Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 79 of 230
Found at i:21763344 original size:110 final size:110
Alignment explanation
Indices: 21763147--21763350 Score: 268
Period size: 110 Copynumber: 1.9 Consensus size: 110
21763137 TTCAACCTCA
* * * * * * *
21763147 AAACTCTAAATTATAACTTCAGTTCCTTATTAAAGGTTAAAATTTTCAGATTAGTTGAGTTTTTA
1 AAACTCTAAATTATAACTTCAGTTCCTTATTAAAGGATAAAACTTTAAGATTAATTCACTCTTTA
*
21763212 AGTATCAATTCAACCTTAAAGCTC-AAAATTCTAACTTTTTTTTG
66 AGTATCAATTCAAACTTAAAGCTCTAAAATTCTAACTTTTTTTTG
* * *
21763256 AAACTTCTAAATTCTAGCTTCAGTTCTTTATTAAAGGATAAAACTTTAAG-TGTAATTCACTCTT
1 AAAC-TCTAAATTATAACTTCAGTTCCTTATTAAAGGATAAAACTTTAAGAT-TAATTCACTCTT
*
21763320 TAAGTTTCAATTCAAACTTAAAGCTCTAAAA
64 TAAGTATCAATTCAAACTTAAAGCTCTAAAA
21763351 CACAAGTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
109 5 0.06
110 71 0.89
111 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (110 bp):
AAACTCTAAATTATAACTTCAGTTCCTTATTAAAGGATAAAACTTTAAGATTAATTCACTCTTTA
AGTATCAATTCAAACTTAAAGCTCTAAAATTCTAACTTTTTTTTG
Found at i:21764181 original size:17 final size:18
Alignment explanation
Indices: 21764159--21764193 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21764149 AAATGGTTTG
*
21764159 GTTATAA-ATTTTTTAAT
1 GTTATAATATTTATTAAT
21764176 GTTATAATATTTATTAAT
1 GTTATAATATTTATTAAT
21764194 TTTTAGGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
GTTATAATATTTATTAAT
Found at i:21764526 original size:126 final size:126
Alignment explanation
Indices: 21764291--21764675 Score: 337
Period size: 126 Copynumber: 3.0 Consensus size: 126
21764281 AGTCAACATT
* * * * * *
21764291 GTGTTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATTCATATCTCAGCCCTTATACA
1 GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
* * *
21764356 AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTGTCCCAACACTTAGGAAAGTGTCGGCTTA
66 AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTATCCAAACACTTAAGAAAGTGTCGGCTTA
* * *
21764417 GTGTTGGAAAAAGTCGAATCTTATTTGAGTGTTGCCTTAGGCGTGCATTTCACAACACTTATACA
1 GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
* * *
21764482 AAGAGTTGG-CTAAAGTGTATGTC-AGGAAGTCTATCCAAATACTTAAGAAAGTTTCAGGCCAAA
66 AAGAGTTGGCCT-AAGTGTATGTCGA-CAAGTCTATCCAAACACTTAAGAAAGTGTC-GG-C---
21764545 AGTGTCAACATA
124 ----T-----TA
* * * * * *
21764557 GTATTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTACGCATGCATATCCCAACCCTTATACA
1 GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
* * * * * * *
21764622 AAGACTT-GCCAAAATGTATGTCTG-CAAATCTAGCCCAACACTTAGGAAAGTGTC
66 AAGAGTTGGCCTAAGTGTATGTC-GACAAGTCTATCCAAACACTTAAGAAAGTGTC
21764676 AGCCCAAAAG
Statistics
Matches: 206, Mismatches: 34, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
125 3 0.01
126 100 0.49
127 2 0.01
128 1 0.00
135 1 0.00
139 34 0.17
140 65 0.32
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (126 bp):
GTGTTGGAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCACAACACTTATACA
AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTATCCAAACACTTAAGAAAGTGTCGGCTTA
Found at i:21764714 original size:139 final size:139
Alignment explanation
Indices: 21764418--21764823 Score: 507
Period size: 139 Copynumber: 2.9 Consensus size: 139
21764408 GTCGGCTTAG
* * * * *
21764418 TGTTGGAAAAAGTCGAATCTTATTTGAGTGTTGCCTTAGGCGTGCATTTCACAACACTTATACAA
1 TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATC-CAACCCTTATACAA
* * * * * * * * *
21764483 AGAGTTGGCTAAAGTGTATGTCAGGAAGTCTATCCAAATACTTAAGAAAGTTTCAGGCCAAAAGT
65 AGACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGT
*
21764548 GTCAACATAG
130 GTCAACATAA
* * *
21764558 TATTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTACGCATGCATATCCCAACCCTTATACAA
1 TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT-CCAACCCTTATACAA
* * *
21764623 AGACTT-GCCAAAATGTATGTCTGCAAATCTAGCCCAACACTTAGGAAAGTGTCAGCCCAAAAGT
65 AGACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGT
21764687 GTCAACATAA
130 GTCAACATAA
* *
21764697 TGTTGGATAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT----CCCTTATACAAA
1 TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCAACCCTTATACAAA
* * * * *
21764758 GACTTGGCCAAAGCGTATGTCTGTAAGTCTATCCCAACACTTAGGAAACTGTCGGCTCAAAAGTG
66 GACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTG
21764823 T
131 T
21764824 TGTCTTAGGA
Statistics
Matches: 231, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
134 17 0.07
135 52 0.23
139 101 0.44
140 60 0.26
141 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (139 bp):
TGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCAACCCTTATACAAA
GACTTGGCCAAAGTGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTG
TCAACATAA
Found at i:21768440 original size:35 final size:35
Alignment explanation
Indices: 21768384--21768535 Score: 169
Period size: 35 Copynumber: 4.3 Consensus size: 35
21768374 ACTCCCTGTT
* * * * *
21768384 TTGGTGTGTTTCGGTTCGATTATCTCTTCTAAGCA
1 TTGGTGTGTTTTGGATGGATTAGCTCTTTTAAGCA
* **
21768419 TTGGTGTGTTTTGGATGGATTATCTCTTTTGTGCA
1 TTGGTGTGTTTTGGATGGATTAGCTCTTTTAAGCA
* *
21768454 TTGATGTGTTTAGGATGGATTAGCTCTTTTAAGCA
1 TTGGTGTGTTTTGGATGGATTAGCTCTTTTAAGCA
* * *
21768489 TTGGTGTGTTTTAGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGGATGGATTAGCTCTTTTAAGCA
*
21768524 TCTAGTGTGTTT
1 T-TGGTGTGTTT
21768536 GGTTGGAATA
Statistics
Matches: 99, Mismatches: 17, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
35 90 0.91
36 9 0.09
ACGTcount: A:0.16, C:0.11, G:0.26, T:0.47
Consensus pattern (35 bp):
TTGGTGTGTTTTGGATGGATTAGCTCTTTTAAGCA
Found at i:21770723 original size:138 final size:139
Alignment explanation
Indices: 21770532--21770844 Score: 438
Period size: 138 Copynumber: 2.3 Consensus size: 139
21770522 AAAATATTTT
* * * *
21770532 TATTCTTTCCAAAAGAATATTAACTTCCACGTCTTTT-ATATTTTGACCGAAATTAATTAATATA
1 TATTCTTTCCAAAAGAATATTAATTTCCATGT-TTTTAATATTTTGACCAAAATTAACTAATATA
* *
21770596 ACTATTTATTTTAATAAA-TTCG-ACAAAATATATACA-ATTAATATTTTGTATGAATCAAATTC
65 ACTATTTATATTAATAAATTTCGTA-AAAATATATA-ATATTAATATTTTGTATAAATCAAATTC
* *
21770658 ATATGTTAGTTA
128 ATATATTAATTA
* *
21770670 TATTTTTTCCAAAAGAATATTAATTTCCTTGTTTTTAATATTTTGACCAAAATTAACTAATATAA
1 TATTCTTTCCAAAAGAATATTAATTTCCATGTTTTTAATATTTTGACCAAAATTAACTAATATAA
* * *
21770735 TTGTTTATATTAATAAATTTGGTAAAAATATATAATATTAATATTTTGTATAAATCAAATTCATA
66 CTATTTATATTAATAAATTTCGTAAAAATATATAATATTAATATTTTGTATAAATCAAATTCATA
21770800 TATTAATTA
131 TATTAATTA
*
21770809 TATTCTTTCCAAAA-AATATTAATTTCCATGTCTTTA
1 TATTCTTTCCAAAAGAATATTAATTTCCATGTTTTTA
21770845 TTTGTGTACA
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
137 4 0.03
138 89 0.57
139 61 0.39
140 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (139 bp):
TATTCTTTCCAAAAGAATATTAATTTCCATGTTTTTAATATTTTGACCAAAATTAACTAATATAA
CTATTTATATTAATAAATTTCGTAAAAATATATAATATTAATATTTTGTATAAATCAAATTCATA
TATTAATTA
Found at i:21804772 original size:28 final size:28
Alignment explanation
Indices: 21804696--21804770 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
21804686 CTGAGTGGGC
*
21804696 CACACGGGCGTGTGGGCCCATACGGGCA
1 CACACGGGCGTGTGGGCCCATACAGGCA
*
21804724 CACACGGGCATGTGGGCCCATACAGGCA
1 CACACGGGCGTGTGGGCCCATACAGGCA
*
21804752 CACACGGGTGTGTAGGGCC
1 CACACGGGCGTGT-GGGCC
21804771 ATTTTTACTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 37 0.88
29 5 0.12
ACGTcount: A:0.20, C:0.31, G:0.37, T:0.12
Consensus pattern (28 bp):
CACACGGGCGTGTGGGCCCATACAGGCA
Found at i:21815993 original size:18 final size:16
Alignment explanation
Indices: 21815962--21815998 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
21815952 CCCTTGCTGA
21815962 TCATTCCACTCATCCC
1 TCATTCCACTCATCCC
21815978 TCATTCACATCTCATCCC
1 TCATTC-CA-CTCATCCC
21815996 TCA
1 TCA
21815999 CACTCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 11 0.58
ACGTcount: A:0.22, C:0.46, G:0.00, T:0.32
Consensus pattern (16 bp):
TCATTCCACTCATCCC
Found at i:21817529 original size:148 final size:148
Alignment explanation
Indices: 21817261--21817556 Score: 529
Period size: 148 Copynumber: 2.0 Consensus size: 148
21817251 CATGGACCGG
*
21817261 CTAGGGGTAATAATGGTATGGGCCGAGGACAGAGAGCACCGGGCAGAGGTGCTAATCAGACTGAG
1 CTAGGGGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGCAGAGGTGCTAATCAGACTGAG
*
21817326 GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGTCACCCCTGACGTAAT
66 GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGACACCCCTGACGTAAT
21817391 CATGAGTACGTTCTTTAT
131 CATGAGTACGTTCTTTAT
*
21817409 CTAGGGGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGTAGAGGTGCTAATCAGACTGAG
1 CTAGGGGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGCAGAGGTGCTAATCAGACTGAG
* * *
21817474 GCGAGGCAAGCTGTACTGGTTTATGCTGCTCAACGCCGAGAGGACAGAGACACCCCTGACGTAAT
66 GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGACACCCCTGACGTAAT
*
21817539 CATGGGTACGTTCTTTAT
131 CATGAGTACGTTCTTTAT
21817557 TTTTTATTTT
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 141 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (148 bp):
CTAGGGGTAATAATGGTATGGGCCGAGGACAGAGAGCACCAGGCAGAGGTGCTAATCAGACTGAG
GCGAGGCAACCTGCACTAGTTTATGCTGCTCAACGCCGAGAGGACAGAGACACCCCTGACGTAAT
CATGAGTACGTTCTTTAT
Found at i:21829940 original size:28 final size:29
Alignment explanation
Indices: 21829877--21829941 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
21829867 ACTACATTGA
*
21829877 TAGTCACCTAATTATTAGTAAATTTTTTTT
1 TAGTCACCTAATTATTAGT-AATTTTGTTT
*
21829907 TGGTCATCC-AATTATTAGT-ATTTTGTTT
1 TAGTCA-CCTAATTATTAGTAATTTTGTTT
21829935 TAGTCAC
1 TAGTCAC
21829942 TCAACTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.03
28 13 0.42
30 15 0.48
31 2 0.06
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.51
Consensus pattern (29 bp):
TAGTCACCTAATTATTAGTAATTTTGTTT
Found at i:21830027 original size:31 final size:32
Alignment explanation
Indices: 21829970--21830036 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 32
21829960 AAAATAGTCT
*
21829970 CCCAACTATTCAACTTTTCTCTTTTTTGGTCA
1 CCCAACTATTCAAATTTTCTCTTTTTTGGTCA
*
21830002 CCCAGCTATTCAAATTTT-TCTTTTTTGGTCA
1 CCCAACTATTCAAATTTTCTCTTTTTTGGTCA
21830033 CCCA
1 CCCA
21830037 TCGTTAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.45
Consensus pattern (32 bp):
CCCAACTATTCAAATTTTCTCTTTTTTGGTCA
Found at i:21830947 original size:29 final size:28
Alignment explanation
Indices: 21830887--21830944 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 28
21830877 CGAATTTTAA
*
21830887 TATTTTATTTTTATTTTTACTTTAAAAAT
1 TATTTTA-TTTTATTTTTAATTTAAAAAT
21830916 TATTTTA-TTTATTTTTAGATTTAAAAAT
1 TATTTTATTTTATTTTTA-ATTTAAAAAT
21830944 T
1 T
21830945 TATATAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.37
28 10 0.37
29 7 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTTTATTTTATTTTTAATTTAAAAAT
Found at i:21830956 original size:29 final size:27
Alignment explanation
Indices: 21830897--21830957 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
21830887 TATTTTATTT
* * * *
21830897 TTATTTTTACTTTAAAAATTATTTTAT
1 TTATTTTTAATTTAAAAATTATATAAA
21830924 TTATTTTTAGATTTAAAAATTTATATAAA
1 TTATTTTTA-ATTTAAAAA-TTATATAAA
21830953 TTATT
1 TTATT
21830958 AACAGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 9 0.32
28 8 0.29
29 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
TTATTTTTAATTTAAAAATTATATAAA
Found at i:21833699 original size:20 final size:19
Alignment explanation
Indices: 21833654--21833705 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
21833644 CATATCACCG
* *
21833654 TCTCTTTGTTTCATTCCTT
1 TCTCTCTGTTTCACTCCTT
*
21833673 CCGTCTCTGTTTCACTCTCTT
1 TC-TCTCTGTTTCACTC-CTT
*
21833694 TCTCTCTCTTTC
1 TCTCTCTGTTTC
21833706 TCAGTCTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.04, C:0.35, G:0.06, T:0.56
Consensus pattern (19 bp):
TCTCTCTGTTTCACTCCTT
Found at i:21840439 original size:16 final size:16
Alignment explanation
Indices: 21840410--21840443 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21840400 GTAAAATAAT
*
21840410 ATATTTTATGTTAAAA
1 ATATTCTATGTTAAAA
*
21840426 ATATTCTATTTTAAAA
1 ATATTCTATGTTAAAA
21840442 AT
1 AT
21840444 TATTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATTCTATGTTAAAA
Found at i:21843183 original size:3 final size:3
Alignment explanation
Indices: 21843177--21843208 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21843167 ATTATTGAGT
21843177 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21843209 TTCATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21843230 original size:9 final size:10
Alignment explanation
Indices: 21843161--21843205 Score: 58
Period size: 9 Copynumber: 4.5 Consensus size: 10
21843151 TCCTATCATT
21843161 TTATTTATTA
1 TTATTTATTA
21843171 TTGAGTTTATTA
1 TT-A-TTTATTA
21843183 TTA-TTATTA
1 TTATTTATTA
21843192 TTA-TTATTA
1 TTATTTATTA
21843201 TTATT
1 TTATT
21843206 ATTTTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 18 0.56
10 3 0.09
11 2 0.06
12 9 0.28
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (10 bp):
TTATTTATTA
Found at i:21843449 original size:23 final size:22
Alignment explanation
Indices: 21843417--21843459 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21843407 CATAAATATT
*
21843417 TCATTTTTATAATTCATATTTTA
1 TCATTGTTAT-ATTCATATTTTA
*
21843440 TCATTGTTATATTTATATTT
1 TCATTGTTATATTCATATTT
21843460 ATTTATTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TCATTGTTATATTCATATTTTA
Found at i:21855766 original size:44 final size:43
Alignment explanation
Indices: 21855701--21856024 Score: 236
Period size: 44 Copynumber: 7.5 Consensus size: 43
21855691 AGAATTGCAG
* * *
21855701 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATAGTA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACAG-A
* *
21855745 ATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT--A-A-AGG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGA
* * * * * *
21855784 ATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCA-CCAG-
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGA
* * * * *
21855825 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAGA-ATGTCA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACA-G--A
* * *
21855870 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGCCAGAA
1 -ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAG-A
* **
21855915 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACACT
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACAGA
* * * * * *
21855958 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTCAAATAAAGG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAAGACAGA
21856002 ATCTTATCTCCCTGAAGTTACAG
1 ATCTTATCTCCCTGAAGTTACAG
21856025 CAGAGTAGAT
Statistics
Matches: 220, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
39 29 0.13
40 4 0.02
41 27 0.12
42 4 0.02
43 29 0.13
44 92 0.42
45 3 0.01
46 30 0.14
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGA
Found at i:21855945 original size:170 final size:173
Alignment explanation
Indices: 21855653--21855990 Score: 461
Period size: 170 Copynumber: 2.0 Consensus size: 173
21855643 TCATTATAAA
*
21855653 AGGTCTTATTCCCCTGAGATTACGGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
1 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
* * * *
21855718 TTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-A-A
66 TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAGA
* * *
21855781 -AGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACC
131 CACGATCCTATCTCCCTGAAGTTACAGTAGAGCGGATCGCACC
* *
21855823 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAA-TGTCAGATCTTATCTCCCTGAG
1 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTG-CAGATCTTATCTCCCTGAG
* * * * *
21855887 GTTACAGTGGAGCAGATTGAGGCCAGAAATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGA
65 ATTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATT-A
* *
21855951 AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT
128 AGACACGATCCTATCTCCCTGAAGTTACAGTAGAGCGGAT
21855991 TCAAATAAAG
Statistics
Matches: 145, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
169 4 0.03
170 108 0.74
172 1 0.01
173 1 0.01
174 31 0.21
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (173 bp):
AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAGA
CACGATCCTATCTCCCTGAAGTTACAGTAGAGCGGATCGCACC
Found at i:21856554 original size:23 final size:23
Alignment explanation
Indices: 21856528--21856573 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21856518 GGTGGCCCGC
21856528 TACCCAAAACCAACCCAAATAAA
1 TACCCAAAACCAACCCAAATAAA
21856551 TACCCAAAACCAACCCAAATAAA
1 TACCCAAAACCAACCCAAATAAA
21856574 ACACCCAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.35, G:0.00, T:0.09
Consensus pattern (23 bp):
TACCCAAAACCAACCCAAATAAA
Found at i:21857667 original size:3 final size:3
Alignment explanation
Indices: 21857661--21857692 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
21857651 ATTATTGAGT
*
21857661 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21857693 GCATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:21857707 original size:9 final size:10
Alignment explanation
Indices: 21857645--21857706 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
21857635 TCCTATCATT
21857645 TTATTTATTA
1 TTATTTATTA
21857655 TTGAGTTTATTA
1 TT-A-TTTATTA
21857667 TTA-TTATTA
1 TTATTTATTA
21857676 TTATTATCATTA
1 TTATT-T-ATTA
*
21857688 TTATTGCATT-
1 TTATT-TATTA
21857698 TTATTTATT
1 TTATTTATT
21857707 TATTTGTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 12 0.27
10 8 0.18
11 6 0.14
12 18 0.41
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (10 bp):
TTATTTATTA
Found at i:21871598 original size:96 final size:97
Alignment explanation
Indices: 21871493--21871669 Score: 257
Period size: 97 Copynumber: 1.8 Consensus size: 97
21871483 GTAAATTTTT
* * * * *
21871493 TTTCATTTTGAACAAAACAACGCCTTTTTGCTATTCTAAAAA-TTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAACAACACCGTTTTACTATTCGAAAAATTTTTTATTTTATTTTTTATAAA
*
21871557 TTGATTTATTTTTTGCTATAAAAACACCGCTA
66 TTGATTAATTTTTTGCTATAAAAACACCGCTA
* * **
21871589 TTTCCTTTTGAATAAAATGACACCGTTTTACTATTCGAAAAATTTTTTATTTTATTTTTTATAAA
1 TTTCATTTTGAACAAAACAACACCGTTTTACTATTCGAAAAATTTTTTATTTTATTTTTTATAAA
21871654 TTGATTAATTTTTTGC
66 TTGATTAATTTTTTGC
21871670 GGCGTTTTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
96 34 0.49
97 36 0.51
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (97 bp):
TTTCATTTTGAACAAAACAACACCGTTTTACTATTCGAAAAATTTTTTATTTTATTTTTTATAAA
TTGATTAATTTTTTGCTATAAAAACACCGCTA
Found at i:21871750 original size:152 final size:152
Alignment explanation
Indices: 21871589--21871866 Score: 475
Period size: 152 Copynumber: 1.8 Consensus size: 152
21871579 AACACCGCTA
* * *
21871589 TTTCCTTTTGAATAAAATGACACCGTTTTACTATTCGAAAAATTTTTTATTTTATTTTTTATAAA
1 TTTCATTTTGAACAAAATGACACCGTTTTACTATGCGAAAAATTTTTTATTTTATTTTTTATAAA
*
21871654 TTGATTAATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCAGCGTTTTT
66 TTGATTAACTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCAGCGTTTTT
21871719 CATAGAAACGCCGCAAAATTTT
131 CATAGAAACGCCGCAAAATTTT
* *
21871741 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
1 TTTCATTTTGAACAAAATGACACCGTTTTACTATGCGAAAAATTTTTTATTTTATTTTTTATAAA
* * *
21871806 TTGATTTACTTTTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGT
66 TTGATTAACTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCAGCGT
21871867 GCAAATTTTT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
152 117 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (152 bp):
TTTCATTTTGAACAAAATGACACCGTTTTACTATGCGAAAAATTTTTTATTTTATTTTTTATAAA
TTGATTAACTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCAGCGTTTTT
CATAGAAACGCCGCAAAATTTT
Found at i:21871975 original size:94 final size:94
Alignment explanation
Indices: 21871877--21872060 Score: 314
Period size: 94 Copynumber: 2.0 Consensus size: 94
21871867 GCAAATTTTT
* * *
21871877 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
*
21871942 TTGATTTATTTTTTACGGTGTTTTTTCTA
66 TTGATTTATTTTTTACGGCGTTTTTTCTA
*
21871971 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
*
21872036 TTGATTTATTTTTTGCGGCGTTTTT
66 TTGATTTATTTTTTACGGCGTTTTT
21872061 AAAAAACGCT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.54
Consensus pattern (94 bp):
TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
TTGATTTATTTTTTACGGCGTTTTTTCTA
Found at i:21872189 original size:379 final size:382
Alignment explanation
Indices: 21871485--21872199 Score: 1123
Period size: 379 Copynumber: 1.9 Consensus size: 382
21871475 AAAATGTCGT
*
21871485 AAATTTTTTTTCATTTTGAACAAAACAACGCCTTTTTGCTATTCTAAAAATTTTTATTTTGTTTT
1 AAATTTTTTTTCATTTTGAACAAAACAACGCCGTTTTGCTATTCTAAAAATTTTTATTTTGTTTT
* * * *
21871550 TTATAAATTGATTTATTTTTTGCTATAAAAACACCGCTATTTCCTTTTGAATAAAATGACACCGT
66 TTATAAATTGATTTATTTTTTACGAT--AAACACCGCTATTTCATTTTGAACAAAATGACACCGT
*
21871615 TTTACTATTCGAAAAATTTTTTATTTTATTTTTTATAAATTGATTAATTTTTTGCGGCGTTTTTA
129 TTTACTATGCGAAAAATTTTTTATTTTATTTTTTATAAATTGATTAATTTTTTGCGGCGTTTTTA
21871680 TAGAAAACGCCGCTATTGCTTACCTTTAGCAGCGTTTTTCATAGAAACGCCGCAAAATTTTTTTC
194 TAGAAAACGCCGCTATTGCTTACCTTTAGCAGCGTTTTTCATAGAAACGCCGCAAAATTTTTTTC
* *
21871745 ATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
259 ATTTTGAACAAAACGACACCATTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
21871810 TTTACTTTTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGTGC
324 TTTACTTTTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGTGC
*
21871869 AAATTTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTGTTT
1 AAATTTTTTTTCATTTTGAACAAAACAACGCCGTTTTGCTATTCTAAAAA-TTTTTATTTTGTTT
* *******
21871934 TTTATAAATTGATTTATTTTTTACGGT-GTTTTTTCTATTTCATTTTGAACAAAATGACACCGTT
65 TTTATAAATTGATTTATTTTTTACGATAAACACCGCTATTTCATTTTGAACAAAATGACACCGTT
* * *
21871998 TTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTA-
130 TTACTATGCGAAAAATTTTTTATTTTATTTTTTATAAATTGATTAATTTTTTGCGGCGTTTTTAT
* * *
21872062 A-AAAACGCTGCTATTGC-TACCTTTAGCGGCGTTTTTCATAGAAACGCTGCAAAATTTTTTTCA
195 AGAAAACGCCGCTATTGCTTACCTTTAGCAGCGTTTTTCATAGAAACGCCGCAAAATTTTTTTCA
* * **
21872125 TTTTGAACAAAACGACGCCATTTTGCTGTTTTAAAAATTTTTTATTTTATTTTTTATAAATTGAT
260 TTTTGAACAAAACGACACCATTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGAT
*
21872190 TTATTTTTTG
325 TTACTTTTTG
21872200 ACATTTTGAA
Statistics
Matches: 302, Mismatches: 28, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
379 112 0.37
380 15 0.05
381 1 0.00
382 88 0.29
384 48 0.16
385 38 0.13
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (382 bp):
AAATTTTTTTTCATTTTGAACAAAACAACGCCGTTTTGCTATTCTAAAAATTTTTATTTTGTTTT
TTATAAATTGATTTATTTTTTACGATAAACACCGCTATTTCATTTTGAACAAAATGACACCGTTT
TACTATGCGAAAAATTTTTTATTTTATTTTTTATAAATTGATTAATTTTTTGCGGCGTTTTTATA
GAAAACGCCGCTATTGCTTACCTTTAGCAGCGTTTTTCATAGAAACGCCGCAAAATTTTTTTCAT
TTTGAACAAAACGACACCATTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATT
TACTTTTTGTGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGTGC
Found at i:21872205 original size:78 final size:77
Alignment explanation
Indices: 21872115--21872269 Score: 229
Period size: 78 Copynumber: 2.0 Consensus size: 77
21872105 ACGCTGCAAA
* * * **
21872115 ATTTTTTTCATTTTGAACAAAACGACGCCATTTTGCTGTTTTAAAAATTTTTTATTTTATTTTTT
1 ATTTTTTACATTTTGAACAAAACGACACCATTTTGCTATGCTAAAAATTTTTTATTTTATTTTTT
21872180 ATAAATTGATTT
66 ATAAATTGATTT
* * *
21872192 ATTTTTTGACATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAATTTTTTTATTTTATTTTT
1 ATTTTTT-ACATTTTGAACAAAACGACACCATTTTGCTATGCTAAAAATTTTTTATTTTATTTTT
21872257 TATAAATTGATTT
65 TATAAATTGATTT
21872270 TTTATAAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
77 7 0.10
78 62 0.90
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (77 bp):
ATTTTTTACATTTTGAACAAAACGACACCATTTTGCTATGCTAAAAATTTTTTATTTTATTTTTT
ATAAATTGATTT
Found at i:21872858 original size:14 final size:15
Alignment explanation
Indices: 21872822--21872859 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21872812 CTTTAACTCG
*
21872822 ACCCTTGAATCCCTA
1 ACCCTTAAATCCCTA
*
21872837 AACCTTAAATCCC-A
1 ACCCTTAAATCCCTA
21872851 ACCCTTAAA
1 ACCCTTAAA
21872860 CCGTAATCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.37, G:0.03, T:0.24
Consensus pattern (15 bp):
ACCCTTAAATCCCTA
Found at i:21873007 original size:245 final size:253
Alignment explanation
Indices: 21872732--21873271 Score: 702
Period size: 267 Copynumber: 2.1 Consensus size: 253
21872722 AATATATTTG
*
21872732 ATTTATTATTATCTATTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAAATAATT
* ** * * * *
21872797 AATCTAAACTCAAAACTTTAACTCGACCCTTGAATCCCT-A-AA-CCTTAAA-T-CCC-AACCCT
65 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAATAATCCCTAAACTACCCTAACCCC
* * *
21872856 TAAACCGT-AAT-CCCTAATTCATAATCTCTAAATCCATACTCCCTAAACATTAAAATATGAACT
130 TAAACCGTAAATCCCCTAATCCATAATCACTAAACCCATACTCCCTAAACATTAAAATATGAACT
* * * *
21872919 CCTAAACCAACTTTAAATCTTAAATTAATCATATACCCTAAA-CTAAAACCCTAAACAA
195 CCTAAACCAACCTTAAATATTAAATAAATCATATACCCTAAACCAAAAACCCTAAACAA
21872977 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
21873042 ATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAACTTTTAATCCCTAAACCCCTAACCC
66 ATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAA----TAATCCCTAAA---CT-ACCC
* *
21873107 TTTAACCCCTAAACCTTAAATCCCAACCCCTAATCCATAATCACTAAACCCATACTCCCTAAACC
123 --TAACCCCTAAACCGTAAAT-----CCCCTAATCCATAATCACTAAACCCATACTCCCTAAACA
* *
21873172 TTAAAATATGAACTCCTAAACCGACCTTAAATATTAAATAAATCATATACCCTAAACCAAAAACT
181 TTAAAATATGAACTCCTAAACCAACCTTAAATATTAAATAAATCATATACCCTAAACCAAAAACC
21873237 CTAAACAA
246 CTAAACAA
21873245 ATTTATTATTATCTCTTTTACAATTAT
1 ATTTATTATTATCTCTTTTACAATTAT
21873272 TTTAAATAAT
Statistics
Matches: 252, Mismatches: 19, Indels: 25
0.85 0.06 0.08
Matches are distributed among these distances:
244 45 0.18
245 53 0.21
250 2 0.01
251 6 0.02
255 1 0.00
257 3 0.01
260 12 0.05
261 3 0.01
267 86 0.34
268 41 0.16
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (253 bp):
ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
ATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAATAATCCCTAAACTACCCTAACCCCT
AAACCGTAAATCCCCTAATCCATAATCACTAAACCCATACTCCCTAAACATTAAAATATGAACTC
CTAAACCAACCTTAAATATTAAATAAATCATATACCCTAAACCAAAAACCCTAAACAA
Found at i:21873096 original size:22 final size:23
Alignment explanation
Indices: 21873066--21873121 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
21873056 CCCTAACTCG
* *
21873066 ACCCCTAAATCCCTAA-CTTTTA
1 ACCCCTAAACCCCTAACCCTTTA
*
21873088 ATCCCTAAACCCCTAACCCTTTA
1 ACCCCTAAACCCCTAACCCTTTA
21873111 ACCCCTAAACC
1 ACCCCTAAACC
21873122 TTAAATCCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.32, C:0.43, G:0.00, T:0.25
Consensus pattern (23 bp):
ACCCCTAAACCCCTAACCCTTTA
Found at i:21873773 original size:114 final size:114
Alignment explanation
Indices: 21873418--21873974 Score: 777
Period size: 114 Copynumber: 4.9 Consensus size: 114
21873408 TAAAAAAATT
*
21873418 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* *
21873482 TTAGG-TTTTTTGCGGCGCTTT-TCCAAAAATGCCGCTAAAGCCCTGGGCA
65 TTAGGTTTTTTTGCGGCGCTTTCT-CAAAAACGCCGCTAAAGCCCTGAGCA
* *
21873531 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGC
1 TTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* *
21873595 TTAAGTTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCA
65 TT-AGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
** *
21873646 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCAAGAAAGCTCAGAAAACGGCGTCGTTGGTCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
21873711 TAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
66 TAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
* * * * *
21873760 TTAGCTGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAACGGCGTTGTTGAGAT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
21873825 TAGGTTTTTTTGCGGCGCTTT-TCCAAAAACGCCGCTAAAGCCCTGAACA
66 TAGGTTTTTTTGCGGCGCTTTCT-CAAAAACGCCGCTAAAGCCCTGAGCA
* * * * * * *
21873874 TTAGCGGCGCTTTTTTAGAAACGCTGCTAAATCCCCTAAAGCTCGGGAAACGACGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* * * *
21873939 TAGG-TTTTTTGGGGTGTTTTCTC-AAAACGCCACTAA
66 TAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
21873975 TGCGCCACTA
Statistics
Matches: 401, Mismatches: 37, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
112 12 0.03
113 80 0.20
114 209 0.52
115 98 0.24
116 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:21876644 original size:3 final size:3
Alignment explanation
Indices: 21876638--21876669 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
21876628 ATTATTGAGT
*
21876638 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21876670 GCATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:21876684 original size:9 final size:10
Alignment explanation
Indices: 21876622--21876683 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
21876612 TCCTATCATT
21876622 TTATTTATTA
1 TTATTTATTA
21876632 TTGAGTTTATTA
1 TT-A-TTTATTA
21876644 TTA-TTATTA
1 TTATTTATTA
21876653 TTATTATCATTA
1 TTATT-T-ATTA
*
21876665 TTATTGCATT-
1 TTATT-TATTA
21876675 TTATTTATT
1 TTATTTATT
21876684 TATTTGTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 12 0.27
10 8 0.18
11 6 0.14
12 18 0.41
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (10 bp):
TTATTTATTA
Found at i:21895664 original size:6 final size:6
Alignment explanation
Indices: 21895653--21895687 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
21895643 GATTTCTAAA
21895653 ATTATC ATTATC ATTATC ATTATC ATTATC ATTAT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTAT
21895688 AATTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTATC
Found at i:21896954 original size:22 final size:22
Alignment explanation
Indices: 21896918--21896969 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
21896908 AATTTAAACT
*
21896918 AAAAATGTATCAAACTTAATATA
1 AAAAATTTATCAAACTTAATA-A
*
21896941 AAAAATTTAT-AAACTTTATAA
1 AAAAATTTATCAAACTTAATAA
21896962 AAGAAATT
1 AA-AAATT
21896970 AAGCAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 3 0.12
22 14 0.54
23 9 0.35
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAAATTTATCAAACTTAATAA
Found at i:21900599 original size:22 final size:21
Alignment explanation
Indices: 21900558--21900601 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
21900548 AAGGTTGATA
*
21900558 TTAAATTAAAACATTCCCTTT
1 TTAAATTAAAACACTCCCTTT
21900579 TTAACATTAAAAGCACT-CCTTT
1 TTAA-ATTAAAA-CACTCCCTTT
21900601 T
1 T
21900602 ACCATCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (21 bp):
TTAAATTAAAACACTCCCTTT
Found at i:21904535 original size:54 final size:54
Alignment explanation
Indices: 21904477--21904587 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
21904467 AATTCATGTT
*
21904477 AATTTTCAATCCACATATTATTATGAATATGCCACAAATACACCAATTATGCCA
1 AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
21904531 AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
1 AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
21904585 AAT
1 AAT
21904588 GAATCAACTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (54 bp):
AATTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCA
Found at i:21907573 original size:16 final size:17
Alignment explanation
Indices: 21907554--21907586 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21907544 TGGCTTCATA
21907554 GTGG-TTTTTTTTAATT
1 GTGGTTTTTTTTTAATT
21907570 GTGGTTTTTTTTTAATT
1 GTGGTTTTTTTTTAATT
21907587 TCAAAATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.70
Consensus pattern (17 bp):
GTGGTTTTTTTTTAATT
Found at i:21908678 original size:16 final size:16
Alignment explanation
Indices: 21908657--21908687 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21908647 TACCCATACC
*
21908657 CTGAAATGATCCAAAT
1 CTGAAATGACCCAAAT
21908673 CTGAAATGACCCAAA
1 CTGAAATGACCCAAA
21908688 CTTAAAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (16 bp):
CTGAAATGACCCAAAT
Found at i:21915618 original size:643 final size:645
Alignment explanation
Indices: 21914384--21916071 Score: 2564
Period size: 662 Copynumber: 2.6 Consensus size: 645
21914374 CAGTCTTTAT
* * *
21914384 TTATTCTTTTATTAAATATATGTATATTTTTATTCTCGTTCGATCTTGTGATTTAAATAAATATT
1 TTATTATTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
* * *
21914449 TTATATTACTGTTTATTTTACCAACGTGTGTGAAAGACCATATTCACTTCAATTTAAAGCCAAAT
66 TTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
* * * *
21914514 TTGATTTTCTTTTCCGTTTTCACCATTTATGACTCATTCGCTCCATTAGGTCTTGCTAATTTCCC
131 TTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTCCC
* * *
21914579 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTT-ATTCAAGAATCGCATTTAAAATTTGGGAA
196 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTT-GAAA
* *
21914643 AAGAACTAAGTT-TTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGAC
260 AAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGAC
* *
21914707 AAGTATTGAAGCAAGGGCAAAATATTAGCCTCAGAATTAAAAGAATGAAGGAACGAAATCAAAGG
325 AAGTTTTGAAGCAAGGG-AAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATCAAAGG
* * * *
21914772 AACATTCAAAGGCATTTTTCAAACTGTTTTTGGTGATAGCCGAAGGCAAGACTATTGTTCGTTGA
389 AACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGACTACTGTTCGTTGA
* *
21914837 TCACTGTAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTGTTCTAGGAGACAATCGACCAACG
454 TCACTGCAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTATTCTAGGAGACAATCGACCAACG
* * *
21914902 TTTCTCCAGCACCAAAGAAGCAGTCGGATTTATCTTAAGGAAACTGTGAAAATAGGCCTCAACTA
519 TTTCTCCAGCACCAAAGAAGCAGCCGAATCTATCTTAAGGAAACTGTGAAAATAGGCCTCAACTA
* *
21914967 CCAGTCCGTTTTTCCTGCCTACGTACGAGTATAATATTTCAATCCAGTC-TTTCT-TTC-TG
584 CCAGTCCGTTTTTCCTGCCTACCTACGAGTATAATATTTCAATCCAGTCTTTTCTATTCTTA
*
21915026 TTCTT-TTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
1 TTATTATTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
*
21915090 TTATATTACTATTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
66 TTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
* *
21915155 TTGATTTTCCTTTCCATTTTCACCATTTATGACTCATTCCCTCGATTAGGTCTTGTTAATTTCCC
131 TTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTCCC
* *
21915220 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCATATTTAAAATTTGATAC
196 ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTTGA-AA
* *
21915285 AAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGTAATGAAGTGTTTTCACTATTTCAGGGAC
260 AAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGAC
* * * *
21915350 AAGTTTTGAAGCAAAGGAAAACTATTAGCCTCAGAAATGAAAGAATGAATGAAGGAAATCAAAGG
325 AAGTTTTGAAGCAAGGGAAAA-TATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATCAAAGG
* *
21915415 AACATTCAAAGGCGTTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGGCTACTGTTCGTTGA
389 AACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGACTACTGTTCGTTGA
** * * *
21915480 TCACTGCAGTTGTGCTACTATCGTGCTCATCTTGTTGTTGTA-TCTTGGGAGACAATCGACCAAC
454 TCACTGCAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTATTC-TAGGAGACAATCGACCAAC
* *
21915544 GTTTCTCCAGCACCAAAGGAGC-GACCGAATCTGTCTTAAGGAAACTGTGAAAATAGGCCTCAAC
518 GTTTCTCCAGCACCAAAGAAGCAG-CCGAATCTATCTTAAGGAAACTGTGAAAATAGGCCTCAAC
* * * *
21915608 TACTAGTCCGTTTTTCCTGCCTACCTATGAGTATAATATTTCGATCTAGTCTTTATTTCTATTCT
582 TACCAGTCCGTTTTTCCTGCCTACCTACGAGTATAATATTTCAATCCAGTC--T-TTTCTATTC-
21915673 TTATTATTATTA
643 ---------TTA
*
21915685 TTATTATTATTATTATTATATATGTATATTTTTGTTCTCGTTTGATCTTGTGATTTAAATAAATA
1 TTATTATT-TTATTA-TATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATA
* *
21915750 TTTTATATTATTGTTTATTTTACTAACATGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAA
64 TTTTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAA
21915815 ATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTC
129 ATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTC
* * *
21915880 CCATTTTTCTAAGCTTTTGCTACTTTTAGTGGGATTTAGCTTAAGAATCACATTTAAAATTTGGA
194 CCATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTT-GA
*
21915945 AAAAGAATCGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGG
258 AAAAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGG
*
21916010 ACAAGTTTTGAAGCAAGGGAAAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACAAAATC
323 ACAAGTTTTGAAGCAAGGG-AAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATC
21916072 TGTTAGAGTT
Statistics
Matches: 948, Mismatches: 71, Indels: 34
0.90 0.07 0.03
Matches are distributed among these distances:
641 214 0.23
642 43 0.05
643 320 0.34
647 5 0.01
648 3 0.00
659 5 0.01
660 2 0.00
661 6 0.01
662 344 0.36
663 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (645 bp):
TTATTATTTTATTATATATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATT
TTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAAT
TTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTCCC
ATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTCAAGAATCACATTTAAAATTTGAAAA
AGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGACA
AGTTTTGAAGCAAGGGAAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATCAAAGGAA
CATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACGAAGGCAAGACTACTGTTCGTTGATC
ACTGCAGCCGTGCTACTACCGTGCTCATCTTATTGTTGTATTCTAGGAGACAATCGACCAACGTT
TCTCCAGCACCAAAGAAGCAGCCGAATCTATCTTAAGGAAACTGTGAAAATAGGCCTCAACTACC
AGTCCGTTTTTCCTGCCTACCTACGAGTATAATATTTCAATCCAGTCTTTTCTATTCTTA
Found at i:21915681 original size:3 final size:3
Alignment explanation
Indices: 21915673--21915703 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21915663 TTTCTATTCT
21915673 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21915704 ATATGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21918140 original size:28 final size:28
Alignment explanation
Indices: 21918100--21918157 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
21918090 ATTCTAAGAG
21918100 ATTGCTTGCAAGTCAAGTTAAACAAAAT
1 ATTGCTTGCAAGTCAAGTTAAACAAAAT
21918128 ATTGCTTGCAAGTCAAGTTAAACAAAAT
1 ATTGCTTGCAAGTCAAGTTAAACAAAAT
21918156 AT
1 AT
21918158 ATTTTCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (28 bp):
ATTGCTTGCAAGTCAAGTTAAACAAAAT
Found at i:21919797 original size:15 final size:14
Alignment explanation
Indices: 21919776--21919813 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
21919766 TTGTTACAAA
21919776 AACTTTTCTTC-CTT
1 AACTTTTCTTCTC-T
21919790 AACGTTTTCTTCTCT
1 AAC-TTTTCTTCTCT
21919805 AACTTTTCT
1 AACTTTTCT
21919814 ATTTTTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 12 0.55
16 1 0.05
ACGTcount: A:0.16, C:0.26, G:0.03, T:0.55
Consensus pattern (14 bp):
AACTTTTCTTCTCT
Found at i:21919813 original size:14 final size:14
Alignment explanation
Indices: 21919776--21919813 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
21919766 TTGTTACAAA
21919776 AACTTTTCTTCCTT
1 AACTTTTCTTCCTT
21919790 AACGTTTTCTT-CTCT
1 AAC-TTTTCTTCCT-T
21919805 AACTTTTCT
1 AACTTTTCT
21919814 ATTTTTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.16, C:0.26, G:0.03, T:0.55
Consensus pattern (14 bp):
AACTTTTCTTCCTT
Found at i:21934812 original size:20 final size:22
Alignment explanation
Indices: 21934773--21934820 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
21934763 TAGAAACTGG
21934773 TAGAA-TTGTTATTCTAGAAAA
1 TAGAATTTGTTATTCTAGAAAA
21934794 TAGAATTTG-TATT-TAGAAAA
1 TAGAATTTGTTATTCTAGAAAA
21934814 TA-AATTT
1 TAGAATTT
21934821 TCACTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 9 0.35
21 9 0.35
22 3 0.12
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (22 bp):
TAGAATTTGTTATTCTAGAAAA
Found at i:21935167 original size:16 final size:16
Alignment explanation
Indices: 21935148--21935178 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21935138 TTAATTAATT
*
21935148 AATTAATTAATTTTCC
1 AATTAAGTAATTTTCC
21935164 AATTAAGTAATTTTC
1 AATTAAGTAATTTTC
21935179 TCTACCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (16 bp):
AATTAAGTAATTTTCC
Found at i:21937826 original size:33 final size:33
Alignment explanation
Indices: 21937784--21937849 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
21937774 AATAAAGGGA
21937784 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
1 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
21937817 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
1 AAATTTCATTTCTTACATTGTTTTGGTGATAAT
21937850 GCTGTCATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (33 bp):
AAATTTCATTTCTTACATTGTTTTGGTGATAAT
Found at i:21940060 original size:25 final size:25
Alignment explanation
Indices: 21940001--21940063 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
21939991 TAGCTCTCAT
* *
21940001 GAGCTTTCTATTATATGGTTATTGC
1 GAGCTTCCTGTTATATGGTTATTGC
21940026 GAGCTTCCTGTTATATGGTTATTGC
1 GAGCTTCCTGTTATATGGTTATTGC
*
21940051 GGGCTTCCTGTTA
1 GAGCTTCCTGTTA
21940064 ATAGCTCTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (25 bp):
GAGCTTCCTGTTATATGGTTATTGC
Found at i:21940164 original size:25 final size:25
Alignment explanation
Indices: 21940136--21940227 Score: 98
Period size: 25 Copynumber: 3.6 Consensus size: 25
21940126 CTTATGAGTA
*
21940136 TCCCGA-TATATGGCTCTTTGGAGCT
1 TCCCGATTA-ATGGCTCTTCGGAGCT
* *
21940161 TCCCGATTAAAGGCTCTTCGTGAGTT
1 TCCCGATTAATGGCTCTTCG-GAGCT
*
21940187 TCCCGATTAATGGCTCTCCGGAGCT
1 TCCCGATTAATGGCTCTTCGGAGCT
*
21940212 TCCTG-TTACATGGCTC
1 TCCCGATTA-ATGGCTC
21940228 ACATGAGCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 3 0.05
25 30 0.53
26 24 0.42
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTCGGAGCT
Found at i:21940201 original size:26 final size:26
Alignment explanation
Indices: 21940130--21940203 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
21940120 GTAGCTCTTA
* *
21940130 TGAGTATCCCGA-TATATGGCTCTTTG
1 TGAGTTTCCCGATTA-ATGGCTCTTCG
* *
21940156 -GAGCTTCCCGATTAAAGGCTCTTCG
1 TGAGTTTCCCGATTAATGGCTCTTCG
21940181 TGAGTTTCCCGATTAATGGCTCT
1 TGAGTTTCCCGATTAATGGCTCT
21940204 CCGGAGCTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
TGAGTTTCCCGATTAATGGCTCTTCG
Found at i:21940284 original size:24 final size:25
Alignment explanation
Indices: 21940230--21940291 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
21940220 CATGGCTCAC
21940230 ATGAGCTTCTCGTTATATAGCTCGA
1 ATGAGCTTCTCGTTATATAGCTCGA
* * *
21940255 AAGAGCTT-TCCGTTATGTA-CTCGT
1 ATGAGCTTCT-CGTTATATAGCTCGA
21940279 ATGAGCATTCTCG
1 ATGAGC-TTCTCG
21940292 AATACAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 10 0.33
25 19 0.63
26 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCTCGTTATATAGCTCGA
Found at i:21942242 original size:17 final size:17
Alignment explanation
Indices: 21942220--21942293 Score: 60
Period size: 17 Copynumber: 4.3 Consensus size: 17
21942210 GAACTCACAA
*
21942220 GTGAGCTCTCAAGTTTG
1 GTGAGCTCACAAGTTTG
** *
21942237 GTGAGCTTGC-TGTCTTG
1 GTGAGCTCACAAGT-TTG
**
21942254 GTGAGCTCACATTTTTTG
1 GTGAGCTCACA-AGTTTG
*
21942272 GTGAGCTCACAATTTTG
1 GTGAGCTCACAAGTTTG
21942289 GTGAG
1 GTGAG
21942294 TTCGCAGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
16 2 0.04
17 29 0.62
18 14 0.30
19 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.30, T:0.38
Consensus pattern (17 bp):
GTGAGCTCACAAGTTTG
Found at i:21942274 original size:18 final size:17
Alignment explanation
Indices: 21942251--21942293 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
21942241 GCTTGCTGTC
*
21942251 TTGGTGAGCTCACATTTT
1 TTGGTGAGCTCACA-ATT
21942269 TTGGTGAGCTCACAATT
1 TTGGTGAGCTCACAATT
21942286 TTGGTGAG
1 TTGGTGAG
21942294 TTCGCAGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (17 bp):
TTGGTGAGCTCACAATT
Found at i:21947148 original size:47 final size:47
Alignment explanation
Indices: 21947083--21947176 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
21947073 ATATATGCAC
*
21947083 CAACTTGAGATAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
1 CAACTTGAGAGAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
* * * *
21947130 CAACTTGAGGGAGGGTGTTGAAATATGTGAAACCCATATATTTTGGG
1 CAACTTGAGAGAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
21947177 GATATATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (47 bp):
CAACTTGAGAGAGAGTGTTGAAATATGTAAAACCCATATATTCTGGG
Found at i:21949201 original size:21 final size:21
Alignment explanation
Indices: 21949175--21949216 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21949165 GTGGAAAAGG
21949175 TTAGAAACTATTTATGTGACT
1 TTAGAAACTATTTATGTGACT
*
21949196 TTAGAAACTCTTTATGTGACT
1 TTAGAAACTATTTATGTGACT
21949217 AAGTCTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (21 bp):
TTAGAAACTATTTATGTGACT
Found at i:21950753 original size:38 final size:38
Alignment explanation
Indices: 21950699--21950775 Score: 138
Period size: 38 Copynumber: 2.0 Consensus size: 38
21950689 ATATCTATCT
21950699 TTTGTACTTTTCGTTCTTTTGCTATTATAGTAAAATTA
1 TTTGTACTTTTCGTTCTTTTGCTATTATAGTAAAATTA
21950737 TTTGTACTCTTT-GTTCTTTTGCTATTATAGTAAAATTA
1 TTTGTACT-TTTCGTTCTTTTGCTATTATAGTAAAATTA
21950775 T
1 T
21950776 CTTTACCCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 35 0.92
39 3 0.08
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (38 bp):
TTTGTACTTTTCGTTCTTTTGCTATTATAGTAAAATTA
Found at i:21955594 original size:15 final size:15
Alignment explanation
Indices: 21955574--21955604 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21955564 GTTATGTAAG
21955574 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
21955589 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
21955604 T
1 T
21955605 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:21958307 original size:16 final size:16
Alignment explanation
Indices: 21958277--21958306 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21958267 TAAATGTAAC
21958277 ATATAATATGAAAAAT
1 ATATAATATGAAAAAT
21958293 ATATAATA-GAAAAA
1 ATATAATATGAAAAA
21958307 ACTAAACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
ATATAATATGAAAAAT
Found at i:21961449 original size:27 final size:27
Alignment explanation
Indices: 21961419--21961497 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
21961409 TTTTTATTTA
21961419 TTTATATATTTTATAAATTTATAAATT
1 TTTATATATTTTATAAATTTATAAATT
* * * * *
21961446 TTTAGT-TCTTTTATATAGTCATATATT
1 TTTA-TATATTTTATAAATTTATAAATT
21961473 TTTATATATTTT-TCATAATTTATAA
1 TTTATATATTTTAT-A-AATTTATAA
21961498 CTTTATATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
26 2 0.05
27 30 0.79
28 6 0.16
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTATATATTTTATAAATTTATAAATT
Found at i:21967698 original size:96 final size:96
Alignment explanation
Indices: 21967566--21967982 Score: 593
Period size: 97 Copynumber: 4.4 Consensus size: 96
21967556 GTTTTTAGAT
* * * * * *
21967566 TTTAGGGTTTTAAAGAAAAAATTAAATAAATAAGGGTTTAAGGTTTCTTAAGTAAATTAATTATA
1 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
21967631 AA-TTTTAAAAAATTAGATTAGGGTTTAGTG
66 AATTTTTAAAAAATTAGATTAGGGTTTAGTG
*
21967661 TTTAGGGTTCTTAAGGAGAAAATCAAATAAATTAGGGTTT-GGTGTTACTTGAGTAAATTAATTA
1 TTTAGGGTT-TTAAGGAAAAAATCAAATAAATTAGGGTTTAGG-GTTACTTGAGTAAATTAATTA
**
21967725 TAAATTTAAAAAAAATTAGATTAGGGTTTAGTG
64 TAAATTTTTAAAAAATTAGATTAGGGTTTAGTG
21967758 TTTAGGGTTTTCAA-GAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTAGGGTTTT-AAGGAAAAAA-TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
*
21967822 TAAATTTTTAAAAAATTAGATTAGGGTTTAGTC
64 TAAATTTTTAAAAAATTAGATTAGGGTTTAGTG
*
21967855 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGG-TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* *
21967920 AAATTTTTAAAAAAATAGAATAGGGTTTAG-G
65 AAATTTTTAAAAAATTAGATTAGGGTTTAGTG
*
21967951 ---A--TTTTTAAGG-AAAAATCAAATAAATTAGGGTT
1 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTT
21967983 GGGGTTTAGG
Statistics
Matches: 296, Mismatches: 18, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
89 22 0.07
90 8 0.03
93 1 0.00
95 10 0.03
96 57 0.19
97 185 0.62
98 13 0.04
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (96 bp):
TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
AATTTTTAAAAAATTAGATTAGGGTTTAGTG
Found at i:21968248 original size:125 final size:126
Alignment explanation
Indices: 21968025--21968440 Score: 681
Period size: 126 Copynumber: 3.3 Consensus size: 126
21968015 TAATTTAAAA
** *
21968025 AAGCTCCCACGTGGACGCTCTTTTGCTATTGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTT
21968090 CTGAGCAAATAGTGTCAAAAACCCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACCCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* *
21968151 AAGCTCCCACGTGGACACTCTTTTGCTATAGTAGTTCCTG-AAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTT
* *
21968215 CTGAGCAAATAGTGTCAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAA
66 CTGAGCAAATAGTGTCAAAAACCCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
** *
21968276 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTT
* * * * * *
21968341 CTGAGCAAATAGTGTTAAAAACGCTTCAAGCAGGATGCAATATCAGCAAAAGTACTAAAAG
66 CTGAGCAAATAGTGTCAAAAACCCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
21968402 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
21968441 ATTTGGCCTG
Statistics
Matches: 270, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
125 119 0.44
126 151 0.56
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTT
CTGAGCAAATAGTGTCAAAAACCCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:21972030 original size:18 final size:18
Alignment explanation
Indices: 21972004--21972045 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21971994 GATTAGAAAA
* * *
21972004 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
21972022 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
21972040 AGGATA
1 AGGATA
21972046 TGCACATGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:21972173 original size:30 final size:30
Alignment explanation
Indices: 21972102--21972195 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
21972092 TGAAATGTTT
* * * *
21972102 GGCCGGGTGACTGTGTGGGTGCTATTGCTG
1 GGCCGGGTGATTGTGTGGGCGCTGTTGATG
* * *
21972132 GGCCTGGTGATTGTATGGGCGCTGTTGATA
1 GGCCGGGTGATTGTGTGGGCGCTGTTGATG
* *
21972162 GGCCGGGTGATTGTGTGAGCACTGTTGATG
1 GGCCGGGTGATTGTGTGGGCGCTGTTGATG
21972192 GGCC
1 GGCC
21972196 TGCATCGTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.11, C:0.16, G:0.44, T:0.30
Consensus pattern (30 bp):
GGCCGGGTGATTGTGTGGGCGCTGTTGATG
Found at i:21972901 original size:19 final size:20
Alignment explanation
Indices: 21972866--21972906 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21972856 AATTTTAGCA
*
21972866 TACGATTATATT-TTAAATC
1 TACGATTATATTGTAAAATC
21972885 TACG-TTATAATTGTAAAATC
1 TACGATTAT-ATTGTAAAATC
21972905 TA
1 TA
21972907 ATAGAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
TACGATTATATTGTAAAATC
Found at i:21973850 original size:22 final size:22
Alignment explanation
Indices: 21973819--21973868 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
21973809 TTTTCGAAAA
* **
21973819 AAATTAAAGAGAGCTTTGAGAG
1 AAATTTAAGAGAAATTTGAGAG
*
21973841 GAATTTAAGAGAAATTTGAGAG
1 AAATTTAAGAGAAATTTGAGAG
21973863 AAATTT
1 AAATTT
21973869 GAAAGATTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (22 bp):
AAATTTAAGAGAAATTTGAGAG
Found at i:21973869 original size:11 final size:11
Alignment explanation
Indices: 21973833--21973870 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
21973823 TAAAGAGAGC
*
21973833 TTTGAGAGGAA
1 TTTGAGAGAAA
*
21973844 TTTAAGAGAAA
1 TTTGAGAGAAA
21973855 TTTGAGAGAAA
1 TTTGAGAGAAA
21973866 TTTGA
1 TTTGA
21973871 AAGATTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:21974422 original size:13 final size:11
Alignment explanation
Indices: 21974394--21974425 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
21974384 TTATTCAATA
21974394 TTCTCTCAAAT
1 TTCTCTCAAAT
21974405 TTCTCTCAAAT
1 TTCTCTCAAAT
*
21974416 TCCTCTCAAA
1 TTCTCTCAAA
21974426 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:21974431 original size:22 final size:22
Alignment explanation
Indices: 21974388--21974432 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21974378 ATTCAATTAT
**
21974388 TCAATATTCTCTCAAATTTCTC
1 TCAATATTCTCTCAAAGCTCTC
21974410 TCAA-ATTCCTCTCAAAGCTCTC
1 TCAATATT-CTCTCAAAGCTCTC
21974432 T
1 T
21974433 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (22 bp):
TCAATATTCTCTCAAAGCTCTC
Found at i:21975458 original size:95 final size:96
Alignment explanation
Indices: 21975308--21975499 Score: 323
Period size: 95 Copynumber: 2.0 Consensus size: 96
21975298 TTAGAGGTTG
* *
21975308 CCTAATTTATTTGATTTTATCCTTAAGAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAT
1 CCTAATTTATTTGATTTTATCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
* * *
21975373 TTATAATTAATTTACTCAAGTAACCCTAAAC
66 TTAAAATTAATTTAATCAAGAAACCCTAAAC
21975404 CCTAATTTATTTGATTTT-TCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
1 CCTAATTTATTTGATTTTATCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
*
21975468 TTAAAATTAATTTAATTAAGAAACCCTAAAC
66 TTAAAATTAATTTAATCAAGAAACCCTAAAC
21975499 C
1 C
21975500 TTAAACCCTT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 72 0.80
96 18 0.20
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (96 bp):
CCTAATTTATTTGATTTTATCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAAT
TTAAAATTAATTTAATCAAGAAACCCTAAAC
Found at i:21977717 original size:19 final size:19
Alignment explanation
Indices: 21977693--21977803 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
21977683 AATCTTCAGG
21977693 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21977712 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ***
21977731 AATACATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21977750 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
21977769 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21977788 GATATGCAACCTTAGA
1 GATATGCAATCTTAGA
21977804 AGATATGATT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 79 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21977743 original size:38 final size:38
Alignment explanation
Indices: 21977700--21977803 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
21977690 AGGGATATGC
21977700 AATCTTAGATATGATATGCAATCTTAGATATAATACAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATACAT
* *
21977738 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATACAT
*
21977776 AATCTTAGATATGATATGCAACCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
21977804 AGATATGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATACAT
Found at i:21982019 original size:10 final size:10
Alignment explanation
Indices: 21982004--21982029 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21981994 GATTCAATCA
21982004 AAAAAAAAAG
1 AAAAAAAAAG
21982014 AAAAAAAAAG
1 AAAAAAAAAG
21982024 AAAAAA
1 AAAAAA
21982030 GAAAAGGAGA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:21982029 original size:17 final size:16
Alignment explanation
Indices: 21982003--21982034 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
21981993 AGATTCAATC
21982003 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
21982019 AAAAGAAAAAAGAAAA
1 AAAA-AAAAAAGAAAA
21982035 GGAGAGGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAA
Found at i:21983353 original size:45 final size:43
Alignment explanation
Indices: 21983210--21983353 Score: 114
Period size: 45 Copynumber: 3.3 Consensus size: 43
21983200 CAGATCAGTA
*
21983210 AAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCG
1 AAGATA-CAGATCTTGCCTTCCT-CATTGACAGCGAAGCAGATCG
* * * * * * * **
21983255 AA-A-ACAAAGCCTTGCCTTCCTCGGTTG-TAGTGGAGCAGGTTA
1 AAGATACAGA-TCTTGCCTTCCTC-ATTGACAGCGAAGCAGATCG
21983297 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
1 AAGATA-CAGATCTTGCCTTCCT-CATTGACAGCGAAGCAGATCG
21983342 AAGATGACAGAT
1 AAGAT-ACAGAT
21983354 TTTACCTCCC
Statistics
Matches: 72, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
42 15 0.21
43 15 0.21
44 16 0.22
45 25 0.35
46 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (43 bp):
AAGATACAGATCTTGCCTTCCTCATTGACAGCGAAGCAGATCG
Found at i:21983465 original size:44 final size:44
Alignment explanation
Indices: 21983417--21983597 Score: 104
Period size: 44 Copynumber: 4.1 Consensus size: 44
21983407 CTGGACAACG
21983417 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
1 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
** * ** * * * ** *
21983461 GTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-TA
1 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAG-CAGTA
* * * ** **
21983506 GTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGGGCAACA
1 GTGGAATAGATTGAAGATTTCAG--ATCT-TATC-TCCCTAAGCAGTA
21983549 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
1 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
21983593 GTGGA
1 GTGGA
21983598 GCAGATCGAA
Statistics
Matches: 99, Mismatches: 26, Indels: 24
0.66 0.17 0.16
Matches are distributed among these distances:
42 3 0.03
43 19 0.19
44 55 0.56
45 18 0.18
46 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
Found at i:21983846 original size:132 final size:131
Alignment explanation
Indices: 21983333--21983831 Score: 813
Period size: 132 Copynumber: 3.8 Consensus size: 131
21983323 TTGACAGCGA
* * *
21983333 AGCAGATCGAAGATGACAGATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
21983398 TCTACTTCCCTGGACAACGGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
21983463 GG
130 GG
21983465 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
21983530 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
21983595 GG
130 GG
*
21983597 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
21983662 TCTACTTCTCTAGGCAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
21983727 GG
130 GG
* * *
21983729 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTCAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
21983793 TCATA-TCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGG-CAACAGTGGAATAGATTGAAGATT
21983832 GTAAGTCCTA
Statistics
Matches: 346, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
131 5 0.01
132 339 0.98
133 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (131 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
G
Found at i:21984187 original size:19 final size:19
Alignment explanation
Indices: 21984163--21984273 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
21984153 AATCTTCAGG
21984163 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21984182 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
21984201 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21984220 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
21984239 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21984258 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
21984274 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21984213 original size:38 final size:38
Alignment explanation
Indices: 21984170--21984273 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
21984160 AGGGATATGC
21984170 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
21984208 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
21984246 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
21984274 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:21999088 original size:15 final size:16
Alignment explanation
Indices: 21999068--21999097 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21999058 TAGCAACTAA
21999068 TATATAAT-TATATTT
1 TATATAATATATATTT
21999083 TATATAATATATATT
1 TATATAATATATATT
21999098 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:21999759 original size:47 final size:47
Alignment explanation
Indices: 21999707--21999803 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
21999697 GCCCTCCAAC
21999707 TTTAGCCAACGTCACCTTGCTTCCCTTTCATATTATTATTTTTTTCT
1 TTTAGCCAACGTCACCTTGCTTCCCTTTCATATTATTATTTTTTTCT
21999754 TTTAGCCAACGTCACCTTGCTTCCCTTTCATATTATTATTTTTTTCT
1 TTTAGCCAACGTCACCTTGCTTCCCTTTCATATTATTATTTTTTTCT
21999801 TTT
1 TTT
21999804 TGAAGTTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.16, C:0.25, G:0.06, T:0.53
Consensus pattern (47 bp):
TTTAGCCAACGTCACCTTGCTTCCCTTTCATATTATTATTTTTTTCT
Found at i:22007238 original size:16 final size:16
Alignment explanation
Indices: 22007219--22007249 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22007209 CTTAGGTTCA
*
22007219 CAAACAGATAGGCTCG
1 CAAACAAATAGGCTCG
22007235 CAAACAAATAGGCTC
1 CAAACAAATAGGCTC
22007250 TCATACATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.13
Consensus pattern (16 bp):
CAAACAAATAGGCTCG
Found at i:22009013 original size:200 final size:200
Alignment explanation
Indices: 22008670--22009069 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
22008660 CTGTAATGGC
22008670 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
1 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
*
22008735 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAATTTTTCCCCTCAC
66 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAAATTTTCCCCTCAC
22008800 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
131 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
22008865 TCTTT
196 TCTTT
22008870 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
1 ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
22008935 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAAATTTTCCCCTCAC
66 CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAAATTTTCCCCTCAC
22009000 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
131 CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
22009065 TCTTT
196 TCTTT
22009070 CCTTTCCATC
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (200 bp):
ATTACAGCCTGAATCCATTCCAGCTCTATTACAGGAAAAGGTTGAATAGCCATTCTCTTCCTTCA
CTAGTGAATAGCCATTCCATTCCACGGGAGTAATTTTTTTCCCTATTTTAAAATTTTCCCCTCAC
CTTTACCCAGAGAGAATGAAGAAGCTGTAATGGAACCATCATCTTCTCCTTCAGTCTGGTAACTT
TCTTT
Found at i:22011141 original size:23 final size:22
Alignment explanation
Indices: 22011115--22011302 Score: 101
Period size: 23 Copynumber: 8.2 Consensus size: 22
22011105 AGTGTTGCAT
*
22011115 ATTGAAGTATTTAAATGCTGTGA
1 ATTGAAGT-TTTAAATGCTGTAA
* *
22011138 ATTGAAGTGTTAAAGTGCTGCAA
1 ATTGAAGTTTTAAA-TGCTGTAA
*
22011161 ATTGAAGTGTTTAAATGTTGTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
22011184 ATTGAAGTGTTTTAAGTACTGCAA
1 ATTGAA--GTTTTAAATGCTGTAA
** ** *
22011208 ATTGATTTGTTTAGTTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
*
22011231 ATTGAGATGTTTT-ATTGCTGT-A
1 ATTGA-A-GTTTTAAATGCTGTAA
* * *
22011253 ATTGAGGTGTATAAATGTTGTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
22011276 ATTGAAGTGTTTTATTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
22011299 ATTG
1 ATTG
22011303 GATGGTATAA
Statistics
Matches: 125, Mismatches: 30, Indels: 20
0.71 0.17 0.11
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 18 0.14
23 77 0.62
24 23 0.18
25 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.41
Consensus pattern (22 bp):
ATTGAAGTTTTAAATGCTGTAA
Found at i:22011165 original size:46 final size:46
Alignment explanation
Indices: 22011093--22011212 Score: 168
Period size: 46 Copynumber: 2.6 Consensus size: 46
22011083 TTTATCATGT
* * *
22011093 TTGAAGTGTTAAAGTGTTGCATATTGAAGTATTTAAATGCTGTGAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* *
22011139 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* *
22011185 TTGAAGTGTTTTAAGTACTGCAAATTGA
1 TTGAAGTG-TTAAAGTGCTGCAAATTGA
22011213 TTTGTTTAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
46 49 0.74
47 17 0.26
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (46 bp):
TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
Found at i:22011233 original size:47 final size:47
Alignment explanation
Indices: 22011093--22011289 Score: 152
Period size: 46 Copynumber: 4.3 Consensus size: 47
22011083 TTTATCATGT
* ** * * **
22011093 TTGAAGTG-TTAAAGTGTTGCATATTGAAGTATTTAAATGCTGTGAA
1 TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGAAAA
* * * *
22011139 TTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGAAAA
** **
22011185 TTGAAGTGTTTTAAGTACTGCAAATTGATTTGTTTAGTTGCTGAAAA
1 TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGAAAA
* * * * * * *
22011232 TTG-AGATGTTTT-ATTGCTG-TAATTGAGGTGTATAAATGTTGTAAA
1 TTGAAG-TGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGAAAA
22011277 TTGAAGTGTTTTA
1 TTGAAGTGTTTTA
22011290 TTGCTGAAAA
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
45 27 0.22
46 58 0.47
47 39 0.31
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (47 bp):
TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGAAAA
Found at i:22011914 original size:45 final size:44
Alignment explanation
Indices: 22011830--22011925 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
22011820 ATTACAACAT
* *
22011830 CATTCCATTCAACCAAACACAAGAATACTATTATAGTTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
22011874 CATTACATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
22011919 CATTACA
1 CATTACA
22011926 GCTCTATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:22011925 original size:16 final size:16
Alignment explanation
Indices: 22011904--22011975 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
22011894 TTGAATTACT
*
22011904 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
22011920 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
22011936 ATTATAGCTTTATTCA
1 ATTACAGCTCTATTCC
22011952 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
22011968 ATTACAGC
1 ATTACAGC
22011976 GAACCAAACG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:22014274 original size:48 final size:48
Alignment explanation
Indices: 22014191--22014291 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
22014181 GAAGATGCTT
*
22014191 TTTCATCAAATAATAATAATGAAAGTTTCAAAGGTGATTGAAAACGCG
1 TTTCATCAAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
* * * * *
22014239 TTTCATCGAATAATAATAATGAATGCTTCAGAGGTGCTTGAAAACGTG
1 TTTCATCAAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
22014287 TTTCA
1 TTTCA
22014292 GTAGATATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (48 bp):
TTTCATCAAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
Found at i:22020924 original size:14 final size:14
Alignment explanation
Indices: 22020905--22020934 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22020895 ATTCAACAGA
22020905 ACTAAAATGATTAT
1 ACTAAAATGATTAT
*
22020919 ACTAAAGTGATTAT
1 ACTAAAATGATTAT
22020933 AC
1 AC
22020935 ATGCTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (14 bp):
ACTAAAATGATTAT
Found at i:22022601 original size:38 final size:38
Alignment explanation
Indices: 22022559--22022633 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
22022549 CAATACACAA
22022559 CATGTAATTCACTTACCAAAACTTACCAATTGTACATG
1 CATGTAATTCACTTACCAAAACTTACCAATTGTACATG
*
22022597 CATGTAATTCACTTGCCAAAACTTACCAATTGTACAT
1 CATGTAATTCACTTACCAAAACTTACCAATTGTACAT
22022634 CTAATCAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (38 bp):
CATGTAATTCACTTACCAAAACTTACCAATTGTACATG
Found at i:22023553 original size:25 final size:25
Alignment explanation
Indices: 22023419--22023546 Score: 136
Period size: 25 Copynumber: 5.2 Consensus size: 25
22023409 GTACATGTAT
* ** *
22023419 GCTCATACAAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGAGAATCGGTAA
* *
22023444 GCTCTTACGAGCT-ATAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
22023468 GCTCATACGAGCTGAGTAAT-GGTAA
1 GCTCATACGAGCTGAG-AATCGGTAA
* * *
22023493 GCTCATGCGAGTTGA-ATAACGGTAA
1 GCTCATACGAGCTGAGA-ATCGGTAA
22023518 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
22023543 GCTC
1 GCTC
22023547 TCACGAGTTG
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
23 1 0.01
24 21 0.25
25 59 0.69
26 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:22023554 original size:50 final size:50
Alignment explanation
Indices: 22023419--22023558 Score: 162
Period size: 50 Copynumber: 2.8 Consensus size: 50
22023409 GTACATGTAT
* ** * *
22023419 GCTCATACAAGCTCTGAATCGGTATGCTCTTACGAGCT--ATAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTC-TACGAGTTGAATAATCGGTAA
*
22023468 GCTCATACGAGCTGAGTAAT-GGTAAGCTCATGCGAGTTGAATAA-CGGTAA
1 GCTCATACGAGCTGAG-AATCGGTAAGCTC-TACGAGTTGAATAATCGGTAA
22023518 GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGTTGAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTCT-ACGAGTTGAA
22023559 ATTGGTAACC
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
49 31 0.40
50 43 0.55
51 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCGGTAAGCTCTACGAGTTGAATAATCGGTAA
Found at i:22034551 original size:24 final size:25
Alignment explanation
Indices: 22034498--22034551 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
22034488 AACAAATTCT
* *
22034498 TTTTTTCATTTTCATCACTCGTTTC
1 TTTTTTCATTTTAATCACTCGTCTC
22034523 -TTTTTC-TTTTGAATCACTC-TCTC
1 TTTTTTCATTTT-AATCACTCGTCTC
22034546 TTTTTT
1 TTTTTT
22034552 TATCACTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTCATTTTAATCACTCGTCTC
Found at i:22047285 original size:25 final size:25
Alignment explanation
Indices: 22047243--22047337 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
22047233 TATGCTCACA
*
22047243 TGAGCTGTA-AACGGTAAGCTCCTC
1 TGAGCTGAATAACGGTAAGCTCCTC
*
22047267 TAAGCTGAATAACGGTAAGCTCCT-
1 TGAGCTGAATAACGGTAAGCTCCTC
*
22047291 TCGAGCTAAATAACGGTAAGCTCCTC
1 T-GAGCTGAATAACGGTAAGCTCCTC
* * *
22047317 CGAGTTGAATAATGGTAAGCT
1 TGAGCTGAATAACGGTAAGCT
22047338 TACACAAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.13
25 52 0.87
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (25 bp):
TGAGCTGAATAACGGTAAGCTCCTC
Found at i:22057756 original size:15 final size:16
Alignment explanation
Indices: 22057732--22057777 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
22057722 ATATCGATAC
22057732 CCATATCTTTGACTTT
1 CCATATCTTTGACTTT
**
22057748 CCA-ATCTTTGA-TAC
1 CCATATCTTTGACTTT
22057762 CCATATCTTTGACTTT
1 CCATATCTTTGACTTT
22057778 ATTTGATACC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.46
Consensus pattern (16 bp):
CCATATCTTTGACTTT
Found at i:22057761 original size:30 final size:28
Alignment explanation
Indices: 22057727--22057805 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 28
22057717 CTAATATATC
22057727 GATACCCATATCTTTGACTTTCCAATCTTT
1 GATACCCATATCTTTGACTTTCCAA--TTT
22057757 GATACCCATATCTTTGACTTT---ATTT
1 GATACCCATATCTTTGACTTTCCAATTT
22057782 GATACCCATATCTTTGACTTTCCA
1 GATACCCATATCTTTGACTTTCCA
22057806 TAAATATGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
25 24 0.52
27 1 0.02
30 21 0.46
ACGTcount: A:0.24, C:0.25, G:0.08, T:0.43
Consensus pattern (28 bp):
GATACCCATATCTTTGACTTTCCAATTT
Found at i:22062438 original size:30 final size:31
Alignment explanation
Indices: 22062389--22062448 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
22062379 TTTCTTATGT
22062389 CAATATCTCGATACCCATATCTTTGACTTTC
1 CAATATCTCGATACCCATATCTTTGACTTTC
* *
22062420 CAATAT-TTGATACTCATATCTTTGACTTT
1 CAATATCTCGATACCCATATCTTTGACTTT
22062449 ATTTGATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (31 bp):
CAATATCTCGATACCCATATCTTTGACTTTC
Found at i:22062451 original size:25 final size:25
Alignment explanation
Indices: 22062423--22062473 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
22062413 GACTTTCCAA
22062423 TATTTGATA-CTCATATCTTTGACTT
1 TATTTGATACCT-ATATCTTTGACTT
22062448 TATTTGATACCTATATCTTTGACTT
1 TATTTGATACCTATATCTTTGACTT
22062473 T
1 T
22062474 TCATAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.53
Consensus pattern (25 bp):
TATTTGATACCTATATCTTTGACTT
Found at i:22063133 original size:139 final size:139
Alignment explanation
Indices: 22062973--22063277 Score: 494
Period size: 137 Copynumber: 2.2 Consensus size: 139
22062963 TTATTAATAT
* *
22062973 ATAC-AAAATATTAATTGTATATATTTTA-TTGAATTTATTAACATAAACAGTTATATTATTTAA
1 ATACGAAAATATTAATTGTATATATTTTACCT-AATTTATTAACATAAACAGTTATATTAATTAA
* *
22063036 TTTCGGTCA-AA-ATATAAGACATGAAAATTAATATTTTTTTAGAAAGAATATAATTAATATATG
65 TTTCGGTCAGAATATAAAAGACATGAAAATTAATATTCTTTTAGAAAGAATATAATTAATATATG
22063099 AATTTGATTC
130 AATTTGATTC
*
22063109 ATACGAAAATATTAATTGTATATATTTTACCTAATTTATTAATATAAACAGTTATATTAATTAAT
1 ATACGAAAATATTAATTGTATATATTTTACCTAATTTATTAACATAAACAGTTATATTAATTAAT
* *
22063174 TTCGGTCAGAATATAAAAGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAATATATGA
66 TTCGGTCAGAATATAAAAGACATGAAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGA
22063239 ATTTGATTC
131 ATTTGATTC
*
22063248 ATACG-AAATATTATTTGTATATATTTTACC
1 ATACGAAAATATTAATTGTATATATTTTACC
22063278 AGGAAATTAA
Statistics
Matches: 157, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
136 4 0.03
137 63 0.40
138 27 0.17
139 63 0.40
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.42
Consensus pattern (139 bp):
ATACGAAAATATTAATTGTATATATTTTACCTAATTTATTAACATAAACAGTTATATTAATTAAT
TTCGGTCAGAATATAAAAGACATGAAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGA
ATTTGATTC
Found at i:22063353 original size:82 final size:82
Alignment explanation
Indices: 22063199--22063359 Score: 279
Period size: 82 Copynumber: 2.0 Consensus size: 82
22063189 AAAGACATGA
* *
22063199 AAATTAATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAAATATTATTT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACGAAATATTAATT
22063264 GTATATATTTTACCAGG
66 GTATATATTTTACCAGG
*
22063281 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATAC-AAATTATTAAT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACGAAA-TATTAAT
22063345 TGTATATATTTTACC
65 TGTATATATTTTACC
22063360 GAATTTAGTA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
81 3 0.04
82 72 0.96
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (82 bp):
AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACGAAATATTAATT
GTATATATTTTACCAGG
Found at i:22063443 original size:220 final size:220
Alignment explanation
Indices: 22063060--22063669 Score: 1058
Period size: 220 Copynumber: 2.8 Consensus size: 220
22063050 TAAGACATGA
* * * *
22063060 AAATTAATATTTTTTTAGAAAGAATATAATTAATATATGAATTTGATTCATACGAAAATATTAAT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATAC-AAATTATTAAT
* * *
22063125 TGTATATATTTTACCTAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAGAATATAA
65 TGTATATATTTTACCGAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAA
* *
22063190 AAGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACGAA
130 AAGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAA
22063255 ATATTATTTGTATATATTTTACCAGG
195 ATATTATTTGTATATATTTTACCAGG
22063281 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
22063346 GTATATATTTTACCGAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
66 GTATATATTTTACCGAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
*
22063411 AGACATTAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAA
131 AGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAA
* *
22063476 TATTATTTGTATGTATTTTACCGGG
196 TATTATTTGTATATATTTTACCAGG
22063501 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
* * *
22063566 GTATATATTTTACCGAATTTAGTAATATAAATAGTTATATTAATTAATTTTGGTTAAAATATAAA
66 GTATATATTTTACCGAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
* *
22063631 AGACATGGAAATTAATATTCTTTTGGAAAGAATATAATT
131 AGACATGAAAATTAATATTCTTTTGGAAATAATATAATT
22063670 TATTTTTCTA
Statistics
Matches: 371, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
220 321 0.87
221 50 0.13
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.42
Consensus pattern (220 bp):
AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
GTATATATTTTACCGAATTTAGTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAA
AGACATGAAAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAA
TATTATTTGTATATATTTTACCAGG
Found at i:22063556 original size:82 final size:82
Alignment explanation
Indices: 22063419--22063580 Score: 270
Period size: 82 Copynumber: 2.0 Consensus size: 82
22063409 AAAGACATTA
* *
22063419 AAATTAATATTCTTTTGGAAATAATATAATTAAGATATGAATTTGATTCATACAAAATATTATTT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAAGATATGAATTTGATTCATACAAAATATTAATT
*
22063484 GTATGTATTTTACCGGG
66 GTATATATTTTACCGGG
* * *
22063501 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAAGATATGAATTTGATTCATACAAAATATTAATT
22063566 GTATATATTTTACCG
66 GTATATATTTTACCG
22063581 AATTTAGTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (82 bp):
AAATTAATATTCTTTTGGAAAGAATATAATTAAGATATGAATTTGATTCATACAAAATATTAATT
GTATATATTTTACCGGG
Found at i:22067711 original size:101 final size:101
Alignment explanation
Indices: 22067536--22067742 Score: 351
Period size: 101 Copynumber: 2.0 Consensus size: 101
22067526 AAAGTCCATA
* * **
22067536 AAATTTAATAAAAAATCATTTAAACCATATTGTGAGAGTATGATCAATTTGTGTTCCCGAACACC
1 AAATTTAACAAAAAATCATTTAAACCATATTATGAGAGTATGATCAATCCGTGTTCCCGAACACC
22067601 GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
66 GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
*
22067637 AAATTTAACAAAAAATCATTTAAACCATATTATGATAGTATGATCAATCCGTGTTCCCGAACACC
1 AAATTTAACAAAAAATCATTTAAACCATATTATGAGAGTATGATCAATCCGTGTTCCCGAACACC
* *
22067702 GCCCCAATCCTAAGTCCATGATTTACCTGAAATGAT
66 GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
22067738 AAATT
1 AAATT
22067743 AGTATGGTGA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (101 bp):
AAATTTAACAAAAAATCATTTAAACCATATTATGAGAGTATGATCAATCCGTGTTCCCGAACACC
GCCCCAATCCTAAGTCCACGAATTACCTGAAATGAT
Found at i:22070959 original size:70 final size:70
Alignment explanation
Indices: 22070845--22070985 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 70
22070835 AAGTTTCATT
*
22070845 AAAATTTATGAAGTGGTTTTAAAGTATTATATTTTTTTGGTAAATAATATCTCACTGAAATTTAT
1 AAAATTTATGAAGTGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTAT
22070910 ACGCC
66 ACGCC
22070915 AAAATTTATGGAA-TGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
1 AAAATTTAT-GAAGTGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
22070979 TACGCC
65 TACGCC
22070985 A
1 A
22070986 TTTAACTTAT
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 66 0.96
71 3 0.04
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (70 bp):
AAAATTTATGAAGTGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTAT
ACGCC
Found at i:22073692 original size:37 final size:37
Alignment explanation
Indices: 22073642--22073717 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
22073632 CTGAGAAAAG
22073642 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
1 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
22073679 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
1 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
22073716 TA
1 TA
22073718 AAGTAGATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.49
Consensus pattern (37 bp):
TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
Found at i:22075192 original size:9 final size:9
Alignment explanation
Indices: 22075179--22075220 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
22075169 TTTATTCAAG
22075179 TTATTATAA
1 TTATTATAA
*
22075188 ATATTAT-A
1 TTATTATAA
22075196 TCTA-TATAA
1 T-TATTATAA
22075205 TTATTATAA
1 TTATTATAA
22075214 TTATTAT
1 TTATTAT
22075221 TATTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATTATAA
Found at i:22075231 original size:26 final size:25
Alignment explanation
Indices: 22075169--22075232 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
22075159 AATCCAAGAT
22075169 TTTATTCAAGTTATTATAAATATTATA
1 TTTATT-AA-TTATTATAAATATTATA
* *
22075196 TCTATATAATTATTATAATTATTATTA
1 TTTAT-TAATTATTATAAATATTA-TA
22075223 TTTATTAATT
1 TTTATTAATT
22075233 GTAATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 19 0.59
27 12 0.38
28 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTATTAATTATTATAAATATTATA
Found at i:22075244 original size:16 final size:17
Alignment explanation
Indices: 22075181--22075262 Score: 61
Period size: 17 Copynumber: 5.0 Consensus size: 17
22075171 TATTCAAGTT
22075181 ATTATAAATATTATATCT-
1 ATTAT-AATATTATAT-TA
22075199 A-TATAATTATTATAATT-
1 ATTATAA-TATTAT-ATTA
22075216 ATTAT--TATT-TATTA
1 ATTATAATATTATATTA
*
22075230 ATTGTAAT-TTATATTA
1 ATTATAATATTATATTA
*
22075246 ATTATATTATTATATTA
1 ATTATAATATTATATTA
22075263 TGGAATAAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
13 3 0.06
14 5 0.09
15 6 0.11
16 14 0.26
17 19 0.36
18 6 0.11
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
ATTATAATATTATATTA
Found at i:22076440 original size:3 final size:3
Alignment explanation
Indices: 22076432--22076466 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22076422 GTGAGGTAAG
22076432 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22076467 GTGAGAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22076632 original size:23 final size:22
Alignment explanation
Indices: 22076606--22076671 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
22076596 TGTGAATTTG
* *
22076606 TGGATTAATTATTGATTGAAAGC
1 TGGATAAATTATTGATTGAAA-A
* *
22076629 TGGAAAAATGATTGAATTGAAAA
1 TGGATAAATTATTG-ATTGAAAA
22076652 TGTGATAAATTA-TGATTGAA
1 TG-GATAAATTATTGATTGAA
22076672 TTGGAGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.17
23 15 0.43
24 14 0.40
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (22 bp):
TGGATAAATTATTGATTGAAAA
Found at i:22076869 original size:37 final size:38
Alignment explanation
Indices: 22076819--22076909 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 38
22076809 CGGATAGTTT
* * *
22076819 CGATGAGGTACTGGGTACCAACTTT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTACCAACTTTGCTTCGAACTAT-C
* **
22076856 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTTTGCTTCGAACTATC
22076894 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
22076910 GCCATTCTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 21 0.47
38 21 0.47
39 3 0.07
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGATGAGGCACTGGGTACCAACTTTGCTTCGAACTATC
Found at i:22076886 original size:38 final size:37
Alignment explanation
Indices: 22076819--22076913 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 37
22076809 CGGATAGTTT
* * * *
22076819 CGATGAGGTACTGGGTACCAACTTTCTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTTTCTTCGAACTAT-C
* *
22076856 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTTT-CTTCGAACTATC
22076894 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
22076914 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
37 21 0.44
38 24 0.50
39 3 0.06
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (37 bp):
CGATGAGGCACTGGGTGCCAACTTTCTTCGAACTATC
Found at i:22080430 original size:20 final size:20
Alignment explanation
Indices: 22080390--22080433 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
22080380 GACGTGTTAC
* *
22080390 AATGAAAAAGAAGAGAAAAA
1 AATGAAAAAGAAAACAAAAA
*
22080410 AATGAAAAAGAAAACAGAAA
1 AATGAAAAAGAAAACAAAAA
22080430 AATG
1 AATG
22080434 GAGAGAGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (20 bp):
AATGAAAAAGAAAACAAAAA
Found at i:22084397 original size:32 final size:32
Alignment explanation
Indices: 22084356--22084416 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
22084346 CAAATCACAC
22084356 TTCCTTTGCTTTTGCTTTTGTTTTTAGCTAAA
1 TTCCTTTGCTTTTGCTTTTGTTTTTAGCTAAA
22084388 TTCCTTTGCTTTTGCTTTTGTTTTTAGCT
1 TTCCTTTGCTTTTGCTTTTGTTTTTAGCT
22084417 TTTAGATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.08, C:0.16, G:0.13, T:0.62
Consensus pattern (32 bp):
TTCCTTTGCTTTTGCTTTTGTTTTTAGCTAAA
Found at i:22085680 original size:28 final size:27
Alignment explanation
Indices: 22085627--22085681 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
22085617 GTTCGACATC
*
22085627 AAAAGATATTTTTAATTAAAATTAAAT
1 AAAAGATATTTTTAATTAAAAGTAAAT
22085654 AAAA-ATATTTTTAAATTAAAAAGTAAAT
1 AAAAGATATTTTT-AATT-AAAAGTAAAT
22085682 CCAAGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
27 8 0.32
28 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAAGATATTTTTAATTAAAAGTAAAT
Found at i:22087822 original size:16 final size:15
Alignment explanation
Indices: 22087799--22087832 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22087789 CCCTAAGTGT
*
22087799 TGAAAATTTAAGTAC
1 TGAAAAATTAAGTAC
*
22087814 TGAAAAATTAAGTAT
1 TGAAAAATTAAGTAC
22087829 TGAA
1 TGAA
22087833 TTTAAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (15 bp):
TGAAAAATTAAGTAC
Found at i:22092642 original size:41 final size:41
Alignment explanation
Indices: 22092583--22092661 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
22092573 GCCAGATGAC
* * *
22092583 TGTGTGCCAAACCGTGTGAGCCATAAGGGCGTGTGTCTGGT
1 TGTGTGCCAAACCATGTGAGACACAAGGGCGTGTGTCTGGT
* * *
22092624 TGTGTGTCAGACCATGTGAGACACACGGGCGTGTGTCT
1 TGTGTGCCAAACCATGTGAGACACAAGGGCGTGTGTCT
22092662 AGCTGCATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.27
Consensus pattern (41 bp):
TGTGTGCCAAACCATGTGAGACACAAGGGCGTGTGTCTGGT
Found at i:22092680 original size:41 final size:41
Alignment explanation
Indices: 22092609--22092692 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
22092599 TGAGCCATAA
* * **
22092609 GGGCGTGTGTCTGGTTGTGTGTCAGACCATGTGAGACACAC
1 GGGCGTGTGTCTAGCTGCATGTCAGACCATGTGAGACACAC
* *
22092650 GGGCGTGTGTCTAGCTGCATGTCTAG-CCATGTGGGCCACAC
1 GGGCGTGTGTCTAGCTGCATGTC-AGACCATGTGAGACACAC
22092691 GG
1 GG
22092693 TCTAGACAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 34 0.94
42 2 0.06
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.25
Consensus pattern (41 bp):
GGGCGTGTGTCTAGCTGCATGTCAGACCATGTGAGACACAC
Found at i:22097826 original size:884 final size:884
Alignment explanation
Indices: 22096118--22097888 Score: 3533
Period size: 884 Copynumber: 2.0 Consensus size: 884
22096108 ATTTAAAATC
22096118 AGTAGCATACTTATCGAACACATGTAAGGTATGCCTTCTTAATTCAATTTCTAATGTTTCTACTT
1 AGTAGCATACTTATCGAACACATGTAAGGTATGCCTTCTTAATTCAATTTCTAATGTTTCTACTT
22096183 TTCTTGCCTTGTAGAACTTGTGGAGAATTATCAATGTTCAACATACCTCTCTCCCACAAGTAAAA
66 TTCTTGCCTTGTAGAACTTGTGGAGAATTATCAATGTTCAACATACCTCTCTCCCACAAGTAAAA
22096248 TTATCTATCGGTGGTAGAGTAATGTAATTGGAAGTCCATCAATGGATCCTTGAAATCTTGTAACA
131 TTATCTATCGGTGGTAGAGTAATGTAATTGGAAGTCCATCAATGGATCCTTGAAATCTTGTAACA
22096313 AGGAAACACCACTACACAGATTCGAATTATGGTTAGTTAAAACATAATCATTCCTTACTTTTTCA
196 AGGAAACACCACTACACAGATTCGAATTATGGTTAGTTAAAACATAATCATTCCTTACTTTTTCA
22096378 TGAATATTTTCTTGTTTTTCATTTTCTTTTCCCATTTGAGAACTCTCCAATTTTACCTCATATGT
261 TGAATATTTTCTTGTTTTTCATTTTCTTTTCCCATTTGAGAACTCTCCAATTTTACCTCATATGT
22096443 ATTTTCACTCACCAAAAGAGGACCATCAAGTAGATTTTTATCACTCAAGGTCTCTTTTCTCTCTA
326 ATTTTCACTCACCAAAAGAGGACCATCAAGTAGATTTTTATCACTCAAGGTCTCTTTTCTCTCTA
22096508 TCTTTTCAATTTTTTCTTCTTTACTTTCCTTTTCCCCCATACAAGTATTATGAATATTGAATTTA
391 TCTTTTCAATTTTTTCTTCTTTACTTTCCTTTTCCCCCATACAAGTATTATGAATATTGAATTTA
22096573 GTACAATACATCTCAGTAAAAGGACATGGCATTTCTATCTCATCTAACTCCATAAATTCAAGGAA
456 GTACAATACATCTCAGTAAAAGGACATGGCATTTCTATCTCATCTAACTCCATAAATTCAAGGAA
22096638 AAAAATTCCCACTATCATCTTTTTCCGGTTCACAATGTTCACTATCACAAATCTCTTTTCCGTTA
521 AAAAATTCCCACTATCATCTTTTTCCGGTTCACAATGTTCACTATCACAAATCTCTTTTCCGTTA
22096703 GAGTAAAAGTCAACAAAAGGTACAAAGTCATACTTACTTTCTTCTCTAGTTGGATATTTAATTGA
586 GAGTAAAAGTCAACAAAAGGTACAAAGTCATACTTACTTTCTTCTCTAGTTGGATATTTAATTGA
22096768 GCATTGAAAACCCTTATGATCCTTTGAGCTACACCAATAACATTGCACAAAAGGTGATAACTCAA
651 GCATTGAAAACCCTTATGATCCTTTGAGCTACACCAATAACATTGCACAAAAGGTGATAACTCAA
22096833 TCATATTCTCTCTATTTGGATATTTAATTAAACATCAAAAACCCTCATGATTTGTTGAACTACAC
716 TCATATTCTCTCTATTTGGATATTTAATTAAACATCAAAAACCCTCATGATTTGTTGAACTACAC
22096898 CAATAATATTTCACAACATGTGAGAGATCAGTTGTACTCCTTTCATTTGATCATCTCTCCTTGAA
781 CAATAATATTTCACAACATGTGAGAGATCAGTTGTACTCCTTTCATTTGATCATCTCTCCTTGAA
22096963 CTGACAAACTAATTTATGGTCACCTTTCCCATCATAGTA
846 CTGACAAACTAATTTATGGTCACCTTTCCCATCATAGTA
22097002 AGTAGCATACTTATCGAACACATGTAAGGTATGCCTTCTTAATTCAATTTCTAATGTTTCTACTT
1 AGTAGCATACTTATCGAACACATGTAAGGTATGCCTTCTTAATTCAATTTCTAATGTTTCTACTT
22097067 TTCTTGCCTTGTAGAACTTGTGGAGAATTATCAATGTTCAACATACCTCTCTCCCACAAGTAAAA
66 TTCTTGCCTTGTAGAACTTGTGGAGAATTATCAATGTTCAACATACCTCTCTCCCACAAGTAAAA
22097132 TTATCTATCGGTGGTAGAGTAATGTAATTGGAAGTCCATCAATGGATCCTTGAAATCTTGTAACA
131 TTATCTATCGGTGGTAGAGTAATGTAATTGGAAGTCCATCAATGGATCCTTGAAATCTTGTAACA
22097197 AGGAAACACCACTACACAGATTCGAATTATGGTTAGTTAAAACATAATCATTCCTTACTTTTTCA
196 AGGAAACACCACTACACAGATTCGAATTATGGTTAGTTAAAACATAATCATTCCTTACTTTTTCA
22097262 TGAATATTTTCTTGTTTTTCATTTTCTTTTCCCATTTGAGAACTCTCCAATTTTACCTCATATGT
261 TGAATATTTTCTTGTTTTTCATTTTCTTTTCCCATTTGAGAACTCTCCAATTTTACCTCATATGT
22097327 ATTTTCACTCACCAAAAGAGGACCATCAAGTAGATTTTTATCACTCAAGGTCTCTTTTCTCTCTA
326 ATTTTCACTCACCAAAAGAGGACCATCAAGTAGATTTTTATCACTCAAGGTCTCTTTTCTCTCTA
22097392 TCTTTTCAATTTTTTCTTCTTTACTTTCCTTTTCCCCCATACAAGTATTATGAATATTGAATTTA
391 TCTTTTCAATTTTTTCTTCTTTACTTTCCTTTTCCCCCATACAAGTATTATGAATATTGAATTTA
*
22097457 GTACAATACATCTCAGTAGAAGGACATGGCATTTCTATCTCATCTAACTCCATAAATTCAAGGAA
456 GTACAATACATCTCAGTAAAAGGACATGGCATTTCTATCTCATCTAACTCCATAAATTCAAGGAA
22097522 AAAAATTCCCACTATCATCTTTTTCCGGTTCACAATGTTCACTATCACAAATCTCTTTTCCGTTA
521 AAAAATTCCCACTATCATCTTTTTCCGGTTCACAATGTTCACTATCACAAATCTCTTTTCCGTTA
22097587 GAGTAAAAGTCAACAAAAGGTACAAAGTCATACTTACTTTCTTCTCTAGTTGGATATTTAATTGA
586 GAGTAAAAGTCAACAAAAGGTACAAAGTCATACTTACTTTCTTCTCTAGTTGGATATTTAATTGA
22097652 GCATTGAAAACCCTTATGATCCTTTGAGCTACACCAATAACATTGCACAAAAGGTGATAACTCAA
651 GCATTGAAAACCCTTATGATCCTTTGAGCTACACCAATAACATTGCACAAAAGGTGATAACTCAA
22097717 TCATATTCTCTCTATTTGGATATTTAATTAAACATCAAAAACCCTCATGATTTGTTGAACTACAC
716 TCATATTCTCTCTATTTGGATATTTAATTAAACATCAAAAACCCTCATGATTTGTTGAACTACAC
22097782 CAATAATATTTCACAACATGTGAGAGATCAGTTGTACTCCTTTCATTTGATCATCTCTCCTTGAA
781 CAATAATATTTCACAACATGTGAGAGATCAGTTGTACTCCTTTCATTTGATCATCTCTCCTTGAA
22097847 CTGACAAACTAATTTATGGTCACCTTTCCCATCATAGTA
846 CTGACAAACTAATTTATGGTCACCTTTCCCATCATAGTA
22097886 AGT
1 AGT
22097889 CTCTTGATCA
Statistics
Matches: 886, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
884 886 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (884 bp):
AGTAGCATACTTATCGAACACATGTAAGGTATGCCTTCTTAATTCAATTTCTAATGTTTCTACTT
TTCTTGCCTTGTAGAACTTGTGGAGAATTATCAATGTTCAACATACCTCTCTCCCACAAGTAAAA
TTATCTATCGGTGGTAGAGTAATGTAATTGGAAGTCCATCAATGGATCCTTGAAATCTTGTAACA
AGGAAACACCACTACACAGATTCGAATTATGGTTAGTTAAAACATAATCATTCCTTACTTTTTCA
TGAATATTTTCTTGTTTTTCATTTTCTTTTCCCATTTGAGAACTCTCCAATTTTACCTCATATGT
ATTTTCACTCACCAAAAGAGGACCATCAAGTAGATTTTTATCACTCAAGGTCTCTTTTCTCTCTA
TCTTTTCAATTTTTTCTTCTTTACTTTCCTTTTCCCCCATACAAGTATTATGAATATTGAATTTA
GTACAATACATCTCAGTAAAAGGACATGGCATTTCTATCTCATCTAACTCCATAAATTCAAGGAA
AAAAATTCCCACTATCATCTTTTTCCGGTTCACAATGTTCACTATCACAAATCTCTTTTCCGTTA
GAGTAAAAGTCAACAAAAGGTACAAAGTCATACTTACTTTCTTCTCTAGTTGGATATTTAATTGA
GCATTGAAAACCCTTATGATCCTTTGAGCTACACCAATAACATTGCACAAAAGGTGATAACTCAA
TCATATTCTCTCTATTTGGATATTTAATTAAACATCAAAAACCCTCATGATTTGTTGAACTACAC
CAATAATATTTCACAACATGTGAGAGATCAGTTGTACTCCTTTCATTTGATCATCTCTCCTTGAA
CTGACAAACTAATTTATGGTCACCTTTCCCATCATAGTA
Done.