber: 4.0 Consensus size: 46
19897758 TGCCAGTAAT
* * * *
19897768 AAAATCAATACG-ATATGTAGATTGGACATAATGATTTCGAATGAC
1 AAAATCAATACGAATATGCAGATCGGACATAATTATTTCGAATAAC
* * *
19897813 AAAATCAATAC-AGATA-GATAGATCGGACGTAATTATTTTGAATAAC
1 AAAATCAATACGA-ATATG-CAGATCGGACATAATTATTTCGAATAAC
* * * * * * *
19897859 AGAATCAAAATGGATATACAGATCGGACATTATTATTTCGAATAAT
1 AAAATCAATACGAATATGCAGATCGGACATAATTATTTCGAATAAC
* ** * *
19897905 AGAATCAATACGAATATGCAGATCAAACATAATTAATTCAAATAAC
1 AAAATCAATACGAATATGCAGATCGGACATAATTATTTCGAATAAC
19897951 A
1 A
19897952 TAATTAAATC
Statistics
Matches: 109, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
45 12 0.11
46 97 0.89
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (46 bp):
AAAATCAATACGAATATGCAGATCGGACATAATTATTTCGAATAAC
Found at i:19901526 original size:16 final size:16
Alignment explanation
Indices: 19901505--19901539 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
19901495 TCAAATTTTA
19901505 TTGTTCATACATTGAC
1 TTGTTCATACATTGAC
*
19901521 TTGTTCCTACATTGAC
1 TTGTTCATACATTGAC
19901537 TTG
1 TTG
19901540 GATCGCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (16 bp):
TTGTTCATACATTGAC
Found at i:19904052 original size:20 final size:20
Alignment explanation
Indices: 19904027--19904088 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
19904017 CATCGTAAGG
19904027 ATAGTGATGACACCAACATT
1 ATAGTGATGACACCAACATT
** ***
19904047 ATAGTG--GGTA-CGTTATT
1 ATAGTGATGACACCAACATT
19904064 ATAGTGATGACACCAACATT
1 ATAGTGATGACACCAACATT
19904084 ATAGT
1 ATAGT
19904089 CGGGTCTATT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
17 10 0.34
18 2 0.07
19 2 0.07
20 15 0.52
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
ATAGTGATGACACCAACATT
Found at i:19918134 original size:116 final size:116
Alignment explanation
Indices: 19917930--19918152 Score: 446
Period size: 116 Copynumber: 1.9 Consensus size: 116
19917920 TTTCGAGCAT
19917930 TCATTTCAGGGGAAATGGAGTATTACTGAAACAAATTAAGAGTTATTACATATGTTAAATTTTAA
1 TCATTTCAGGGGAAATGGAGTATTACTGAAACAAATTAAGAGTTATTACATATGTTAAATTTTAA
19917995 ATTTTGGGTCTATTTGAAAAGTATTATATTTGGGTCTTATATGCATTTACC
66 ATTTTGGGTCTATTTGAAAAGTATTATATTTGGGTCTTATATGCATTTACC
19918046 TCATTTCAGGGGAAATGGAGTATTACTGAAACAAATTAAGAGTTATTACATATGTTAAATTTTAA
1 TCATTTCAGGGGAAATGGAGTATTACTGAAACAAATTAAGAGTTATTACATATGTTAAATTTTAA
19918111 ATTTTGGGTCTATTTGAAAAGTATTATATTTGGGTCTTATAT
66 ATTTTGGGTCTATTTGAAAAGTATTATATTTGGGTCTTATAT
19918153 TTAAATTAAG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 107 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (116 bp):
TCATTTCAGGGGAAATGGAGTATTACTGAAACAAATTAAGAGTTATTACATATGTTAAATTTTAA
ATTTTGGGTCTATTTGAAAAGTATTATATTTGGGTCTTATATGCATTTACC
Found at i:19918955 original size:37 final size:37
Alignment explanation
Indices: 19918902--19918977 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
19918892 TTATATTAAG
19918902 TTGATTTGAATATAAATGTACTTAAATAATCTTCTGT
1 TTGATTTGAATATAAATGTACTTAAATAATCTTCTGT
*
19918939 TTGATTTGAATCTAAATGTACTTAAATAATCTTCTGT
1 TTGATTTGAATATAAATGTACTTAAATAATCTTCTGT
19918976 TT
1 TT
19918978 ACTTCTTTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (37 bp):
TTGATTTGAATATAAATGTACTTAAATAATCTTCTGT
Found at i:19919735 original size:9 final size:9
Alignment explanation
Indices: 19919709--19919918 Score: 233
Period size: 9 Copynumber: 23.1 Consensus size: 9
19919699 TGAGTATATA
*
19919709 TTACATAAA
1 TTACATAAC
19919718 TTA-AGTAAC
1 TTACA-TAAC
19919727 TTACATAAC
1 TTACATAAC
19919736 TTACATAAAC
1 TTACAT-AAC
* *
19919746 TTGCATAAA
1 TTACATAAC
*
19919755 TTAAATAAC
1 TTACATAAC
19919764 TTACATAAC
1 TTACATAAC
19919773 TTACATAAC
1 TTACATAAC
*
19919782 TTACATAAA
1 TTACATAAC
*
19919791 TTAAATAAC
1 TTACATAAC
19919800 TTACATAAC
1 TTACATAAC
*
19919809 TTACATAAA
1 TTACATAAC
*
19919818 TTAAATAAC
1 TTACATAAC
19919827 TTACATAAC
1 TTACATAAC
*
19919836 TTACATAAA
1 TTACATAAC
* * *
19919845 TTCCGTGGAC
1 TTACAT-AAC
19919855 TTACATAAC
1 TTACATAAC
* *
19919864 CTACATAAA
1 TTACATAAC
*
19919873 TTAAATAAC
1 TTACATAAC
19919882 TTACATAAC
1 TTACATAAC
19919891 TTACATAAC
1 TTACATAAC
*
19919900 TTACATAAA
1 TTACATAAC
*
19919909 TTAAATAAC
1 TTACATAAC
19919918 T
1 T
19919919 GACCCGTGCA
Statistics
Matches: 165, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
8 1 0.01
9 150 0.91
10 14 0.08
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:19924759 original size:21 final size:21
Alignment explanation
Indices: 19924733--19924789 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
19924723 AGTAGATACG
19924733 GCAGCGAGGGAAGCAAAGGCT
1 GCAGCGAGGGAAGCAAAGGCT
*
19924754 GCAGCGAGGGAAGCGAAGGCT
1 GCAGCGAGGGAAGCAAAGGCT
*
19924775 GCAGCGAGAGAAGCA
1 GCAGCGAGGGAAGCA
19924790 GAGGTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.44, T:0.04
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAAAGGCT
Found at i:19931703 original size:46 final size:46
Alignment explanation
Indices: 19931637--19931889 Score: 406
Period size: 46 Copynumber: 5.6 Consensus size: 46
19931627 TTTGAGTACT
19931637 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
19931682 TCTGATCAAGAGGCAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
19931728 TCTGATCAAGTGACAAAGTGATAAGTGATAGTTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
19931774 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
19931820 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
19931865 TCTGATC-AGGGAC-AAGTGATTAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
19931890 ATCATACGTA
Statistics
Matches: 194, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
43 11 0.06
44 5 0.03
45 26 0.13
46 152 0.78
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:19933333 original size:20 final size:20
Alignment explanation
Indices: 19933308--19933346 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19933298 AACGGGACCA
19933308 CTGATGTGGCAAGTTAACTG
1 CTGATGTGGCAAGTTAACTG
*
19933328 CTGATGTGGCCAGTTAACT
1 CTGATGTGGCAAGTTAACT
19933347 TGTCACGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (20 bp):
CTGATGTGGCAAGTTAACTG
Found at i:19938425 original size:19 final size:20
Alignment explanation
Indices: 19938398--19938435 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19938388 TCTTAATGAT
*
19938398 TATACTTTA-ATGTTTAAAA
1 TATACTTTATATATTTAAAA
*
19938417 TATAGTTTATATATTTAAA
1 TATACTTTATATATTTAAA
19938436 TTAAGCTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TATACTTTATATATTTAAAA
Found at i:19938482 original size:29 final size:30
Alignment explanation
Indices: 19938450--19938516 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
19938440 GCTTTACAAA
*
19938450 TAAATAATATTA-TTTATATAA-AAATATTT
1 TAAATAATATTATTTTATATAACAAA-ATAT
*
19938479 TAAA-ATTTATTATTTTATATAACAAAATAT
1 TAAATA-ATATTATTTTATATAACAAAATAT
19938509 T-AATAATA
1 TAAATAATA
19938517 AGTTACAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
28 1 0.03
29 13 0.42
30 14 0.45
31 3 0.10
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAATAATATTATTTTATATAACAAAATAT
Found at i:19942240 original size:43 final size:43
Alignment explanation
Indices: 19942120--19942393 Score: 220
Period size: 43 Copynumber: 6.4 Consensus size: 43
19942110 GCGTCGCTAA
* * * **
19942120 CTTTAGCGACGTTTTTAGAAATAAACGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCGTTTTT-GCAACAAACGCCGCTAAAGACCATGAC
* ** *
19942164 CTATAGCGGC-ACTTTGCCAA-AAACGCCACTAAAGACCATGAC
1 CTTTAGCGGCGTTTTTG-CAACAAACGCCGCTAAAGACCATGAC
19942206 CTTTAGCGGCGTTTTTGCAACAAACGCC-CGTAAAGACCATGAC
1 CTTTAGCGGCGTTTTTGCAACAAACGCCGC-TAAAGACCATGAC
* * * * *
19942249 CTTTTAGCGGCGATTGTGGAAAAAACGCCGCTAAAAAACC-TGAC
1 C-TTTAGCGGCGTTTTTGCAACAAACGCCGCT-AAAGACCATGAC
* *
19942293 CTTTAGCGGCGGTTTTT-CAACAAACACCGCTAAAGACCTTGAC
1 CTTTAGCGGC-GTTTTTGCAACAAACGCCGCTAAAGACCATGAC
** * * ** *
19942336 CTTTAATGACGCTTTT-CTTTCAAACGCCGCTAAAGACCCTGA-
1 CTTTAGCGGCGTTTTTGC-AACAAACGCCGCTAAAGACCATGAC
*
19942378 CTTTAGCGACGTTTTT
1 CTTTAGCGGCGTTTTT
19942394 TTAAAACACG
Statistics
Matches: 187, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
42 58 0.31
43 81 0.43
44 41 0.22
45 7 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGCAACAAACGCCGCTAAAGACCATGAC
Found at i:19942891 original size:66 final size:66
Alignment explanation
Indices: 19942745--19942893 Score: 212
Period size: 66 Copynumber: 2.3 Consensus size: 66
19942735 CTTCGCTGTC
* * *
19942745 GCATCTACTTTAAGCTGCAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCACTGC
1 GCATCTGCTTTAAGTTGCAGCTGAAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCACTGC
19942810 T
66 T
* *
19942811 GCATCTGCTTTAAGTTGCAGCTTAAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGA-T
1 GCATCTGCTTTAAGTTGCAGCTGAAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTC-ACT
19942874 GCT
64 GCT
*
19942877 GCCTCTGCTTTAAGTTG
1 GCATCTGCTTTAAGTTG
19942894 TGTAATTTGC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
66 70 0.93
67 5 0.07
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (66 bp):
GCATCTGCTTTAAGTTGCAGCTGAAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCACTGC
T
Found at i:19948327 original size:9 final size:9
Alignment explanation
Indices: 19948306--19948898 Score: 169
Period size: 9 Copynumber: 70.2 Consensus size: 9
19948296 TAAGTATAAT
*
19948306 TAAGCTATG
1 TAAGTTATG
*
19948315 TAAGTTATT
1 TAAGTTATG
19948324 TAAGTTATG
1 TAAGTTATG
19948333 T-A-TTATG
1 TAAGTTATG
19948340 TAAGTTAT-
1 TAAGTTATG
*
19948348 TTA-TTATG
1 TAAGTTATG
* *
19948356 AAAGTTAAG
1 TAAGTTATG
19948365 TAAGTTATG
1 TAAGTTATG
*
19948374 T--TTTATG
1 TAAGTTATG
* *
19948381 AAAATTATG
1 TAAGTTATG
*
19948390 TGAGTTCA--
1 TAAGTT-ATG
19948398 -ACA-TTATG
1 TA-AGTTATG
19948406 TAAGTTATG
1 TAAGTTATG
19948415 T-A-TTATG
1 TAAGTTATG
* *
19948422 AAAATTATG
1 TAAGTTATG
19948431 TAAG-T-TG
1 TAAGTTATG
19948438 TATA-TTATG
1 TA-AGTTATG
19948447 TAAGTTATG
1 TAAGTTATG
19948456 TAAGTTATG
1 TAAGTTATG
19948465 TAAGTTAT-
1 TAAGTTATG
*
19948473 TTA-TTATG
1 TAAGTTATG
* * *
19948481 AAAATTAAG
1 TAAGTTATG
*
19948490 TAAGCTATG
1 TAAGTTATG
19948499 T-A-TTATG
1 TAAGTTATG
* *
19948506 AAAATTATG
1 TAAGTTATG
* *
19948515 TGAGTTCA-A
1 TAAGTT-ATG
19948524 T-A-TTATG
1 TAAGTTATG
19948531 TAAGTTATG
1 TAAGTTATG
19948540 T-A-TTATG
1 TAAGTTATG
* *
19948547 AAAATTATG
1 TAAGTTATG
*
19948556 TAAGTTGTATA
1 TAAG-T-TATG
*
19948567 TTA-TTATG
1 TAAGTTATG
19948575 TAAGTTATG
1 TAAGTTATG
19948584 TAAGTTAT-
1 TAAGTTATG
*
19948592 TTA-TTATG
1 TAAGTTATG
* * *
19948600 AAAATTAAG
1 TAAGTTATG
19948609 TAAGTTATG
1 TAAGTTATG
19948618 T-A-TTATG
1 TAAGTTATG
* *
19948625 AAAATTATG
1 TAAGTTATG
*
19948634 TGAGTTCA--
1 TAAGTT-ATG
*
19948642 -ACA-TTACG
1 TA-AGTTATG
19948650 TAAGTTATG
1 TAAGTTATG
19948659 T-A-TTATG
1 TAAGTTATG
* *
19948666 AAAATTATG
1 TAAGTTATG
*
19948675 TAAGTTGTATA
1 TAAG-T-TATG
*
19948686 TTA-TTATG
1 TAAGTTATG
19948694 TAAGTTATG
1 TAAGTTATG
19948703 TAAGTTAT-
1 TAAGTTATG
*
19948711 TTA-TTATG
1 TAAGTTATG
* * *
19948719 AAAATTAAG
1 TAAGTTATG
19948728 TAAGTTATG
1 TAAGTTATG
19948737 T-A-TTATG
1 TAAGTTATG
* *
19948744 AAAATTATG
1 TAAGTTATG
*
19948753 TGAGTTCA--
1 TAAGTT-ATG
*
19948761 -ACA-TTACG
1 TA-AGTTATG
19948769 TAAGTTATG
1 TAAGTTATG
19948778 T-A-TTATG
1 TAAGTTATG
* *
19948785 AAAATTATG
1 TAAGTTATG
*
19948794 TAAGTTGTATA
1 TAAG-T-TATG
*
19948805 TTA-TTATG
1 TAAGTTATG
19948813 TAAGTTATG
1 TAAGTTATG
19948822 TAAGTTAT-
1 TAAGTTATG
*
19948830 TTA-TTATG
1 TAAGTTATG
* * *
19948838 AAAATTAAG
1 TAAGTTATG
19948847 TAAGTTATG
1 TAAGTTATG
19948856 T-A-TTATG
1 TAAGTTATG
* *
19948863 AAAATTATG
1 TAAGTTATG
* *
19948872 TGAGTTCA-A
1 TAAGTT-ATG
19948881 T-A-TTATG
1 TAAGTTATG
19948888 TAAGTTATG
1 TAAGTTATG
19948897 TA
1 TA
19948899 TGTTGTGTAT
Statistics
Matches: 421, Mismatches: 94, Indels: 138
0.64 0.14 0.21
Matches are distributed among these distances:
6 5 0.01
7 86 0.20
8 62 0.15
9 245 0.58
10 8 0.02
11 15 0.04
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:19948343 original size:16 final size:16
Alignment explanation
Indices: 19948319--19948634 Score: 96
Period size: 16 Copynumber: 19.9 Consensus size: 16
19948309 GCTATGTAAG
*
19948319 TTATTTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
19948335 TTATGTAAGTTATTTA
1 TTATGTAAGTTATGTA
* *
19948351 TTATGAAAGTTAAGTAA
1 TTATGTAAGTTATGT-A
* *
19948368 GTTATGT--TTTATGAAAA
1 -TTATGTAAGTTATG--TA
* **
19948385 TTATGTGAGTTCA-ACA
1 TTATGTAAGTT-ATGTA
19948401 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
19948417 TTATG-AA---A---A
1 TTATGTAAGTTATGTA
* *
19948426 TTATGTAAGTTGTATA
1 TTATGTAAGTTATGTA
19948442 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGT-A
*
19948459 GTTATGTAAGTTATTTA
1 -TTATGTAAGTTATGTA
* * *
19948476 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
* *
19948493 GCTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
* *
19948510 TTATGTGAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
19948526 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
19948542 TTATGAAAATTATGTA
1 TTATGTAAGTTATGTA
*
19948558 --A-GT-TGTATAT-TA
1 TTATGTAAGT-TATGTA
19948570 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGT-A
* *
19948587 GTTAT-TTA-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
19948604 TTAAGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
19948620 TTATGAAAATTATGT
1 TTATGTAAGTTATGT
19948635 GAGTTCAACA
Statistics
Matches: 217, Mismatches: 46, Indels: 74
0.64 0.14 0.22
Matches are distributed among these distances:
9 6 0.03
10 2 0.01
12 4 0.02
13 4 0.02
14 2 0.01
15 9 0.04
16 138 0.64
17 14 0.06
18 36 0.17
19 2 0.01
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:19948361 original size:41 final size:41
Alignment explanation
Indices: 19948319--19948899 Score: 401
Period size: 41 Copynumber: 14.4 Consensus size: 41
19948309 GCTATGTAAG
* * * *
19948319 TTATTTAAGTTATGTATTATGTAAGTTAT-TTATTATGAAA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAAA
* * * *
19948359 GTTAAGTAAGTTATGTTTTATGAAAATTATGTGAGT-TCAACA
1 -TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAA-A
* *
19948401 TTATGTAAGTTATGTATTATGAAAATTATGTAAGT-TGTATA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATG-AAA
* * *
19948442 TTATGTAAGTTATGTAAGTTATGTAAGTTAT-TTATTATGAAAA
1 TTATGTAAGTTATGT-A-TTATGAAAATTATGTTAGTATG-AAA
* * * *
19948485 TTAAGTAAGCTATGTATTATGAAAATTATGTGAGT-TCAATA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAA-A
* *
19948526 TTATGTAAGTTATGTATTATGAAAATTATGTAAGT-TG-TA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAAA
* * *
19948565 -TAT-T-A-TTATGTAAGTTATGTAAGTTAT-TTATTATGAAAA
1 TTATGTAAGTTATGT-A-TTATGAAAATTATGTTAGTATG-AAA
* * *
19948604 TTAAGTAAGTTATGTATTATGAAAATTATGTGAGT-TCAACA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAA-A
* * *
19948645 TTACGTAAGTTATGTATTATGAAAATTATGTAAGT-TG-TA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAAA
* * *
19948684 -TAT-T-A-TTATGTAAGTTATGTAAGTTAT-TTATTATGAAAA
1 TTATGTAAGTTATGT-A-TTATGAAAATTATGTTAGTATG-AAA
* * *
19948723 TTAAGTAAGTTATGTATTATGAAAATTATGTGAGT-TCAACA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAA-A
* * *
19948764 TTACGTAAGTTATGTATTATGAAAATTATGTAAGT-TG-TA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAAA
* * *
19948803 -TAT-T-A-TTATGTAAGTTATGTAAGTTAT-TTATTATGAAAA
1 TTATGTAAGTTATGT-A-TTATGAAAATTATGTTAGTATG-AAA
* * *
19948842 TTAAGTAAGTTATGTATTATGAAAATTATGTGAGT-TCAATA
1 TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAA-A
19948883 TTATGTAAGTTATGTAT
1 TTATGTAAGTTATGTAT
19948900 GTTGTGTATG
Statistics
Matches: 424, Mismatches: 75, Indels: 82
0.73 0.13 0.14
Matches are distributed among these distances:
35 18 0.04
36 15 0.04
37 42 0.10
38 7 0.02
39 6 0.01
40 14 0.03
41 248 0.58
42 28 0.07
43 46 0.11
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (41 bp):
TTATGTAAGTTATGTATTATGAAAATTATGTTAGTATGAAA
Found at i:19948395 original size:25 final size:25
Alignment explanation
Indices: 19948311--19948395 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
19948301 ATAATTAAGC
*
19948311 TATGTAAGTTATTTAAGTTATG--TAT
1 TATGTAAGTTATTT-A-TTATGAAAAT
*
19948336 TATGTAAGTTATTTATTATGAAAGT
1 TATGTAAGTTATTTATTATGAAAAT
*
19948361 TAAGTAAGTTATGTT-TTATGAAAAT
1 TATGTAAGTTAT-TTATTATGAAAAT
*
19948386 TATGTGAGTT
1 TATGTAAGTT
19948396 CAACATTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 5 0.10
24 1 0.02
25 43 0.84
26 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (25 bp):
TATGTAAGTTATTTATTATGAAAAT
Found at i:19948428 original size:25 final size:25
Alignment explanation
Indices: 19948400--19948570 Score: 100
Period size: 25 Copynumber: 6.8 Consensus size: 25
19948390 TGAGTTCAAC
19948400 ATTATGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
19948425 ATTATGTAAGTTGTATATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* **
19948450 GTTATGTAAGTTATGTAAGTTAT--TT
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * * *
19948475 ATTATGAAAATTAAGTAAGCTATG--T
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * * *
19948500 ATTATGAAAATTATGTGAGT-TCAAT
1 ATTATGTAAGTTATGT-ATTATGAAA
19948525 ATTATGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
19948550 ATTATGTAAGTTGTATATTAT
1 ATTATGTAAGTTATGTATTAT
19948571 TATGTAAGTT
Statistics
Matches: 116, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.01
24 3 0.03
25 107 0.92
26 1 0.01
27 4 0.03
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:19948611 original size:25 final size:25
Alignment explanation
Indices: 19948525--19948877 Score: 193
Period size: 25 Copynumber: 14.5 Consensus size: 25
19948515 TGAGTTCAAT
*
19948525 ATTATGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
*
19948550 ATTATGTAAGTTGTATATTATTATGTAA
1 ATTATGTAAG-T-TAT-TTATTATGAAA
*
19948578 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
19948603 ATTAAGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* ** * *
19948628 ATTATGTGAGTTCA-ACATTACGTAA
1 ATTATGTAAGTT-ATTTATTATGAAA
* ** *
19948653 GTTATGT-A-TTATGAAAATTATG-TA
1 ATTATGTAAGTTAT--TTATTATGAAA
* *
19948677 AGT-TGT-A--TA-TTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
19948697 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
19948722 ATTAAGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* ** * *
19948747 ATTATGTGAGTTCA-ACATTACGTAA
1 ATTATGTAAGTT-ATTTATTATGAAA
* ** *
19948772 GTTATGT-A-TTATGAAAATTATG-TA
1 ATTATGTAAGTTAT--TTATTATGAAA
* *
19948796 AGT-TGT-A--TA-TTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
19948816 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
19948841 ATTAAGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
*
19948866 ATTATGTGAGTT
1 ATTATGTAAGTT
19948878 CAATATTATG
Statistics
Matches: 254, Mismatches: 51, Indels: 46
0.72 0.15 0.13
Matches are distributed among these distances:
19 12 0.05
20 4 0.02
21 6 0.02
22 8 0.03
23 12 0.05
24 10 0.04
25 174 0.69
26 6 0.02
27 4 0.02
28 18 0.07
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:19948639 original size:119 final size:119
Alignment explanation
Indices: 19948328--19948899 Score: 1013
Period size: 119 Copynumber: 4.8 Consensus size: 119
19948318 GTTATTTAAG
* *
19948328 TTATGT-A-TTATGTAAGTTATTTATTATGAAAGTTAAGTAAGTTATGTTTTATGAAAATTATGT
1 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
19948391 GAGTTCAACATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTATGTAA
66 GAGTTCAACATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTG--TA-TAT-T-A
*
19948450 GTTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGCTATGTATTATGAAAATTATG
1 -TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATG
*
19948515 TGAGTTCAATATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTA
65 TGAGTTCAACATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTA
19948570 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
1 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
*
19948635 GAGTTCAACATTACGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTA
66 GAGTTCAACATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTA
19948689 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
1 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
*
19948754 GAGTTCAACATTACGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTA
66 GAGTTCAACATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTA
19948808 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
1 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
*
19948873 GAGTTCAATATTATGTAAGTTATGTAT
66 GAGTTCAACATTATGTAAGTTATGTAT
19948900 GTTGTGTATG
Statistics
Matches: 438, Mismatches: 9, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
119 325 0.74
120 1 0.00
121 1 0.00
122 3 0.01
123 8 0.02
124 1 0.00
125 99 0.23
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (119 bp):
TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGT
GAGTTCAACATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTA
Found at i:19948752 original size:94 final size:91
Alignment explanation
Indices: 19948441--19948844 Score: 305
Period size: 94 Copynumber: 4.3 Consensus size: 91
19948431 TAAGTTGTAT
* * * * * * *
19948441 ATTATGTAAGTTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGCTATGTATTATG
1 ATTATGTAAGTTATAT-A-TTATGAAAATTATGTATTATGAAAATTATGTAAGTTATTTATTATG
* * *
19948506 AAAATTATGTGAGTTCA-ATATTATGTAA
64 AAAATTATGTAAGTT-ATTTATTATGAAA
* * ** * * *
19948534 GTTATGT-A-TTATGAAAATTATGTAAGTTGTATATTATTATGTAAGTTATGTAAGTTATTTATT
1 ATTATGTAAGTTAT--ATATTATG-AAAAT-TAT-GTATTATGAAAATTATGTAAGTTATTTATT
* *
19948597 ATGAAAATTAAGTAAGTTATGTATTATGAAA
61 ATGAAAATTATGTAAGTTATTTATTATGAAA
* * * * *
19948628 ATTATGTGAGTTCA-ACATTACGTAAGTTATGTATTATGAAAATTATGTAAGTTGTATATTATTA
1 ATTATGTAAGTT-ATATATTATGAAAATTATGTATTATGAAAATTATGTAAG-T-TAT-TTATTA
* *
19948692 TGTAAGTTATGTAAGTTATTTATTATGAAA
62 TGAAAATTATGTAAGTTATTTATTATGAAA
* * * * * * *
19948722 ATTAAGTAAGTTATGTATTATGAAAATTATGTGAGT-TCAACATTACGTAAGTTATGTATTATGA
1 ATTATGTAAGTTATATATTATGAAAATTATGT-ATTATGAAAATTATGTAAGTTATTTATTATGA
*
19948786 AAATTATGTAAGTTGTATATTATTATGTAA
65 AAATTATGTAAG-T-TAT-TTATTATGAAA
* *
19948816 GTTATGTAAGTTATTTATTATGAAAATTA
1 ATTATGTAAGTTATATATTATGAAAATTA
19948845 AGTAAGTTAT
Statistics
Matches: 248, Mismatches: 46, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
91 45 0.18
92 12 0.05
93 20 0.08
94 165 0.67
95 3 0.01
96 2 0.01
97 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (91 bp):
ATTATGTAAGTTATATATTATGAAAATTATGTATTATGAAAATTATGTAAGTTATTTATTATGAA
AATTATGTAAGTTATTTATTATGAAA
Found at i:19948884 original size:25 final size:25
Alignment explanation
Indices: 19948763--19948898 Score: 139
Period size: 25 Copynumber: 5.3 Consensus size: 25
19948753 TGAGTTCAAC
* *
19948763 ATTACGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATATATTATGAAA
*
19948788 ATTATGTAAGTTGTATATTATTATGTAA
1 ATTATGTAAG-T-TATA-TATTATGAAA
* *
19948816 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATATATTATGAAA
* *
19948841 ATTAAGTAAGTTATGTATTATGAAA
1 ATTATGTAAGTTATATATTATGAAA
* *
19948866 ATTATGTGAGTTCA-ATATTATGTAA
1 ATTATGTAAGTT-ATATATTATGAAA
*
19948891 GTTATGTA
1 ATTATGTA
19948899 TGTTGTGTAT
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
25 65 0.71
26 5 0.05
27 4 0.04
28 18 0.20
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATATATTATGAAA
Found at i:19948953 original size:18 final size:18
Alignment explanation
Indices: 19948930--19948973 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
19948920 ATTATATTAA
19948930 AAATTATATTAAAAATAT
1 AAATTATATTAAAAATAT
*
19948948 AAATTAAATTTTAAAAATAT
1 AAATT--ATATTAAAAATAT
*
19948968 ATATTA
1 AAATTA
19948974 AATTTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTATATTAAAAATAT
Found at i:19948974 original size:13 final size:12
Alignment explanation
Indices: 19948920--19948955 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
19948910 TTGTGTACGT
19948920 ATTATATTAAAA
1 ATTATATTAAAA
19948932 ATTATATTAAAA
1 ATTATATTAAAA
*
19948944 ATATAAATTAAA
1 AT-TATATTAAA
19948956 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTATATTAAAA
Found at i:19948988 original size:20 final size:20
Alignment explanation
Indices: 19948938--19949038 Score: 85
Period size: 20 Copynumber: 4.7 Consensus size: 20
19948928 AAAAATTATA
*
19948938 TTAAAAATATAAATTAAATT
1 TTAAAAATATATATTAAATT
19948958 TTAAAAATATATATTAAATT
1 TTAAAAATATATATTAAATT
19948978 TTAGAAGTATATACATATATATTAAATT
1 TT---A--A-A-A-ATATATATTAAATT
* *
19949006 TTCAATATATATATTAAATT
1 TTAAAAATATATATTAAATT
* *
19949026 TTAGAAGTATATA
1 TTAAAAATATATA
19949039 CATATATATT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
20 44 0.67
22 1 0.02
23 2 0.03
25 1 0.02
26 1 0.02
27 1 0.02
28 16 0.24
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
TTAAAAATATATATTAAATT
Found at i:19948997 original size:28 final size:28
Alignment explanation
Indices: 19948964--19949055 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
19948954 AATTTTAAAA
19948964 ATATATATTAAATTTTAGAAGTATATAC
1 ATATATATTAAATTTTAGAAGTATATAC
*
19948992 ATATATATTAAATTTT-----CA-AT--
1 ATATATATTAAATTTTAGAAGTATATAC
19949012 ATATATATTAAATTTTAGAAGTATATAC
1 ATATATATTAAATTTTAGAAGTATATAC
19949040 ATATATATTAAATTTT
1 ATATATATTAAATTTT
19949056 CAATATATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
20 16 0.30
22 2 0.04
23 1 0.02
25 1 0.02
26 2 0.04
28 32 0.59
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (28 bp):
ATATATATTAAATTTTAGAAGTATATAC
Found at i:19949002 original size:48 final size:47
Alignment explanation
Indices: 19948944--19949069 Score: 200
Period size: 48 Copynumber: 2.7 Consensus size: 47
19948934 TATATTAAAA
*
19948944 ATATAAATTAAATTTTAAAAATATATATTAAATTTTAGAAGTATATAC
1 ATATATATTAAATTTT-AAAATATATATTAAATTTTAGAAGTATATAC
*
19948992 ATATATATTAAATTTTCAATATATATATTAAATTTTAGAAGTATATAC
1 ATATATATTAAATTTT-AAAATATATATTAAATTTTAGAAGTATATAC
*
19949040 ATATATATTAAATTTT-CAATATATATTAAA
1 ATATATATTAAATTTTAAAATATATATTAAA
19949070 AATATATTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 12 0.16
48 61 0.84
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATATATTAAATTTTAAAATATATATTAAATTTTAGAAGTATATAC
Found at i:19949064 original size:28 final size:29
Alignment explanation
Indices: 19949012--19949080 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
19949002 AATTTTCAAT
*
19949012 ATATATATTAAATTTTAGAAGTATA-TAC
1 ATATATATTAAATTTTAGAAGTATATTAA
19949040 ATATATATTAAATTTTCA-ATA-TATATTAA
1 ATATATATTAAATTTT-AGA-AGTATATTAA
*
19949069 AAATATATTAAA
1 ATATATATTAAA
19949081 AATACGGTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 21 0.58
29 15 0.42
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
ATATATATTAAATTTTAGAAGTATATTAA
Found at i:19949075 original size:13 final size:12
Alignment explanation
Indices: 19949057--19949161 Score: 53
Period size: 11 Copynumber: 9.1 Consensus size: 12
19949047 TTAAATTTTC
19949057 AATATATATTAA
1 AATATATATTAA
19949069 AA-ATATATTAA
1 AATATATATTAA
***
19949080 AA-ATACGGTAGA
1 AATATATATTA-A
*
19949092 AATATATGTTAA
1 AATATATATTAA
19949104 AA-ATATA-T-A
1 AATATATATTAA
* **
19949113 AATTTACGTT-A
1 AATATATATTAA
*
19949124 AATA-AAATTTAA
1 AATATATA-TTAA
*
19949136 AATTTATATTAAA
1 AATATATATT-AA
19949149 AATATATATTAA
1 AATATATATTAA
19949161 A
1 A
19949162 TTTTAAAAAA
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
9 3 0.04
10 4 0.06
11 27 0.39
12 17 0.24
13 19 0.27
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (12 bp):
AATATATATTAA
Found at i:19949130 original size:24 final size:23
Alignment explanation
Indices: 19949102--19949164 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
19949092 AATATATGTT
*
19949102 AAAAATATATAAATTTACGTTAA
1 AAAAATATATAAATTTACATTAA
* *
19949125 ATAAAATTTA-AAATTTATATTAA
1 A-AAAATATATAAATTTACATTAA
*
19949148 AAATATATATTAAATTT
1 AAAAATATA-TAAATTT
19949165 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 6 0.19
23 13 0.41
24 13 0.41
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAAATATATAAATTTACATTAA
Found at i:19949147 original size:23 final size:24
Alignment explanation
Indices: 19949103--19949164 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
19949093 ATATATGTTA
*
19949103 AAAATATATAAATTTACGTTAAAT
1 AAAATATATAAATTTACATTAAAT
* *
19949127 AAAATTTA-AAATTTATATTAAA-
1 AAAATATATAAATTTACATTAAAT
*
19949149 AATATATATTAAATTT
1 AAAATATA-TAAATTT
19949165 TAAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 6 0.19
23 12 0.39
24 13 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAATATATAAATTTACATTAAAT
Found at i:19949203 original size:28 final size:27
Alignment explanation
Indices: 19949172--19949262 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 27
19949162 TTTTAAAAAA
* *
19949172 ATATAAATTAAAATTTGAAAGTATATGT
1 ATATAAATTAAAATTTCAAA-TATATAT
* * *
19949200 ATATATATTAAATTTTCAAA-ACATAT
1 ATATAAATTAAAATTTCAAATATATAT
* * *
19949226 ATATAAATTAAATTTTAAAATATATAC
1 ATATAAATTAAAATTTCAAATATATAT
19949253 ATATTAAATT
1 ATA-TAAATT
19949263 TTAAAGATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 22 0.42
27 7 0.13
28 23 0.44
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (27 bp):
ATATAAATTAAAATTTCAAATATATAT
Found at i:19949275 original size:49 final size:50
Alignment explanation
Indices: 19949154--19949276 Score: 148
Period size: 49 Copynumber: 2.5 Consensus size: 50
19949144 TTAAAAATAT
*
19949154 ATATTAAATTTTAAAAA-A-ATATAAATTAAAATTTGAAAGTATATGTATAT
1 ATATTAAATTTTAAAAATATATATAAATTAAAATTTGAAAG-ATA-GTATAC
*
19949204 ATATTAAATTTTCAAAACATATATATAAATT-AAATTTTAAA-ATA-TATAC
1 ATATTAAATTTT-AAAA-ATATATATAAATTAAAATTTGAAAGATAGTATAC
*
19949253 ATATTAAATTTTAAAGATATATAT
1 ATATTAAATTTTAAAAATATATAT
19949277 TTTTAAAATA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
47 8 0.12
48 3 0.05
49 16 0.24
50 12 0.18
51 7 0.11
52 1 0.02
53 10 0.15
54 9 0.14
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (50 bp):
ATATTAAATTTTAAAAATATATATAAATTAAAATTTGAAAGATAGTATAC
Found at i:19949276 original size:28 final size:25
Alignment explanation
Indices: 19949150--19949276 Score: 115
Period size: 23 Copynumber: 5.2 Consensus size: 25
19949140 TATATTAAAA
19949150 ATAT-ATATTAAATTTTAAAAA-A-
1 ATATAATATTAAATTTTAAAAATAT
* *
19949172 ATATAA-ATTAAAATTTGAAAGTATAT
1 ATATAATATT-AAATTTTAAA-AATAT
*
19949198 GTATATATATTAAATTTTCAAAACATAT
1 ATATA-ATATTAAATTTT-AAAA-ATAT
19949226 ATATAA-ATTAAATTTT-AAAATAT
1 ATATAATATTAAATTTTAAAAATAT
* *
19949249 ATA-CATATTAAATTTTAAAGATAT
1 ATATAATATTAAATTTTAAAAATAT
19949273 ATAT
1 ATAT
19949277 TTTTAAAATA
Statistics
Matches: 85, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
22 8 0.09
23 27 0.32
24 13 0.15
25 1 0.01
26 14 0.16
27 8 0.09
28 14 0.16
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (25 bp):
ATATAATATTAAATTTTAAAAATAT
Found at i:19949931 original size:15 final size:15
Alignment explanation
Indices: 19949913--19949955 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19949903 CCAAAATAAG
19949913 AGAAAAGAAAACAGT
1 AGAAAAGAAAACAGT
*
19949928 AGAAACCG-AAACAGT
1 AGAAA-AGAAAACAGT
*
19949943 AGAAATGAAAACA
1 AGAAAAGAAAACA
19949956 AATTGGTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.63, C:0.12, G:0.19, T:0.07
Consensus pattern (15 bp):
AGAAAAGAAAACAGT
Found at i:19953513 original size:42 final size:40
Alignment explanation
Indices: 19953395--19953514 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 40
19953385 AGATTTTATT
* *
19953395 ATTAGCGGCGCTTTTCCAAAAAAATGCCGCTAAAAGACCGAGC
1 ATTAGCGGCGCTTTT--AAAAAAACGCCGCT-AAAGGCCGAGC
* * *
19953438 ATTA-CAGCGCTTCTT-CAAAAACGCCGCTGAAGGCCAGAGC
1 ATTAGCGGCGCTT-TTAAAAAAACGCCGCTAAAGGCC-GAGC
19953478 ATTAGCGGCGCTTTATAAAAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTT-TAAAAAAACGCCGCTAAAGGCC
19953515 CAAAAATTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
39 5 0.08
40 20 0.31
41 8 0.12
42 25 0.39
43 6 0.09
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTAAAAAAACGCCGCTAAAGGCCGAGC
Found at i:19958203 original size:3 final size:3
Alignment explanation
Indices: 19958197--19958229 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
19958187 TTTTTCTCAC
19958197 TAT TAT TAT TAT TAT T-T TAT CTAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
19958230 CATTGTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19964380 original size:50 final size:50
Alignment explanation
Indices: 19964161--19964543 Score: 421
Period size: 50 Copynumber: 7.6 Consensus size: 50
19964151 TATCGGTGAA
* * * * *
19964161 CACGTGTGTAGTACTCTGTGAAGGCTACTACGTGTACCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGAT
* * * * * * *
19964212 CACATGTGTAGTACTAAGTGGAGGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTA-AAAC-TTGAT
* *** *
19964263 CACGTGTGTAGTACTATGTGAAGGCTACT-TCGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTAT-GTGAACCG-TAAAACTTGAT
* * ** *
19964314 TACATGTGTAGTACTAAATGAAGGCTACTATGTGTACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
* *
19964364 CATGTGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
* * *
19964414 CACGTGTATAGTACTATTTGAAGGCTACTATGTAAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
* *
19964464 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
*
19964514 CACGTGTCTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
19964544 CGTGTATCGA
Statistics
Matches: 281, Mismatches: 44, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.00
50 173 0.62
51 103 0.37
52 3 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
Found at i:19966673 original size:49 final size:49
Alignment explanation
Indices: 19966609--19966754 Score: 224
Period size: 49 Copynumber: 3.0 Consensus size: 49
19966599 ACATGTGAAA
*
19966609 ATGTGATAATGTGATT-CAGTATAAGACCATAGTTGGACTATGGCATCGGT
1 ATGTGAT-ATGTGATTAC-GTGTAAGACCATAGTTGGACTATGGCATCGGT
*
19966659 ATGTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGT
1 ATGTGATATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGGT
*
19966708 ATGTGATATGTGATTATGTGTAAGACCATTA-TTGGACTATGGCATCG
1 ATGTGATATGTGATTACGTGTAAGACCA-TAGTTGGACTATGGCATCG
19966755 AGAAAATAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
49 80 0.89
50 10 0.11
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (49 bp):
ATGTGATATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGGT
Found at i:19970333 original size:50 final size:50
Alignment explanation
Indices: 19970114--19970500 Score: 427
Period size: 50 Copynumber: 7.7 Consensus size: 50
19970104 TATCGGTGAA
* * *
19970114 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATTG-T
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
* * * * * * *
19970165 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGAT
* * ** ***
19970216 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* * * * *
19970267 TACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
19970317 CACGTGTGTAGTACTAAGTGAAGGCTACTACATGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* * * * *
19970367 CACGTGTATAGTACTATTTGAAGGCTACTATGTAAACCGTAAAACCTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
19970417 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
19970467 CACGTGTCTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
19970501 TATCGAGTGA
Statistics
Matches: 278, Mismatches: 53, Indels: 11
0.81 0.15 0.03
Matches are distributed among these distances:
49 1 0.00
50 176 0.63
51 98 0.35
52 2 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:19974059 original size:80 final size:80
Alignment explanation
Indices: 19973943--19974102 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
19973933 AACCCTACAT
*
19973943 AGAATTTAATTAATCACACGTCCACTCGTTAATCCCTCATAAAAGGATTAATCCCTTATGGATTT
1 AGAATTTAATTAATCACACGTCCACTCGTTAATCCCTCATAAAAGGATTAATCCCTCATGGATTT
19974008 TATAAACAATGTAAA
66 TATAAACAATGTAAA
*
19974023 AGAATTTAATTAATCACACGTCCACTCGTTAATCCCTCATAAGAGGATTAATCCCTCATGGATTT
1 AGAATTTAATTAATCACACGTCCACTCGTTAATCCCTCATAAAAGGATTAATCCCTCATGGATTT
19974088 TATAAACAATGTAAA
66 TATAAACAATGTAAA
19974103 CTTCATAAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (80 bp):
AGAATTTAATTAATCACACGTCCACTCGTTAATCCCTCATAAAAGGATTAATCCCTCATGGATTT
TATAAACAATGTAAA
Found at i:19977713 original size:36 final size:36
Alignment explanation
Indices: 19977673--19977759 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
19977663 GCCTTTTGAG
* *
19977673 TCTATTCTGACTGATTTTGTTTAGTAACCTTTCAAA
1 TCTATTCTGACTGATTTCGTTTAGCAACCTTTCAAA
* * * **
19977709 TCTATTTTGACTGATTTCGTTTAGCAGCTTTTCGGA
1 TCTATTCTGACTGATTTCGTTTAGCAACCTTTCAAA
*
19977745 TCTATTCTAACTGAT
1 TCTATTCTGACTGAT
19977760 GCGCTCATCC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (36 bp):
TCTATTCTGACTGATTTCGTTTAGCAACCTTTCAAA
Found at i:19985805 original size:42 final size:42
Alignment explanation
Indices: 19985752--19985834 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
19985742 ACATAACCAA
*
19985752 TATATGCTATTTTCTAATTTCAATTACATAACTCAACCCCTG
1 TATATGCTATTTTCCAATTTCAATTACATAACTCAACCCCTG
* *
19985794 TATATGTTATTTTCCAATTTCAATTACATAACTCAAGCCCT
1 TATATGCTATTTTCCAATTTCAATTACATAACTCAACCCCT
19985835 ACTCAAGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (42 bp):
TATATGCTATTTTCCAATTTCAATTACATAACTCAACCCCTG
Found at i:19988071 original size:3 final size:3
Alignment explanation
Indices: 19988057--19988106 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
19988047 AAATGACATT
* * *
19988057 TTA TTA TT- TTA TTA TTA TTG TTA TTA TTA ATA TTA TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19988103 TTA T
1 TTA T
19988107 GAAATAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19988092 original size:18 final size:18
Alignment explanation
Indices: 19988060--19988101 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
19988050 TGACATTTTA
*
19988060 TTATT-TTATTATTATTG
1 TTATTATTAATATTATTG
19988077 TTATTATTAATATTATTG
1 TTATTATTAATATTATTG
19988095 TTATTAT
1 TTATTAT
19988102 ATTATGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTATTATTAATATTATTG
Found at i:19989807 original size:13 final size:14
Alignment explanation
Indices: 19989772--19989809 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
19989762 AGGCCCTATT
*
19989772 TATTATGAATATAA
1 TATTATGAAGATAA
*
19989786 TATTTTGAAGAT-A
1 TATTATGAAGATAA
19989799 TATTATGAAGA
1 TATTATGAAGA
19989810 ATTATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TATTATGAAGATAA
Found at i:19994562 original size:162 final size:162
Alignment explanation
Indices: 19994295--19994619 Score: 650
Period size: 162 Copynumber: 2.0 Consensus size: 162
19994285 TTAAAAAAAT
19994295 AAATGCAACAAGTACAAAAAAGATTTAAAATTATTACCAACAAGATTTGAACCAATGTACTAAGG
1 AAATGCAACAAGTACAAAAAAGATTTAAAATTATTACCAACAAGATTTGAACCAATGTACTAAGG
19994360 GAAAAGAGTAAGCATCTAAACCAACTAAGCTAAACTAATTAACTAACATATTATAAAAATATTGT
66 GAAAAGAGTAAGCATCTAAACCAACTAAGCTAAACTAATTAACTAACATATTATAAAAATATTGT
19994425 TATTATCTTAATTATATTACTACGATCTAATA
131 TATTATCTTAATTATATTACTACGATCTAATA
19994457 AAATGCAACAAGTACAAAAAAGATTTAAAATTATTACCAACAAGATTTGAACCAATGTACTAAGG
1 AAATGCAACAAGTACAAAAAAGATTTAAAATTATTACCAACAAGATTTGAACCAATGTACTAAGG
19994522 GAAAAGAGTAAGCATCTAAACCAACTAAGCTAAACTAATTAACTAACATATTATAAAAATATTGT
66 GAAAAGAGTAAGCATCTAAACCAACTAAGCTAAACTAATTAACTAACATATTATAAAAATATTGT
19994587 TATTATCTTAATTATATTACTACGATCTAATA
131 TATTATCTTAATTATATTACTACGATCTAATA
19994619 A
1 A
19994620 TTTATCGGAC
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (162 bp):
AAATGCAACAAGTACAAAAAAGATTTAAAATTATTACCAACAAGATTTGAACCAATGTACTAAGG
GAAAAGAGTAAGCATCTAAACCAACTAAGCTAAACTAATTAACTAACATATTATAAAAATATTGT
TATTATCTTAATTATATTACTACGATCTAATA
Found at i:20005993 original size:21 final size:21
Alignment explanation
Indices: 20005964--20006003 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20005954 AAAATAAGAA
*
20005964 CATATGTATAAAATATATATG
1 CATACGTATAAAATATATATG
**
20005985 CATACGTATACTATATATA
1 CATACGTATAAAATATATA
20006004 AACAATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (21 bp):
CATACGTATAAAATATATATG
Found at i:20008876 original size:13 final size:13
Alignment explanation
Indices: 20008856--20008904 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
20008846 AAAAATTACT
20008856 ATTTTTTATTTTA
1 ATTTTTTATTTTA
20008869 GA-TTTTTAGTTTTA
1 -ATTTTTTA-TTTTA
*
20008883 ATTTTTTATTTTT
1 ATTTTTTATTTTA
*
20008896 CTTTTTTAT
1 ATTTTTTAT
20008905 GTAACGAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (13 bp):
ATTTTTTATTTTA
Found at i:20010155 original size:10 final size:10
Alignment explanation
Indices: 20010140--20010214 Score: 57
Period size: 10 Copynumber: 7.3 Consensus size: 10
20010130 GAAGGAGAGG
20010140 GAAAGAAGAA
1 GAAAGAAGAA
20010150 GAAAGAAAGAAA
1 GAAAG-AAG-AA
20010162 GAAA-AAGAA
1 GAAAGAAGAA
20010171 GGAAAGAA-AA
1 -GAAAGAAGAA
*
20010181 GGAAAGGAGAA
1 -GAAAGAAGAA
*
20010192 G-AAGAAAAAA
1 GAAAG-AAGAA
*
20010202 GAAAGAAAAA
1 GAAAGAAGAA
20010212 GAA
1 GAA
20010215 CGAAACAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
9 5 0.09
10 34 0.62
11 10 0.18
12 6 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:20010157 original size:14 final size:14
Alignment explanation
Indices: 20010140--20010266 Score: 72
Period size: 14 Copynumber: 9.1 Consensus size: 14
20010130 GAAGGAGAGG
20010140 GAAAG-AAGAAGAAA
1 GAAAGAAAGAAG-AA
*
20010154 GAAAGAAAGAAAAA
1 GAAAGAAAGAAGAA
*
20010168 GAAGGAAAGAA-AA
1 GAAAGAAAGAAGAA
20010181 GGAAAGGAGAAGAAGAA
1 -GAAA-GA-AAGAAGAA
* *
20010198 AAAAGAAAGAAAAA
1 GAAAGAAAGAAGAA
* *
20010212 GAACGAAACAA-AA
1 GAAAGAAAGAAGAA
*
20010225 GGAAATGAGATG-AGAA
1 -GAAA-GA-AAGAAGAA
20010241 -AAA-AAAGAAGAA
1 GAAAGAAAGAAGAA
20010253 G-AAG-AAGAAGAA
1 GAAAGAAAGAAGAA
20010265 GA
1 GA
20010267 GGGGAGGAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 27
0.69 0.09 0.21
Matches are distributed among these distances:
11 2 0.02
12 16 0.18
13 4 0.05
14 41 0.47
15 12 0.14
16 11 0.12
17 2 0.02
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (14 bp):
GAAAGAAAGAAGAA
Found at i:20010200 original size:20 final size:20
Alignment explanation
Indices: 20010139--20010258 Score: 72
Period size: 20 Copynumber: 5.8 Consensus size: 20
20010129 AGAAGGAGAG
20010139 GGAAAGAAGAAGAAAGAAAGAA
1 GGAAAGAAGAAG-AAGAAA-AA
*
20010161 AGAAA-AAGAAGGAA-AGAAAA
1 GGAAAGAAGAA-GAAGA-AAAA
*
20010181 GGAAAGGAGAAGAAGAAAAA
1 GGAAAGAAGAAGAAGAAAAA
* *
20010201 AGAAAGAAAAAGAACGAAACAAAA
1 GGAAAGAAGAAGAA-G--A-AAAA
*
20010225 GGAAATG-AGATG-AGAAAAA
1 GGAAA-GAAGAAGAAGAAAAA
20010244 --AAAGAAGAAGAAGAA
1 GGAAAGAAGAAGAAGAA
20010259 GAAGAAGAGG
Statistics
Matches: 77, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
16 1 0.01
17 7 0.09
18 4 0.05
19 4 0.05
20 26 0.34
21 15 0.19
22 6 0.08
23 2 0.03
24 11 0.14
25 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (20 bp):
GGAAAGAAGAAGAAGAAAAA
Found at i:20010225 original size:44 final size:44
Alignment explanation
Indices: 20010143--20010258 Score: 155
Period size: 44 Copynumber: 2.6 Consensus size: 44
20010133 GGAGAGGGAA
* *
20010143 AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAGAAGAAA-AAAGAAAGAAAAAGAACGAAACAAAAGGAAAGG
*
20010188 AGAAGAAGAAAAAAGAAAGAAAAAGAACGAAACAAAAGGAAATG
1 AGAAGAAGAAAAAAGAAAGAAAAAGAACGAAACAAAAGGAAAGG
*
20010232 AGATGAGAA-AAAAAAG-AAGAAGAAGAA
1 AGA--AGAAGAAAAAAGAAAGAAAAAGAA
20010259 GAAGAAGAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
44 43 0.66
45 18 0.28
46 4 0.06
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (44 bp):
AGAAGAAGAAAAAAGAAAGAAAAAGAACGAAACAAAAGGAAAGG
Found at i:20010431 original size:79 final size:79
Alignment explanation
Indices: 20010339--20010519 Score: 362
Period size: 79 Copynumber: 2.3 Consensus size: 79
20010329 ATTTGTGTGT
20010339 AAAAAAATTATGTTATGTACATTATACGTGTTTTATTATGTTATTTAGCATATAAATTTTATGAA
1 AAAAAAATTATGTTATGTACATTATACGTGTTTTATTATGTTATTTAGCATATAAATTTTATGAA
20010404 ATTTATTTAGCATG
66 ATTTATTTAGCATG
20010418 AAAAAAATTATGTTATGTACATTATACGTGTTTTATTATGTTATTTAGCATATAAATTTTATGAA
1 AAAAAAATTATGTTATGTACATTATACGTGTTTTATTATGTTATTTAGCATATAAATTTTATGAA
20010483 ATTTATTTAGCATG
66 ATTTATTTAGCATG
20010497 AAAAAAATTATGTTATGTACATT
1 AAAAAAATTATGTTATGTACATT
20010520 GTATGTTGAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 102 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (79 bp):
AAAAAAATTATGTTATGTACATTATACGTGTTTTATTATGTTATTTAGCATATAAATTTTATGAA
ATTTATTTAGCATG
Found at i:20011368 original size:285 final size:285
Alignment explanation
Indices: 20010744--20011694 Score: 1586
Period size: 285 Copynumber: 3.3 Consensus size: 285
20010734 AAAGTAAAAA
*
20010744 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGATAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* * *
20010809 GGCTGAGGTAAGAGTGTTTTAC-AAATTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTG
66 GGCCGAAGTAAGAGTGTTTTACTAAA-TTTTTTAAAAATTCAGAAATAATTAATACAAATATTTC
20010873 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAAT-AATTTTTTTATTGAAAGTA
130 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAATTTTTTTATTGAAAGTA
* * *
20010937 ATAAAATTTGGGAAAATAATACGAGCAAATGACATGAATAA-AGTTTTTCTTACACTAAATTAAT
195 ATAAAATTCGGGAAAATAATACGAGCAAATGGCAGGAATAAGAGTTTTT-TTACACTAAATTAAT
*
20011001 TTAAAAAACACATTAAATTAATAAATT
259 TTAAAAAACACACTAAATTAATAAATT
*
20011028 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACAAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* * * *
20011093 GGCCGAAGTAAGAGTATTATACTAAAATTTTTAAAAATTTAGAAATAATTAATACAAATATTTCA
66 GGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCA
*
20011158 AACAAAATTTACTGAAATAATATAAAATAATAAAATACGAAAATAAATTTTTTTATTGAAAGTAA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAATTTTTTTATTGAAAGTAA
* *
20011223 TAAAATTCGGGAAAATAATATGAGCAAATGGCAGGAATAAGGGTTTTTTTACACTAAATTAATTT
196 TAAAATTCGGGAAAATAATACGAGCAAATGGCAGGAATAAGAGTTTTTTTACACTAAATTAATTT
20011288 AAAAAACACACTAAATTAATAAATT
261 AAAAAACACACTAAATTAATAAATT
* * *
20011313 TATAAAATTAGAAATTATGAAATTTTTTAAACTAATAAAATACAGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* *
20011378 GGCCGAAGTAAGAGTGTTTTACTAACTTTTTTAAAAATTCAGAAATAATTAAGACAAATATTTCA
66 GGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCA
* *
20011443 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATTTTTTTTACTGAAAGTAA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAATTTTTTTATTGAAAGTAA
* *
20011508 TAAAATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAGCGTTTTTTTACACTAAATTAATTT
196 TAAAATTCGGGAAAATAATACGAGCAAATGGCAGGAATAAGAGTTTTTTTACACTAAATTAATTT
20011573 -AAAAACACACTAAATTTAATAAATT
261 AAAAAACACACTAAA-TTAATAAATT
* *
20011598 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAACACGAAGAACT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* *
20011663 GGCCGCAGTAAGAGTGTTTTACTAACTTTTTT
66 GGCCGAAGTAAGAGTGTTTTACTAAATTTTTT
20011695 TTCAACATGC
Statistics
Matches: 625, Mismatches: 38, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
284 174 0.28
285 445 0.71
286 6 0.01
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (285 bp):
TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
GGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCA
AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAATTTTTTTATTGAAAGTAA
TAAAATTCGGGAAAATAATACGAGCAAATGGCAGGAATAAGAGTTTTTTTACACTAAATTAATTT
AAAAAACACACTAAATTAATAAATT
Found at i:20013945 original size:11 final size:11
Alignment explanation
Indices: 20013929--20013954 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20013919 TTTATAACTT
20013929 AATTTGGATAC
1 AATTTGGATAC
20013940 AATTTGGATAC
1 AATTTGGATAC
20013951 AATT
1 AATT
20013955 CAATCATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:20019486 original size:16 final size:15
Alignment explanation
Indices: 20019465--20019508 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
20019455 TTTTATACTC
20019465 AAAATAATACTAACTA
1 AAAATAATACTAAC-A
*
20019481 AAAATAATAACTAACC
1 AAAATAAT-ACTAACA
*
20019497 ATAATAATACTA
1 AAAATAATACTA
20019509 GTTTTTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 6 0.24
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAATACTAACA
Found at i:20019839 original size:27 final size:27
Alignment explanation
Indices: 20019807--20019858 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
20019797 ACTAGTGCCG
*
20019807 CCCATGGGAATGGCACCATCGGTGCTA
1 CCCATGGGAATGACACCATCGGTGCTA
*
20019834 CCCATGGGAATGACACCATTGGTGC
1 CCCATGGGAATGACACCATCGGTGC
20019859 CGCCTATCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.19
Consensus pattern (27 bp):
CCCATGGGAATGACACCATCGGTGCTA
Found at i:20020421 original size:28 final size:27
Alignment explanation
Indices: 20020369--20020442 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
20020359 CTTCAATTAT
* * *
20020369 TAAAGAATTAATTTTTGAAATTAAAAG
1 TAAAAAATTAATTTTTAAAAATAAAAG
*
20020396 TAAAAAATTAAATTTTTAAAAATAAAAT
1 TAAAAAATT-AATTTTTAAAAATAAAAG
*
20020424 TAAAAAAATAATTTTTAAA
1 TAAAAAATTAATTTTTAAA
20020443 CGTCTAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 18 0.44
28 23 0.56
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
TAAAAAATTAATTTTTAAAAATAAAAG
Found at i:20020753 original size:19 final size:19
Alignment explanation
Indices: 20020729--20020769 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20020719 AAGAGCAAAG
*
20020729 TAAAAAGATAATGTTT-TTT
1 TAAAAAAATAAT-TTTATTT
20020748 TAAAAAAATAATTTTATTT
1 TAAAAAAATAATTTTATTT
20020767 TAA
1 TAA
20020770 CTCTAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TAAAAAAATAATTTTATTT
Found at i:20026000 original size:15 final size:15
Alignment explanation
Indices: 20025980--20026008 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20025970 AAGGTTAGGG
20025980 AGGCTGATGTTCATA
1 AGGCTGATGTTCATA
20025995 AGGCTGATGTTCAT
1 AGGCTGATGTTCAT
20026009 GAGACTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (15 bp):
AGGCTGATGTTCATA
Found at i:20049166 original size:17 final size:17
Alignment explanation
Indices: 20049144--20049176 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20049134 TTTTAATAGC
20049144 TATAACATGGAATTGAT
1 TATAACATGGAATTGAT
*
20049161 TATAACATGGAGTTGA
1 TATAACATGGAATTGA
20049177 GTGAAATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (17 bp):
TATAACATGGAATTGAT
Found at i:20049461 original size:18 final size:20
Alignment explanation
Indices: 20049428--20049467 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
20049418 TTAAAAATAT
*
20049428 ATATTTTGAAATTTTTATAA
1 ATATTTTGAAATTTTTAAAA
20049448 ATATTTTG-AA-TTTTAAAA
1 ATATTTTGAAATTTTTAAAA
20049466 AT
1 AT
20049468 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATATTTTGAAATTTTTAAAA
Found at i:20055408 original size:89 final size:89
Alignment explanation
Indices: 20054757--20055595 Score: 1022
Period size: 92 Copynumber: 9.4 Consensus size: 89
20054747 GCCAATACAT
* * * * *
20054757 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCATGCCAATACATGAAGACAAGATTTGCTTTCT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCT
* * ***
20054821 TCGATCTACTTC-ACACCAATACAT
65 TCGATCTACTTCGCCACCAGTATGG
* * * * * * *
20054845 GAAGACAAGATCTGCTT-TCCTCGATCTACTTCACGCCAATACATGAAGATAATATCCGCTTTCT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCT
* * * ***
20054909 TCGATCTACTTC-ACGCCAATACAT
65 TCGATCTACTTCGCCACCAGTATGG
* * * * * *
20054933 GAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACATG-AGACAAGATCCGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
20054997 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
20055021 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTACATGAAGATAAGATCCGTTTTTTC
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT-C-TGTTTT-
20055086 CTTCGATCTACTTCGCCACCAGTATGG
63 CTTCGATCTACTTCGCCACCAGTATGG
* * *
20055113 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTACATGAAGATAAGATCCGTTTTTTC
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT-C-TGTTTT-
20055178 CTTCGATCTACTTCGCCACCAGTATGG
63 CTTCGATCTACTTCGCCACCAGTATGG
* * *
20055205 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTACATGAAGATAAGATCCGTTTTTTC
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT-C-TGTTTT-
20055270 CTTCGATCTACTTCGCCACCAGTATGG
63 CTTCGATCTACTTCGCCACCAGTATGG
* * *
20055297 GAAGACAAGATCTGTTACCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
** *
20055362 CGATCTGTTTCACCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
20055386 AAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTATT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
** *
20055451 CGATCTGTTTCGCCACCAATATGG
66 CGATCTACTTCGCCACCAGTATGG
*
20055475 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
* *
20055540 CGATCTGCTTCGGCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
** * * *
20055564 GAAGGTAAGATCTGTTTTCTTCGATCTGCTTC
1 GAAGACAAGATCTGTTATCTTTGATCTACTTC
20055596 GCCACCAGTA
Statistics
Matches: 691, Mismatches: 54, Indels: 11
0.91 0.07 0.01
Matches are distributed among these distances:
87 30 0.04
88 167 0.24
89 223 0.32
90 5 0.01
91 4 0.01
92 262 0.38
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:20055602 original size:312 final size:313
Alignment explanation
Indices: 20055265--20055889 Score: 918
Period size: 312 Copynumber: 2.0 Consensus size: 313
20055255 AAGATCCGTT
* *
20055265 TTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTACCTTTGATCTACTTCA
1 TTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTACCTCTGATCTACTTCA
* *
20055330 TGCCAGTACATGAAGACAAGATCTGCTTTCTTCGA-TCTGTTTCACCACCAGTATGGAAAGACAA
66 AGCCAGTACATGAAGACAAGATCTGCTTTCTTCGACT-TGCTTCACCACCAGTATGGAAAGACAA
* * *
20055394 GATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTATTCGA-TCTG
130 GATCTGGTATCTCTGATCTACTTCAAGCCAATACATGAAGACAAGATCTGTTTTATTCGACT-TG
* * *
20055458 TTTCGCCACCAATATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
194 CTTCGCCACCAATATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAG
* * * *
20055523 ACAAGATCTG-TTTTCTTCGATCTGCTTCGGCACCAGTATGGGAAGGT-AAGATCTG
259 ACAAGATCTGCTTTT-TTCGACCTACTTCGCCACCAATATGGGAA-GTCAAGATCTG
* * *
20055578 TTTT-CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCA
1 TTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTACCTCTGATCTACTTCA
* * * * *
20055642 AGCCAGTACATGAAGACAAGATCTGTTTTCTTTGACTTGCTTCGCCACCAGTATGGGAAGGCAAG
66 AGCCAGTACATGAAGACAAGATCTGCTTTCTTCGACTTGCTTCACCACCAGTATGGAAAGACAAG
* * *
20055707 ATCTGGTATCTCTGATCTACTTCAAGCCAGTACATGAAGACAAGATCTGTTTTCTTTGACTTGCT
131 ATCTGGTATCTCTGATCTACTTCAAGCCAATACATGAAGACAAGATCTGTTTTATTCGACTTGCT
* *
20055772 TCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCATGCCAGTACATGAAGAC
196 TCGCCACCAATATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGAC
* *
20055837 AAGGTCTGCTTTTTTTGACCTACTTCGCCACCAATATGGGAAGTCAAGATCTG
261 AAGATCTGCTTTTTTCGACCTACTTCGCCACCAATATGGGAAGTCAAGATCTG
20055890 GTATCTCTGA
Statistics
Matches: 279, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
311 2 0.01
312 267 0.96
313 10 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (313 bp):
TTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTACCTCTGATCTACTTCA
AGCCAGTACATGAAGACAAGATCTGCTTTCTTCGACTTGCTTCACCACCAGTATGGAAAGACAAG
ATCTGGTATCTCTGATCTACTTCAAGCCAATACATGAAGACAAGATCTGTTTTATTCGACTTGCT
TCGCCACCAATATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGAC
AAGATCTGCTTTTTTCGACCTACTTCGCCACCAATATGGGAAGTCAAGATCTG
Found at i:20055648 original size:89 final size:89
Alignment explanation
Indices: 20055570--20056307 Score: 1208
Period size: 89 Copynumber: 8.3 Consensus size: 89
20055560 ATGGGAAGGT
* *
20055570 AAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
1 AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
*
20055635 TACTTCAAGCCAGTACATGAAGAC
66 TACTTCACGCCAGTACATGAAGAC
*
20055659 AAGATCTGTTTTCTTTGACTTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
1 AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
*
20055724 TACTTCAAGCCAGTACATGAAGAC
66 TACTTCACGCCAGTACATGAAGAC
*
20055748 AAGATCTGTTTTCTTTGACTTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
1 AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
*
20055813 TACTTCATGCCAGTACATGAAGAC
66 TACTTCACGCCAGTACATGAAGAC
* * * *
20055837 AAGGTCTGCTTTT-TTTGACCTACTTCGCCACCAATATGGGAAGTCAAGATCTGGTATCTCTGAT
1 AAGATCTG-TTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGAT
* *
20055901 ATACTTCACGCTAGTACATGAAGAC
65 CTACTTCACGCCAGTACATGAAGAC
** *
20055926 AAGATCTACTTTATTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
1 AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
20055991 TACTTCACGCCAGTACATGAAGAC
66 TACTTCACGCCAGTACATGAAGAC
*
20056015 AAGATCTGCTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
1 AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
20056080 TACTTCACGCCAGTACATGAAGAC
66 TACTTCACGCCAGTACATGAAGAC
20056104 AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
1 AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
20056169 TACTTCACGCCAGTACATGAAGAC
66 TACTTCACGCCAGTACATGAAGAC
* * *
20056193 AAGATCTGTTATCTTTCAACCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGAT
1 AAGATCTGTTTTCTTT-GACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGAT
* * *
20056258 GTACTTCACTCTAGTACATGAAGAC
65 CTACTTCACGCCAGTACATGAAGAC
* * *
20056283 AATATCTGTTATCTTTCAACCTGCT
1 AAGATCTGTTTTCTTT-GACCTGCT
20056308 CCACTGCTGC
Statistics
Matches: 616, Mismatches: 30, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
88 3 0.00
89 517 0.84
90 96 0.16
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (89 bp):
AAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATC
TACTTCACGCCAGTACATGAAGAC
Found at i:20055664 original size:178 final size:177
Alignment explanation
Indices: 20054685--20056298 Score: 1168
Period size: 178 Copynumber: 9.0 Consensus size: 177
20054675 AAGACTTGTA
* * * * * *
20054685 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTCTCTTTGATCTACTTCATGCC
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCC
* * * * *
20054750 AATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTCATGCCAATACATGAAGACAAGATTT
66 AGTACATGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT
* * *
20054814 GCTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
130 GCTTTCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGTTT
* * * * * *** * * * * * *
20054862 TCCTCGATCTACTTC-ACGCCAATACATGAAGATAATATCCGCTTTCT-TCGATCTACTTCACGC
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCT-GATCTACTTCAAGC
* * * * * *
20054925 CAATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACATG-AGACAAGATCC
65 CAGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT
* ** *
20054989 GCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTA
130 GCTTTCTTCGATCTACTTC-ACACCAGTACAGGAAGACAAGATCTGTTT
* * *** * * * * *
20055038 TCTTTGATCTACTTCACGA-CAGTACATGAAGATAAGATCCGTTTTTTCCTTCGATCTACTTCGC
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT-C-T-GATCTACTT--C
* *** * *
20055102 CA-CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTACATGAAGATAAG
61 AAGCCAGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
** * ** *
20055166 ATCCGTTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTA
126 AT-C-TGCTTT-CTTCGATCTACTTC-ACACCAGTACAGGAAGACAAGATCTGTTT
* * *** * * * * *
20055222 TCTTTGATCTACTTCACGA-CAGTACATGAAGATAAGATCCGTTTTTTCCTTCGATCTACTTCGC
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT-C-T-GATCTACTT--C
* *** * *
20055286 CA-CCAGTATGGGAAGACAAGATCTGTTACCTTTGATCTACTTCATGCCAGTACATGAAGACAAG
61 AAGCCAGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
** * *
20055350 ATCTGCTTTCTTCGATCTGTTTCACCACCAGTA-TGGAAAGACAAGATCTGTTA
126 ATCTGCTTTCTTCGATCTACTTCA-CACCAGTACAGG-AAGACAAGATCTGTTT
* * * *** * **
20055403 TCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGTTTTAT-TC-GATCTGTTTC--G
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG--GTATCTCTGATCTACTTCAAG
** * *
20055463 CCACCAATATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
64 CCA-GTACAT--GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
* * * ** **
20055528 ATCTGTTTTCTTCGATCTGCTTCGGCACCAGTATGGGAAGGTAAGATCTGTTT
126 ATCTGCTTTCTTCGATCTACTTC-ACACCAGTACAGGAAGACAAGATCTGTTT
* * *
20055581 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCAAGCC
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCC
* * * * *** *
20055646 AGTACATGAAGACAAGATCTGTTTTCTTTGA-CTTGCTTCGCCACCAGTATGGGAAGGCAAGATC
66 AGTACATGAAGACAAGATCTGTTATCTTTGATC-TACTTC-ACGCCAGTACATGAAGACAAGATC
* * *
20055710 TGGTATC-TCTGATCTACTTCA-AGCCAGTACATGAAGACAAGATCTGTTT
129 TGCTTTCTTC-GATCTACTTCACA-CCAGTACAGGAAGACAAGATCTGTTT
* * *
20055759 TCTTTGA-CTTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCATGC
1 TCTTTGATC-TACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGC
* * * * * * *** *
20055823 CAGTACATGAAGACAAGGTCTGCTT-TTTTTGACCTACTTCGCCACCAATATGGGAAGTCAAGAT
65 CAGTACATGAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGAT
* * * * * * **
20055887 CTGGTATC-TCTGATATACTTCACGCTAGTACATGAAGACAAGATCTACTT
128 CTGCTTTCTTC-GATCTACTTCACACCAGTACAGGAAGACAAGATCTGTTT
* * * * *
20055937 TATTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCC
* * * * *** *
20056002 AGTACATGAAGACAAGATCTGCTT-TCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATC
66 AGTACATGAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATC
* * * *
20056066 TGGTATC-TCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
129 TGCTTTCTTC-GATCTACTTCACACCAGTACAGGAAGACAAGATCTGTTT
* * * *
20056115 TCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCC
* * * * *** *
20056180 AGTACATGAAGACAAGATCTGTTATCTTTCAACCTGCTTCACCACCAGTATGGGAAGGCAAGATC
66 AGTACATGAAGACAAGATCTGTTATCTTT-GATCTACTTCA-CGCCAGTACATGAAGACAAGATC
* * * * * * * *
20056245 TGGTATC-TCTGATGTACTTCACTCTAGTACATGAAGACAATATCTGTTA
129 TGCTTTCTTC-GATCTACTTCACACCAGTACAGGAAGACAAGATCTGTTT
20056294 TCTTT
1 TCTTT
20056299 CAACCTGCTC
Statistics
Matches: 1253, Mismatches: 143, Indels: 80
0.85 0.10 0.05
Matches are distributed among these distances:
175 34 0.03
176 146 0.12
177 22 0.02
178 577 0.46
179 157 0.13
180 50 0.04
181 84 0.07
182 6 0.00
183 7 0.01
184 170 0.14
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCC
AGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
CTTTCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGTTT
Found at i:20055753 original size:267 final size:267
Alignment explanation
Indices: 20054911--20056298 Score: 1155
Period size: 267 Copynumber: 5.2 Consensus size: 267
20054901 CGCTTTCTTC
* * * * *
20054911 GATCTACTTCACGCCAATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACA
* * *
20054976 TG-AGACAAGATCCGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
66 TGAAGACAAGATCTGGTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTC
* * *** * * * * * *
20055040 TTTGATCTACTTCACGA-CAGTACATGAAGATAAGATCCGTTTTTTCCTTCGATCTACTTCGCCA
131 TTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT-C-T-GATCTACTT--CAA
*** * * *** **
20055104 -CCAGTATGGGAAGACAAGATCTGTTATCTTTGA-TCTACTTCACGA-CAGTACATGAAGATAAG
191 GCCAGTACATGAAGACAAGATCTGTTATCTTTGACT-TGCTTCACCACCAGTATGGGAAGGCAAG
* * * *
20055166 ATCCGTTTTTTCCTT
255 ATCTGGTATCT-C-T
* * *** *
20055181 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTA
1 -GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTA
* **
20055246 CATGAAGATAAGATCCGTTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
64 CATGAAGACAAGAT-C-TGGTTT-CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
** *** *** * * **
20055311 TTACCTTTGATCTACTTC-ATGCCAGTACATGAAGACAAGATCTGCTTTCT-TCGATCTGTTTCA
126 TTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCT-GATCTACTTCA
* * * ***
20055374 CCA-CCAGT--ATGGAAAGACAAGATCTGTTATCTTTGA-TCTACTTCA-CGCCAATACATGAAG
190 --AGCCAGTACAT-G-AAGACAAGATCTGTTATCTTTGACT-TGCTTCACCACCAGTATGGGAAG
* *
20055434 ACAAGATCTGTTTTAT-TC-
250 GCAAGATCTG--GTATCTCT
** * * * *** *
20055452 GATCTGTTTCGCCACCAATATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
1 GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
* * * **
20055517 ATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGGCACCAGTATGGGAAGGTAAGATCTGTTTT
65 ATGAAGACAAGATCTGGTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTT
* * *
20055582 CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCAAGCCA
130 CTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCCA
* *
20055647 GTACATGAAGACAAGATCTGTTTTCTTTGACTTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG
195 GTACATGAAGACAAGATCTGTTATCTTTGACTTGCTTCACCACCAGTATGGGAAGGCAAGATCTG
20055712 GTATCTCT
260 GTATCTCT
* * * * *
20055720 GATCTACTTCAAGCCAGTACATGAAGACAAGATCTGTTTTCTTTGA-CTTGCTTCGCCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATCTTTGATC-TACTTC-ACGCCAGTA
*** * * *** *** *
20055784 TGGGAAGGCAAGATCTGGTATC-TCTGATCTACTTC-ATGCCAGTACATGAAGACAAGGTCTGCT
64 CATGAAGACAAGATCTGGTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-T
* * * * *
20055847 TTT-TTTGACCTACTTCGCCACCAATATGGGAAGTCAAGATCTGGTATCTCTGATATACTTCACG
127 TTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAG
* * * * *
20055911 CTAGTACATGAAGACAAGATCTACTT-TATTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGA
192 CCAGTACATGAAGACAAGATCT-GTTATCTTTGACTTGCTTCACCACCAGTATGGGAAGGCAAGA
20055975 TCTGGTATCTCT
256 TCTGGTATCTCT
* * * *
20055987 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTTGACCTGCTTCGCCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTA
*** * * * * ***
20056051 TGGGAAGGCAAGATCTGGTATC-TCTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTT
64 CATGAAGACAAGATCTGGTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTT
* * * *
20056114 TTCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGC
128 TTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGC
* *
20056179 CAGTACATGAAGACAAGATCTGTTATCTTTCAACCTGCTTCACCACCAGTATGGGAAGGCAAGAT
193 CAGTACATGAAGACAAGATCTGTTATCTTT-GACTTGCTTCACCACCAGTATGGGAAGGCAAGAT
20056244 CTGGTATCTCT
257 CTGGTATCTCT
* * * *
20056255 GATGTACTTCACTCTAGTACATGAAGACAATATCTGTTATCTTT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATCTTT
20056299 CAACCTGCTC
Statistics
Matches: 957, Mismatches: 127, Indels: 69
0.83 0.11 0.06
Matches are distributed among these distances:
266 11 0.01
267 460 0.48
268 187 0.20
269 4 0.00
270 72 0.08
271 11 0.01
272 47 0.05
273 75 0.08
274 2 0.00
275 6 0.01
276 82 0.09
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (267 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACA
TGAAGACAAGATCTGGTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTC
TTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCCAG
TACATGAAGACAAGATCTGTTATCTTTGACTTGCTTCACCACCAGTATGGGAAGGCAAGATCTGG
TATCTCT
Found at i:20056206 original size:44 final size:44
Alignment explanation
Indices: 20054713--20056296 Score: 961
Period size: 44 Copynumber: 35.5 Consensus size: 44
20054703 ACCAATATGG
* * * * *
20054713 GAAGACAAGATCTGCTCTCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* *
20054757 GAAGACAAGATCTGCTT-TCT-TCGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTG-TTATCTCT-GATCTACTTCACGCCAGTACAT
* * *
20054801 GAAGACAAGATTTGCTT-TCT-TCGATCTACTTCACACCAATACAT
1 GAAGACAAGATCTG-TTATCTCT-GATCTACTTCACGCCAGTACAT
*
20054845 GAAGACAAGATCTGCTT-TC-CTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTG-TTATCTCT-GATCTACTTCACGCCAGTACAT
* * * *
20054889 GAAGATAATATCCGCTT-TCT-TCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTG-TTATCTCT-GATCTACTTCACGCCAGTACAT
* * *
20054933 GAAGACAAGATCCGTTTTCT-TCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGTTATCTCT-GATCTACTTCACGCCAGTACAT
* * * ***
20054977 G-AGACAAGATCCGCTT-TCT-TCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTCT-GATCTACTTC-ACGCCAGTACAT
* *
20055021 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * * ***
20055065 GAAGATAAGATCCGTTTTTTCCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCT-C-T-GATCTACTTC-ACGCCAGTACAT
* *
20055113 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * * ***
20055157 GAAGATAAGATCCGTTTTTTCCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCT-C-T-GATCTACTTC-ACGCCAGTACAT
* *
20055205 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGACAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * * ***
20055249 GAAGATAAGATCCGTTTTTTCCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCT-C-T-GATCTACTTC-ACGCCAGTACAT
* * *
20055297 GAAGACAAGATCTGTTACCTTTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
** *
20055341 GAAGACAAGATCTGCTT-TCT-TCGATCTGTTTCACCACCAGT--AT
1 GAAGACAAGATCTG-TTATCTCT-GATCTACTTCA-CGCCAGTACAT
* *
20055384 GGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
1 -G-AAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
** * * * ***
20055430 GAAGACAAGATCTGTTTTAT-TC-GATCTGTTTCGCCACCAATATGG
1 GAAGACAAGATCTG--TTATCTCTGATCTACTTC-ACGCCAGTACAT
* *
20055475 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * ***
20055519 GAAGACAAGATCTGTTTTCT-TCGATCTGCTTCGGCACCAGTATGG
1 GAAGACAAGATCTGTTATCTCT-GATCTACTTC-ACGCCAGTACAT
** * * * * ***
20055564 GAAGGTAAGATCTGTTTTCT-TCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCTCT-GATCTACTTC-ACGCCAGTACAT
* * *
20055609 GAAGGCAAGATCTGGTATCTCTGATCTACTTCAAGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * ***
20055653 GAAGACAAGATCTGTTTTCTTTGA-CTTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCTCTGATC-TACTTC-ACGCCAGTACAT
* * *
20055698 GAAGGCAAGATCTGGTATCTCTGATCTACTTCAAGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * ***
20055742 GAAGACAAGATCTGTTTTCTTTGA-CTTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCTCTGATC-TACTTC-ACGCCAGTACAT
* * *
20055787 GAAGGCAAGATCTGGTATCTCTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * * * ***
20055831 GAAGACAAGGTCTGCTT-TTTTTGACCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTG-TTATCTCTGATCTACTTC-ACGCCAGTACAT
* * * *
20055876 GAAGTCAAGATCTGGTATCTCTGATATACTTCACGCTAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * ***
20055920 GAAGACAAGATCTACTTTAT-T-TGACCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCT--GTTATCTCTGATCTACTTC-ACGCCAGTACAT
* *
20055965 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * ***
20056009 GAAGACAAGATCTGCTT-TCTTTGACCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTCTGATCTACTTC-ACGCCAGTACAT
* *
20056054 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * * ***
20056098 GAAGACAAGATCTGTTTTCTTTGACCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCTCTGATCTACTTC-ACGCCAGTACAT
* *
20056143 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * ***
20056187 GAAGACAAGATCTGTTATCTTTCAACCTGCTTCACCACCAGTATGG
1 GAAGACAAGATCTGTTATCTCT-GATCTACTTCA-CGCCAGTACAT
* * * * *
20056233 GAAGGCAAGATCTGGTATCTCTGATGTACTTCACTCTAGTACAT
1 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
*
20056277 GAAGACAATATCTGTTATCT
1 GAAGACAAGATCTGTTATCT
20056297 TTCAACCTGC
Statistics
Matches: 1182, Mismatches: 299, Indels: 118
0.74 0.19 0.07
Matches are distributed among these distances:
43 43 0.04
44 606 0.51
45 392 0.33
46 46 0.04
47 30 0.03
48 65 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACAT
Found at i:20074157 original size:25 final size:25
Alignment explanation
Indices: 20074129--20074194 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
20074119 GATTAAACAA
20074129 TAAAGCTTAGTAAGTTAAGTTTTCG
1 TAAAGCTTAGTAAGTTAAGTTTTCG
20074154 TAAAGCTTAGTAAGTTAAGTTTTCG
1 TAAAGCTTAGTAAGTTAAGTTTTCG
20074179 TAAAGCTTAGTAAGTT
1 TAAAGCTTAGTAAGTT
20074195 CGTCGTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
TAAAGCTTAGTAAGTTAAGTTTTCG
Found at i:20080025 original size:18 final size:18
Alignment explanation
Indices: 20079979--20080026 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
20079969 TATAAGAATA
*
20079979 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
20079995 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
20080012 TTAATTATAATATAT
1 TTAATTATAATATAT
20080027 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:20080026 original size:16 final size:16
Alignment explanation
Indices: 20079979--20080046 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
20079969 TATAAGAATA
20079979 TTAATTATTAATA-ATT
1 TTAATTA-TAATATATT
*
20079995 TT-ATTAAATTATATATT
1 TTAATT--ATAATATATT
20080012 TTAATTATAATATA-T
1 TTAATTATAATATATT
*
20080027 TTAATAATAAT-TATGT
1 TTAATTATAATATAT-T
20080043 TTAA
1 TTAA
20080047 ATATGATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.05
15 14 0.33
16 18 0.42
17 6 0.14
18 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:20080031 original size:15 final size:15
Alignment explanation
Indices: 20079996--20080037 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20079986 TTAATAATTT
*
20079996 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20080010 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20080024 TATTTAATAATAAT
1 TATTTAATTATAAT
20080038 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20080215 original size:39 final size:40
Alignment explanation
Indices: 20080172--20080278 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 40
20080162 TTTTCCATTA
*
20080172 TGCTATTACACCTCTATTCCATTCAACCAAACACA-AGA-T
1 TGCTATTACGCCTCTATTCCATTCAACCAAACA-ATAGATT
*
20080211 TGCTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGATT
1 TGCTATTACGCCTCTATT-C----CATTCAACCAAACAATAGATT
20080256 TGCTATTACGCCTCTATTCCATT
1 TGCTATTACGCCTCTATTCCATT
20080279 ACACTTCTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
39 17 0.29
40 5 0.08
43 1 0.02
44 17 0.29
45 19 0.32
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.35
Consensus pattern (40 bp):
TGCTATTACGCCTCTATTCCATTCAACCAAACAATAGATT
Found at i:20080268 original size:45 final size:44
Alignment explanation
Indices: 20080191--20080281 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 44
20080181 ACCTCTATTC
20080191 CATTCAACCAAACACAAGATTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTGCTATTACGCCTCTATTCCATTA
*
20080235 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTGCTATTACGCCTCTATTCCATTA
20080280 CA
1 CA
20080282 CTTCTATTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.36
45 27 0.61
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTGCTATTACGCCTCTATTCCATTA
Found at i:20080287 original size:16 final size:16
Alignment explanation
Indices: 20080260--20080329 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
20080250 TTGATTTGCT
*
20080260 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
20080276 ATTACACTTCTATTCC
1 ATTACACCTCTATTCC
* *
20080292 ATTACGCCTCTATTCT
1 ATTACACCTCTATTCC
*
20080308 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
20080324 AATACA
1 ATTACA
20080330 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:20080301 original size:32 final size:32
Alignment explanation
Indices: 20080260--20080324 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
20080250 TTGATTTGCT
*
20080260 ATTACGCCTCTATTCCATTACACTTCTATTCC
1 ATTACGCCTCTATTCCATTACACCTCTATTCC
* *
20080292 ATTACGCCTCTATTCTATTACGCCTCTATTCC
1 ATTACGCCTCTATTCCATTACACCTCTATTCC
20080324 A
1 A
20080325 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.40
Consensus pattern (32 bp):
ATTACGCCTCTATTCCATTACACCTCTATTCC
Found at i:20085701 original size:3 final size:3
Alignment explanation
Indices: 20085687--20085753 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
20085677 AGGTATTTTC
*
20085687 TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
20085735 TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT T
20085754 TTTTCCTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:20092826 original size:3 final size:3
Alignment explanation
Indices: 20092818--20092863 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
20092808 ATGTTACTTA
20092818 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20092864 GTTTCCTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20096260 original size:21 final size:21
Alignment explanation
Indices: 20096234--20096277 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
20096224 CTTCACTTTT
*
20096234 AAAAAATAAAATAAAAAGAAA
1 AAAAAAGAAAATAAAAAGAAA
* *
20096255 AAAAAAGAAAATGAAAGGAAA
1 AAAAAAGAAAATAAAAAGAAA
20096276 AA
1 AA
20096278 GGAGAGGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (21 bp):
AAAAAAGAAAATAAAAAGAAA
Found at i:20097272 original size:88 final size:89
Alignment explanation
Indices: 20097150--20097363 Score: 218
Period size: 88 Copynumber: 2.4 Consensus size: 89
20097140 CATGGCCAAT
* * ** * *
20097150 CTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAGTCGTATCTCCCTAAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACTACTCGTATCTCCCCAAAGTTACAG
* * *
20097215 TGGAGCA-AGTTGAAG-TTGC-AAGC
66 TAGAGCAGA-CTGAAGATAGCGAA-C
* ** * **
20097238 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTACTCTTATCTCCCCAAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACTACTCGTATCTCCCCAAAGTTACAG
*
20097303 TAGAGCAGACTGAAGATAGCGAAT
66 TAGAGCAGACTGAAGATAGCGAAC
* * *
20097327 CTTATTTCCCTGAAGTTGCAGTGGAACGGATTAAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGC
20097364 TAAATAACAA
Statistics
Matches: 102, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 64 0.63
89 36 0.35
90 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACTACTCGTATCTCCCCAAAGTTACAG
TAGAGCAGACTGAAGATAGCGAAC
Found at i:20097299 original size:44 final size:44
Alignment explanation
Indices: 20097196--20097530 Score: 182
Period size: 44 Copynumber: 7.5 Consensus size: 44
20097186 CCACTAGTCG
* * * *
20097196 TATCTCCCTAAAGTTACAGTGGAGCAAGTTGAAGTTGCAAGC-CT
1 TATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACAA-CTCT
* *
20097240 TATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTACTCT
1 TATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACAACTCT
* * * * ** *
20097284 TATCTCCCCAAAGTTGTAGTAGAGCAGACTGAAGATAGCGAA-TCT
1 TATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTA-C-AACTCT
* * * *
20097329 TATTTCCCTGAAGTTGCAGTGGAAC-GGATTAAAGCTAAATAACAAATCT
1 TATCTCCCTAAAGTTGCAGTGGAACAGG-TTGAAG-T---T-ACAACTCT
** * * * * * * *
20097378 TATCTATCTGAAGTTGCAGTAGAGCA-GATCATAG-CA-AAC-CC
1 TATCTCCCTAAAGTTGCAGTGGAACAGGTTGA-AGTTACAACTCT
* * * * **
20097419 TATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGTTGTAAGC-CT
1 TATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACAA-CTCT
* * * *
20097463 TATCTCCTTAAAGTTGCAGTGGAGCCGGTTGAAGTTACAAGTCT
1 TATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACAACTCT
*
20097507 TATTTCCCTAAAGTTGCAGTGGAA
1 TATCTCCCTAAAGTTGCAGTGGAA
20097531 GAGACTGAAG
Statistics
Matches: 220, Mismatches: 54, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
41 24 0.11
42 5 0.02
43 4 0.02
44 126 0.57
45 27 0.12
46 1 0.00
48 4 0.02
49 28 0.13
50 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACAACTCT
Found at i:20097538 original size:223 final size:224
Alignment explanation
Indices: 20097196--20097714 Score: 659
Period size: 223 Copynumber: 2.3 Consensus size: 224
20097186 CCACTAGTCG
* * *
20097196 TATCTCCCTAAAGTTACAGTGGAGCAAGTTGAAGTTGCAAGCCTTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTGCAAGCCTTATCTCCTTGAAGTTGCAGTG
* * *
20097261 GAACAGGTTGAAGTTACTACTCTTATCTCCCCAAAGTTGTAGTAGAGCAGACTGAAGATAGCGAA
66 GAGCAGGTTGAAGTTACAACTCTTATCTCCCCAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA
* * * **
20097326 TCTTATTTCCCTGAAGTTGCAGTGGAACGGATTAAAGC-TAAATAACAAATCTTATCTATCTGAA
131 TCTTATTTCCCTAAAATTGCAGTGAAACAAATTAAAGCATAAATAACAAATCTTATCTATCTGAA
20097390 GTTGCAGTAGAGCAGATCATAGCAAACCC
196 GTTGCAGTAGAGCAGATCATAGCAAACCC
* * *
20097419 TATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGTTGTAAGCCTTATCTCCTTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTGCAAGCCTTATCTCCTTGAAGTTGCAGTG
* * * * * *
20097484 GAGCCGGTTGAAGTTACAAGTCTTATTTCCCTAAAGTTGCAGTGGAAG-AGACTGAAGATAGTGA
66 GAGCAGGTTGAAGTTACAACTCTTATCTCCCCAAAGTTGCAGTAG-AGCAGACTGAAGATAGCGA
* ** * *
20097548 ATCTTATTTCCCTAAAATTGCAGTGAAACAAATTGAAGCTATAAATTGCAGATCTTATCTCTCTG
130 ATCTTATTTCCCTAAAATTGCAGTGAAACAAATTAAAGC-ATAAATAACAAATCTTATCTATCTG
* * * *
20097613 AATTTGTAGTAGAGCAGATCATATCAAACCT
194 AAGTTGCAGTAGAGCAGATCATAGCAAACCC
* ** * * *
20097644 TATCTCCCTGAATTTGTAGTGGAGC-GAGTTGAAGTTACAAGTCTTAT-TTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTACAGTGGAGCAG-GTTGAAGTTGCAAGCCTTATCTCCT-TGAAGTTGCAG
20097707 TGGAGCAG
64 TGGAGCAG
20097715 ACTAAAGATA
Statistics
Matches: 252, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
223 144 0.57
224 6 0.02
225 102 0.40
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (224 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTGCAAGCCTTATCTCCTTGAAGTTGCAGTG
GAGCAGGTTGAAGTTACAACTCTTATCTCCCCAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA
TCTTATTTCCCTAAAATTGCAGTGAAACAAATTAAAGCATAAATAACAAATCTTATCTATCTGAA
GTTGCAGTAGAGCAGATCATAGCAAACCC
Found at i:20097540 original size:44 final size:44
Alignment explanation
Indices: 20097461--20097903 Score: 120
Period size: 45 Copynumber: 9.8 Consensus size: 44
20097451 AGTTGTAAGC
* * * ** *
20097461 CTTATCTCCTTAAAGTTGCAGTGGAGCCGGTTGAAGTTA-CAAGT
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAA-T
*
20097505 CTTATTTCCCTAAAGTTGCAGTGGAAG-AGACTGAAGATAGTGAAT
1 CTTATTTCCCTAAAGTTGCAGTGG-AGCAGACTGAAGATAG-CAAT
* * * * *
20097550 CTTATTTCCCTAAAATTGCAGTGAAACAAATTGAAGCTATAAATTGCAGAT
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG--AT--A--GCA-AT
* * * * * * * * *
20097601 CTTATCTCTCTGAATTTGTAGTAGAGCAGA-T---CATATCAAAC
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAT
* * * * * *
20097642 CTTATCTCCCTGAATTTGTAGTGGAGC-GAGTTGAAGTTA-CAAGT
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGA-CTGAAGATAGCAA-T
* * *
20097686 CTTATTTCTCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAAT
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAT
* * * * * * *
20097731 CTTATTCCCCTGAAGTTGCAGTGAAACAAATTGAAGCTATAAATTACAGAT
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG--AT--A--GCA-AT
* * * ** *
20097782 CTTATCTCTCTGAAGTTGCAGT--AG-AG--TGGATCATATCAAAT
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATAGC-AAT
* *
20097823 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAT
* * * * * *
20097868 CTTATTTCCTTGAAGTTGTAATGGAACAGATTGAAG
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
20097904 CTATAAATTG
Statistics
Matches: 300, Mismatches: 64, Indels: 69
0.69 0.15 0.16
Matches are distributed among these distances:
40 2 0.01
41 51 0.17
42 3 0.01
43 6 0.02
44 63 0.21
45 110 0.37
46 6 0.02
47 6 0.02
48 1 0.00
49 3 0.01
50 3 0.01
51 46 0.15
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (44 bp):
CTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAT
Found at i:20097584 original size:89 final size:88
Alignment explanation
Indices: 20097491--20097766 Score: 227
Period size: 89 Copynumber: 3.1 Consensus size: 88
20097481 GTGGAGCCGG
* *
20097491 TTGAAGTTACAAGTCTTATTTCCCTAAAGTTGCAGTGGAAGAGACTGAAGATAGTGAATCTTATT
1 TTGAAGTTACAAGTCTTATTTCTCTGAAGTTGCAGTGG-AGAGACTGAAGATAGTGAATCTTATT
*
20097556 TCCCTAAAATTGCAGTGAAACAAA
65 TCCCTGAAATTGCAGTGAAACAAA
* * * * * ** *
20097580 TTGAAGCTATAAATTGCAGATCTTATCTCTCTGAATTTGTAGT--AGAG-CAGATCATA-TCAAA
1 TTGAAG-T-TACA----AG-TCTTATTTCTCTGAAGTTGCAGTGGAGAGACTGAAGATAGT-GAA
* * * * * * * *
20097641 CCTTATCTCCCTGAATTTGTAGTGGAGCGAG
58 TCTTATTTCCCTGAAATTGCAGTGAAACAAA
* *
20097672 TTGAAGTTACAAGTCTTATTTCTCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATT
1 TTGAAGTTACAAGTCTTATTTCTCTGAAGTTGCAGTGGAG-AGACTGAAGATAGTGAATCTTATT
* *
20097737 CCCCTGAAGTTGCAGTGAAACAAA
65 TCCCTGAAATTGCAGTGAAACAAA
20097761 TTGAAG
1 TTGAAG
20097767 CTATAAATTA
Statistics
Matches: 136, Mismatches: 38, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
85 20 0.15
86 2 0.01
87 2 0.01
88 2 0.01
89 41 0.30
90 4 0.03
91 5 0.04
92 36 0.26
93 4 0.03
95 2 0.01
96 18 0.13
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (88 bp):
TTGAAGTTACAAGTCTTATTTCTCTGAAGTTGCAGTGGAGAGACTGAAGATAGTGAATCTTATTT
CCCTGAAATTGCAGTGAAACAAA
Found at i:20097678 original size:181 final size:180
Alignment explanation
Indices: 20097460--20097849 Score: 593
Period size: 181 Copynumber: 2.2 Consensus size: 180
20097450 AAGTTGTAAG
* *
20097460 CCTTATCTCCTTAAAGTTGCAGTGGAGCCGGTTGAAGTTACAAGTCTTATTTCCCTAAAGTTGCA
1 CCTTATCTCCCTGAAGTTGCAGTGGAG-CGGTTGAAGTTACAAGTCTTATTTCCCTAAAGTTGCA
* * *
20097525 GTGGAAG-AGACTGAAGATAGTGAATCTTATTTCCCTAAAATTGCAGTGAAACAAATTGAAGCTA
65 GTGG-AGCAGACTAAAGATAGCGAATCTTATTCCCCTAAAATTGCAGTGAAACAAATTGAAGCTA
* * *
20097589 TAAATTGCAGATCTTATCTCTCTGAATTTGTAGTAGAGCAGATCATATCAAA
129 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
* * * *
20097641 CCTTATCTCCCTGAATTTGTAGTGGAGCGAGTTGAAGTTACAAGTCTTATTTCTCTGAAGTTGCA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCG-GTTGAAGTTACAAGTCTTATTTCCCTAAAGTTGCA
* *
20097706 GTGGAGCAGACTAAAGATAGCGAATCTTATTCCCCTGAAGTTGCAGTGAAACAAATTGAAGCTAT
65 GTGGAGCAGACTAAAGATAGCGAATCTTATTCCCCTAAAATTGCAGTGAAACAAATTGAAGCTAT
**
20097771 AAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCATATCAAA
130 AAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
*
20097822 TCTTATCTCCCTGAAGTTGCAGTGGAGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGC
20097850 AGACTGAAGA
Statistics
Matches: 188, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
180 4 0.02
181 184 0.98
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (180 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCGGTTGAAGTTACAAGTCTTATTTCCCTAAAGTTGCAG
TGGAGCAGACTAAAGATAGCGAATCTTATTCCCCTAAAATTGCAGTGAAACAAATTGAAGCTATA
AATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
Found at i:20097882 original size:45 final size:44
Alignment explanation
Indices: 20097820--20098035 Score: 118
Period size: 45 Copynumber: 4.8 Consensus size: 44
20097810 GATCATATCA
* *
20097820 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * * *
20097864 GAATCTTATTTCCTTGAAGTTGTAATGGAACAGATTGAAGCTATAAATTGC
1 -AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GC
* * ** * *
20097915 AGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-T---CATATC
1 A-ATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * * * * *
20097956 AAACCTTATCTCCCTGAAGTTGTAATGGAGCA-AGTTGAATATACC
1 -AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATAGC
* * *
20098001 AATCTTATCTCCCTGAAGTTACAGTGGAACAGATT
1 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATT
20098036 AAAGCTACTA
Statistics
Matches: 128, Mismatches: 29, Indels: 29
0.69 0.16 0.16
Matches are distributed among these distances:
40 1 0.01
41 25 0.20
42 2 0.02
43 1 0.01
44 28 0.22
45 40 0.31
47 2 0.02
49 1 0.01
50 2 0.02
51 26 0.20
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
Found at i:20097931 original size:137 final size:137
Alignment explanation
Indices: 20097685--20098042 Score: 495
Period size: 137 Copynumber: 2.6 Consensus size: 137
20097675 AAGTTACAAG
* * * *
20097685 TCTTATTTCTCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTCCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
* * * **
20097750 AGTGAAACAAATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCA
66 AGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCA
20097815 TATCAAA
131 TATCAAA
* *
20097822 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
* *
20097887 AATGGAACAGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCA
66 AGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCA
20097952 TATCAAA
131 TATCAAA
* * * * * * * *
20097959 CCTTATCTCCCTGAAGTTGTAATGGAGCA-AGTTGAATATA-CCAATCTTATCTCCCTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGCGAATCTTATTTCCCTGAAGTTG
*
20098022 CAGTGGAACAGATTAAAGCTA
65 CAGTGGAACAGATTGAAGCTA
20098043 CTAATTCTAT
Statistics
Matches: 195, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
136 38 0.19
137 157 0.81
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (137 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
AGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCA
TATCAAA
Found at i:20098744 original size:9 final size:9
Alignment explanation
Indices: 20098732--20098778 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
20098722 TTTTTTCATT
20098732 TTCTGTTTA
1 TTCTGTTTA
*
20098741 TTCTTTTTA
1 TTCTGTTTA
20098750 TT-TCG-TT-
1 TTCT-GTTTA
20098757 TTCTGTTTA
1 TTCTGTTTA
20098766 TTCTGTTTA
1 TTCTGTTTA
20098775 TTCT
1 TTCT
20098779 TTTTTTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
7 3 0.09
8 6 0.19
9 23 0.72
ACGTcount: A:0.09, C:0.13, G:0.09, T:0.70
Consensus pattern (9 bp):
TTCTGTTTA
Found at i:20098748 original size:15 final size:15
Alignment explanation
Indices: 20098710--20098748 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
20098700 TTGCTCTCTT
*
20098710 TTCTTTTCTCTGTTTT
1 TTCTTTT-TCTGTTTA
*
20098726 TTCATTTTCTGTTTA
1 TTCTTTTTCTGTTTA
20098741 TTCTTTTT
1 TTCTTTTT
20098749 ATTTCGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.74
Consensus pattern (15 bp):
TTCTTTTTCTGTTTA
Found at i:20098783 original size:25 final size:25
Alignment explanation
Indices: 20098718--20098776 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
20098708 TTTTCTTTTC
*
20098718 TCTGTTT-TTTCATTTTCTGTTTAT
1 TCTGTTTATTTCGTTTTCTGTTTAT
*
20098742 TCTTTTTATTTCGTTTTCTGTTTAT
1 TCTGTTTATTTCGTTTTCTGTTTAT
20098767 TCTGTTTATT
1 TCTGTTTATT
20098777 CTTTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (25 bp):
TCTGTTTATTTCGTTTTCTGTTTAT
Found at i:20099790 original size:3 final size:3
Alignment explanation
Indices: 20099782--20099824 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
20099772 ATGTTACTTA
20099782 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20099825 GTTCCCTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20108182 original size:10 final size:10
Alignment explanation
Indices: 20108167--20108192 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
20108157 CTTGCCAAAG
20108167 TCTTTCCCTT
1 TCTTTCCCTT
20108177 TCTTTCCCTT
1 TCTTTCCCTT
20108187 TCTTTC
1 TCTTTC
20108193 TTTTAAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TCTTTCCCTT
Found at i:20111928 original size:3 final size:3
Alignment explanation
Indices: 20111920--20111952 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
20111910 TGCTTCCCAA
20111920 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
20111953 GAGATTTTAT
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:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:20113962 original size:26 final size:26
Alignment explanation
Indices: 20113932--20113984 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20113922 CACAAAGATT
20113932 AGTTAAGTGTATAATCTTCCAAAGTC
1 AGTTAAGTGTATAATCTTCCAAAGTC
20113958 AGTTAAGTGTATAATCTTCCAAAGTC
1 AGTTAAGTGTATAATCTTCCAAAGTC
20113984 A
1 A
20113985 TACTATCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (26 bp):
AGTTAAGTGTATAATCTTCCAAAGTC
Found at i:20120327 original size:3 final size:3
Alignment explanation
Indices: 20120313--20120355 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
20120303 ACCAATCCCC
*
20120313 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20120356 TAGTTCTCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:20124131 original size:6 final size:7
Alignment explanation
Indices: 20124105--20124129 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20124095 TACTTTTTGC
20124105 TTTTTCA
1 TTTTTCA
20124112 TTTTTCA
1 TTTTTCA
20124119 TTTTTCA
1 TTTTTCA
20124126 TTTT
1 TTTT
20124130 CAAAGGCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Done.