Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002538.1 Hibiscus syriacus cultivar Beakdansim tig00005154_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 352938
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 2 of 2
Found at i:223854 original size:102 final size:102
Alignment explanation
Indices: 223664--223874 Score: 359
Period size: 102 Copynumber: 2.1 Consensus size: 102
223654 TAATTTCCAT
* * *
223664 AAGGACCACATATTATTCCTTAAAAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGA-CACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
223729 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
223767 AAGGACATATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAG
1 AAGGACACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAG
223832 ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
223869 AAGGAC
1 AAGGAC
223875 CGCGTAGACC
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
102 97 0.95
103 5 0.05
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (102 bp):
AAGGACACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAG
ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:228823 original size:23 final size:23
Alignment explanation
Indices: 228792--228857 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
228782 TACACATGTG
*
228792 AGAACTGCATCGAAGTGCCACGT
1 AGAATTGCATCGAAGTGCCACGT
* *
228815 AGAATTGCATCGGAGTGCCGCGT
1 AGAATTGCATCGAAGTGCCACGT
* *
228838 AGAATTGCACCGTAGTGCCA
1 AGAATTGCATCGAAGTGCCA
228858 TATAATAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (23 bp):
AGAATTGCATCGAAGTGCCACGT
Found at i:229066 original size:103 final size:103
Alignment explanation
Indices: 228882--229074 Score: 323
Period size: 103 Copynumber: 1.9 Consensus size: 103
228872 TAAGGACCGC
* * * *
228882 ATATTATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACCAGACTTCACA
1 ATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACA
* *
228947 TATGTTTCAAAGAATACATATATATCCCGAATGACCAT
66 CATGTTCCAAAGAATACATATATATCCCGAATGACCAT
*
228985 ATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACA
1 ATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACA
229050 CATGTTCCAAAGAATACATATATAT
66 CATGTTCCAAAGAATACATATATAT
229075 GTCCCGAAGG
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (103 bp):
ATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACA
CATGTTCCAAAGAATACATATATATCCCGAATGACCAT
Found at i:230778 original size:7 final size:8
Alignment explanation
Indices: 230757--230786 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
230747 AAGATTTCAT
230757 TCAAAAAC
1 TCAAAAAC
230765 TCAAAAAC
1 TCAAAAAC
230773 TCAAAAAC
1 TCAAAAAC
230781 TCAAAA
1 TCAAAA
230787 TCTTTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAC
Found at i:234683 original size:31 final size:31
Alignment explanation
Indices: 234607--234683 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
234597 ACATGGCACT
* *
234607 AATTTGA-CCTTAAAATTTAGAAGAAATGTC
1 AATTTGACCCCTAAAATTTAGAAGAAATATC
* *
234637 ATTTTGACCCCCTAAACTTTAGATA-AAATATC
1 AATTTGA-CCCCTAAAATTTAGA-AGAAATATC
234669 AATTTGACCCCTAAA
1 AATTTGACCCCTAAA
234684 TTCAGGGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.15
31 8 0.21
32 24 0.62
33 1 0.03
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (31 bp):
AATTTGACCCCTAAAATTTAGAAGAAATATC
Found at i:244838 original size:21 final size:21
Alignment explanation
Indices: 244796--244835 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
244786 ATAATCACAT
244796 AAAACTATAATGTAATATTTA
1 AAAACTATAATGTAATATTTA
*
244817 AAAAC-ATAATTTAATATTT
1 AAAACTATAATGTAATATTT
244836 TAATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAACTATAATGTAATATTTA
Found at i:247130 original size:29 final size:29
Alignment explanation
Indices: 247081--247169 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
247071 ATTAGTGACT
* * *
247081 AAAGAATGAGACCATACTTGTAAAGATTA
1 AAAGAATGGGACCCTAATTGTAAAGATTA
*
247110 AAAGAGT-GGAGCCCTAATTGTAAAGATTA
1 AAAGAATGGGA-CCCTAATTGTAAAGATTA
* * *
247139 AAAGAATGGGACCCTAAATATAAATATTA
1 AAAGAATGGGACCCTAATTGTAAAGATTA
247168 AA
1 AA
247170 GGAGCGGGGC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.04
29 45 0.90
30 3 0.06
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.24
Consensus pattern (29 bp):
AAAGAATGGGACCCTAATTGTAAAGATTA
Found at i:253182 original size:6 final size:6
Alignment explanation
Indices: 253171--253197 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
253161 TTGGTTCTAT
253171 AATTGC AATTGC AATTGC AATTGC AAT
1 AATTGC AATTGC AATTGC AATTGC AAT
253198 ATATATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (6 bp):
AATTGC
Found at i:264125 original size:326 final size:326
Alignment explanation
Indices: 263532--264187 Score: 1285
Period size: 326 Copynumber: 2.0 Consensus size: 326
263522 TTGTCATCAA
263532 GTAACAATTGATGATGACATGATGTAGTTGTTTATCAAATAATAATTCTTGTACTTTAATTTGTT
1 GTAACAATTGATGATGACATGATGTAGTTGTTTATCAAATAATAATTCTTGTACTTTAATTTGTT
263597 TTTGCTTAAAGTTAATGTCATTCGATAACCACTGATGAACAGTAAAAACGATACAAGAAAATGAG
66 TTTGCTTAAAGTTAATGTCATTCGATAACCACTGATGAACAGTAAAAACGATACAAGAAAATGAG
*
263662 ATTGAACGTTGGCGTTATATGTGATTATAATAAAAGATATAATAAATGACAAACTGAAGAAAGTT
131 ATTGAACGTTGGCATTATATGTGATTATAATAAAAGATATAATAAATGACAAACTGAAGAAAGTT
263727 TGAGAACACAATTATTAAATTTTATCAAACTATTAACAATTTGATATTTGAACATAATTTTAAAT
196 TGAGAACACAATTATTAAATTTTATCAAACTATTAACAATTTGATATTTGAACATAATTTTAAAT
263792 ACAACAAACTTACATAAAGTATTAAATGGTAAATGATAACCAAATAACAATAACTGATTTTAAAT
261 ACAACAAACTTACATAAAGTATTAAATGGTAAATGATAACCAAATAACAATAACTGATTTTAAAT
*
263857 T
326 G
*
263858 GTAACAATTGATGATGGCATGATGTAGTTGTTTATCAAATAATAATTCTTGTACTTTAATTTGTT
1 GTAACAATTGATGATGACATGATGTAGTTGTTTATCAAATAATAATTCTTGTACTTTAATTTGTT
263923 TTTGCTTAAAGTTAATGTCATTCGATAACCACTGATGAACAGTAAAAACGATACAAGAAAATGAG
66 TTTGCTTAAAGTTAATGTCATTCGATAACCACTGATGAACAGTAAAAACGATACAAGAAAATGAG
263988 ATTGAACGTTGGCATTATATGTGATTATAATAAAAGATATAATAAATGACAAACTGAAGAAAGTT
131 ATTGAACGTTGGCATTATATGTGATTATAATAAAAGATATAATAAATGACAAACTGAAGAAAGTT
264053 TGAGAACACAATTATTAAATTTTATCAAACTATTAACAATTTGATATTTGAACATAATTTTAAAT
196 TGAGAACACAATTATTAAATTTTATCAAACTATTAACAATTTGATATTTGAACATAATTTTAAAT
264118 ACAACAAACTTACATAAAGTATTAAATGGTAAATGATAACCAAATAACAATAACTGATTTTAAAT
261 ACAACAAACTTACATAAAGTATTAAATGGTAAATGATAACCAAATAACAATAACTGATTTTAAAT
264183 G
326 G
264184 GTAA
1 GTAA
264188 TAAACAAAAA
Statistics
Matches: 327, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
326 327 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (326 bp):
GTAACAATTGATGATGACATGATGTAGTTGTTTATCAAATAATAATTCTTGTACTTTAATTTGTT
TTTGCTTAAAGTTAATGTCATTCGATAACCACTGATGAACAGTAAAAACGATACAAGAAAATGAG
ATTGAACGTTGGCATTATATGTGATTATAATAAAAGATATAATAAATGACAAACTGAAGAAAGTT
TGAGAACACAATTATTAAATTTTATCAAACTATTAACAATTTGATATTTGAACATAATTTTAAAT
ACAACAAACTTACATAAAGTATTAAATGGTAAATGATAACCAAATAACAATAACTGATTTTAAAT
G
Found at i:264691 original size:21 final size:21
Alignment explanation
Indices: 264667--264710 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
264657 TGAGCTGCGG
264667 CCATAAGTGATGAGGCTACAC
1 CCATAAGTGATGAGGCTACAC
*
264688 CCATAGGTGATGAGGCTACAC
1 CCATAAGTGATGAGGCTACAC
264709 CC
1 CC
264711 GCTGATGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (21 bp):
CCATAAGTGATGAGGCTACAC
Found at i:264718 original size:18 final size:19
Alignment explanation
Indices: 264674--264718 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
264664 CGGCCATAAG
*
264674 TGATGAGGCTACACCCATAGG
1 TGATGAGGCTACACCC--AGC
264695 TGATGAGGCTACACCC-GC
1 TGATGAGGCTACACCCAGC
264713 TGATGA
1 TGATGA
264719 CGATGAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
21 16 0.70
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (19 bp):
TGATGAGGCTACACCCAGC
Found at i:264842 original size:189 final size:189
Alignment explanation
Indices: 264522--264902 Score: 762
Period size: 189 Copynumber: 2.0 Consensus size: 189
264512 TTGAGGAGGA
264522 GCTGATGACGATGAAGCACCTCCATAGAATAAGGACCCTGGAGGTGTATGACTGACTATCCCACC
1 GCTGATGACGATGAAGCACCTCCATAGAATAAGGACCCTGGAGGTGTATGACTGACTATCCCACC
264587 AGCCAGCGAAAACTGGGAAAACTCATAAAACCCAGACATCGCCGAGTGTGAAAACTGTACAGGAG
66 AGCCAGCGAAAACTGGGAAAACTCATAAAACCCAGACATCGCCGAGTGTGAAAACTGTACAGGAG
264652 GTGTCTGAGCTGCGGCCATAAGTGATGAGGCTACACCCATAGGTGATGAGGCTACACCC
131 GTGTCTGAGCTGCGGCCATAAGTGATGAGGCTACACCCATAGGTGATGAGGCTACACCC
264711 GCTGATGACGATGAAGCACCTCCATAGAATAAGGACCCTGGAGGTGTATGACTGACTATCCCACC
1 GCTGATGACGATGAAGCACCTCCATAGAATAAGGACCCTGGAGGTGTATGACTGACTATCCCACC
264776 AGCCAGCGAAAACTGGGAAAACTCATAAAACCCAGACATCGCCGAGTGTGAAAACTGTACAGGAG
66 AGCCAGCGAAAACTGGGAAAACTCATAAAACCCAGACATCGCCGAGTGTGAAAACTGTACAGGAG
264841 GTGTCTGAGCTGCGGCCATAAGTGATGAGGCTACACCCATAGGTGATGAGGCTACACCC
131 GTGTCTGAGCTGCGGCCATAAGTGATGAGGCTACACCCATAGGTGATGAGGCTACACCC
264900 GCT
1 GCT
264903 AAATATCTAT
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 192 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.18
Consensus pattern (189 bp):
GCTGATGACGATGAAGCACCTCCATAGAATAAGGACCCTGGAGGTGTATGACTGACTATCCCACC
AGCCAGCGAAAACTGGGAAAACTCATAAAACCCAGACATCGCCGAGTGTGAAAACTGTACAGGAG
GTGTCTGAGCTGCGGCCATAAGTGATGAGGCTACACCCATAGGTGATGAGGCTACACCC
Found at i:264880 original size:21 final size:21
Alignment explanation
Indices: 264856--264899 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
264846 TGAGCTGCGG
264856 CCATAAGTGATGAGGCTACAC
1 CCATAAGTGATGAGGCTACAC
*
264877 CCATAGGTGATGAGGCTACAC
1 CCATAAGTGATGAGGCTACAC
264898 CC
1 CC
264900 GCTAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (21 bp):
CCATAAGTGATGAGGCTACAC
Found at i:276981 original size:14 final size:14
Alignment explanation
Indices: 276962--276988 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
276952 ATTTTTATAA
276962 AAAAATATTTTAAG
1 AAAAATATTTTAAG
276976 AAAAATATTTTAA
1 AAAAATATTTTAA
276989 AATTTCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAAATATTTTAAG
Found at i:277048 original size:22 final size:23
Alignment explanation
Indices: 277014--277066 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
277004 ATCGTTACAT
* *
277014 ATAATACATTATTTAA-TAATAA
1 ATAATAAAATATTTAATTAATAA
277036 ATAATAAAATATTTAATTTAATAA
1 ATAATAAAATATTTAA-TTAATAA
*
277060 AAAATAA
1 ATAATAA
277067 TAAACCAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 14 0.54
24 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATAAAATATTTAATTAATAA
Found at i:277065 original size:24 final size:22
Alignment explanation
Indices: 277023--277066 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
277013 TATAATACAT
*
277023 TATTTAATAATAAATAATAAAA
1 TATTTAATAATAAAAAATAAAA
277045 TATTTAATTTAATAAAAAATAA
1 TATTTAA--TAATAAAAAATAA
277067 TAAACCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTTAATAATAAAAAATAAAA
Found at i:285779 original size:12 final size:12
Alignment explanation
Indices: 285762--285786 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
285752 AATTTGTCTT
285762 GATTAATGTAAG
1 GATTAATGTAAG
285774 GATTAATGTAAG
1 GATTAATGTAAG
285786 G
1 G
285787 GACGTTGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (12 bp):
GATTAATGTAAG
Found at i:291268 original size:60 final size:59
Alignment explanation
Indices: 291157--291268 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 59
291147 GTCGGATGAC
* **
291157 CATTTTATAACTTTTAATAGTAGATGACTCAACAAAGCAATATTCTATAGTTAAAGGAT
1 CATTTTATAACTTTTAATAGTAGATGACTCAACAAAGCAACAGCCTATAGTTAAAGGAT
* * * *
291216 CATTTTGTAACTTTTAATAGTCGATCGACTCAACAAAGCAACGGCCTGTAGTT
1 CATTTTATAACTTTTAATAGTAGAT-GACTCAACAAAGCAACAGCCTATAGTT
291269 GAGAGACCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 23 0.51
60 22 0.49
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (59 bp):
CATTTTATAACTTTTAATAGTAGATGACTCAACAAAGCAACAGCCTATAGTTAAAGGAT
Found at i:291282 original size:59 final size:59
Alignment explanation
Indices: 291154--291285 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 59
291144 ATAGTCGGAT
* * **
291154 GACCATTTTATAACTTTTAATAGTAGATGACTCAACAAAGCAATATTCTATAGTTAAAG
1 GACCATTTTGTAACTTTTAATAGTAGATGACTCAACAAAGCAACAGCCTATAGTTAAAG
* * * * *
291213 GATCATTTTGTAACTTTTAATAGTCGATCGACTCAACAAAGCAACGGCCTGTAGTT-GAG
1 GACCATTTTGTAACTTTTAATAGTAGAT-GACTCAACAAAGCAACAGCCTATAGTTAAAG
291272 AGACCATTTGTGTA
1 -GACCATTT-TGTA
291286 TTTACCCTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 27 0.45
60 29 0.48
61 4 0.07
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (59 bp):
GACCATTTTGTAACTTTTAATAGTAGATGACTCAACAAAGCAACAGCCTATAGTTAAAG
Found at i:292338 original size:15 final size:16
Alignment explanation
Indices: 292320--292357 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
292310 AAATTTAGGG
*
292320 TTAGGGATTT-TAAGT
1 TTAGGGATTTATAAAT
*
292335 TTAGAGATTTATAAAT
1 TTAGGGATTTATAAAT
292351 TTAGGGA
1 TTAGGGA
292358 GATTCAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (16 bp):
TTAGGGATTTATAAAT
Found at i:293897 original size:3 final size:3
Alignment explanation
Indices: 293889--293956 Score: 91
Period size: 3 Copynumber: 22.0 Consensus size: 3
293879 AAATTTAAAT
**
293889 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
293937 ATA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
293957 AATATTACAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:295437 original size:20 final size:19
Alignment explanation
Indices: 295412--295453 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
295402 CTATTTTATA
295412 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
295432 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
295451 AAT
1 AAT
295454 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:295445 original size:119 final size:119
Alignment explanation
Indices: 295307--295545 Score: 286
Period size: 120 Copynumber: 2.0 Consensus size: 119
295297 TATTTTAATC
* ** * *
295307 TTGTTTTAATATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAACAACTGGATGTC
1 TTGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAAAGCAGTCTTAAAACAACTAGAAGTC
* *
295370 TATTTTATGATATTTTTAAATAAATAAATATCCTATTTTATAAAT-TATATATTAA
66 -ATTTTATGATATTTCTAAATAAATAAATATCCTA-TTTATAAATATATAAATTAA
* * ** *
295425 TTGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAAAGCTGTCTTAAGGCACCTAGAAGT
1 TTGTTTTAA-TATTTATTTATTTTTCAATATCGAAGAAAAAAGCAGTCTTAAAACAACTAGAAGT
* * **
295490 CCTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAA
65 CATTTTATGATATTTCTAAATAAATAAATATCCTATTTATAAATATATAAATTAA
295545 T
1 T
295546 ATTTTTTTCA
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 9 0.09
119 29 0.29
120 42 0.42
121 21 0.21
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (119 bp):
TTGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAAAGCAGTCTTAAAACAACTAGAAGTC
ATTTTATGATATTTCTAAATAAATAAATATCCTATTTATAAATATATAAATTAA
Found at i:295539 original size:27 final size:27
Alignment explanation
Indices: 295509--295563 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
295499 ATATTTCTAA
295509 ATAAATAAATATTTTATTT-ATAAATAT
1 ATAAATAAATATTTT-TTTCATAAATAT
* *
295536 ATAAATTAATATTTTTTTCATAATTAT
1 ATAAATAAATATTTTTTTCATAAATAT
295563 A
1 A
295564 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATAAATAAATATTTTTTTCATAAATAT
Found at i:296071 original size:26 final size:26
Alignment explanation
Indices: 296042--296094 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
296032 TTCTTTTTTA
296042 TATATACATATTATTTTCATAATATT
1 TATATACATATTATTTTCATAATATT
** **
296068 TATATGTATATTATTTTGTTAATATT
1 TATATACATATTATTTTCATAATATT
296094 T
1 T
296095 CATTTTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATACATATTATTTTCATAATATT
Found at i:301396 original size:11 final size:11
Alignment explanation
Indices: 301380--301422 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
301370 TCCAGCAAAA
301380 AAAAAAGAAAG
1 AAAAAAGAAAG
301391 AAAAAAGAAAG
1 AAAAAAGAAAG
301402 AAAACAA-AAA-
1 AAAA-AAGAAAG
301412 AAGAAAAGAAA
1 AA-AAAAGAAA
301423 AATGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.14
11 23 0.79
12 2 0.07
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:301415 original size:28 final size:28
Alignment explanation
Indices: 301379--301433 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
301369 ATCCAGCAAA
301379 AAAAAAAG-AAAGAAAAAAGAAAGAAAAC
1 AAAAAAAGAAAAGAAAAAAGAAA-AAAAC
*
301407 AAAAAAAGAAAAGAAAAATGAAAAAAA
1 AAAAAAAGAAAAGAAAAAAGAAAAAAA
301434 GGAGAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (28 bp):
AAAAAAAGAAAAGAAAAAAGAAAAAAAC
Found at i:301423 original size:11 final size:10
Alignment explanation
Indices: 301377--301424 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
301367 TCATCCAGCA
301377 AAAAAAAAAG
1 AAAAAAAAAG
301387 AAAGAAAAAAG
1 AAA-AAAAAAG
301398 AAAGAAAACAA-
1 AAA-AAAA-AAG
301409 AAAAAGAAAAG
1 AAAAA-AAAAG
301420 AAAAA
1 AAAAA
301425 TGAAAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.21
11 25 0.74
12 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:301431 original size:18 final size:17
Alignment explanation
Indices: 301375--301423 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
301365 ACTCATCCAG
301375 CAAAAAAA-AAAG-AAA
1 CAAAAAAAGAAAGAAAA
*
301390 -GAAAAAAGAAAGAAAA
1 CAAAAAAAGAAAGAAAA
301406 CAAAAAAAGAAAAGAAAA
1 CAAAAAAAG-AAAGAAAA
301424 ATGAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 6 0.21
15 4 0.14
16 3 0.11
17 7 0.25
18 8 0.29
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (17 bp):
CAAAAAAAGAAAGAAAA
Found at i:303500 original size:114 final size:114
Alignment explanation
Indices: 303300--303519 Score: 350
Period size: 114 Copynumber: 1.9 Consensus size: 114
303290 CACGTTCTCG
*
303300 TAGTAGAAATAAAGAGACCTAATAACATCTTCTGGAACTATTCTTTGAGTTATATGATCTGGTTT
1 TAGTAGAAATAAAGAGACCCAATAACATCTTCTGGAACTATTCTTTGAGTTATATGATCTGGTTT
*
303365 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
* * * * *
303414 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAAGAGACCCAATAACATCTTCTGGAACTATTCTTTGAGTTATATGATCTGGTTT
* * *
303479 GGTAGGAACCCCAGAACCAATCATTGGGTTTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
303520 CTGCGTGATC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAAGAGACCCAATAACATCTTCTGGAACTATTCTTTGAGTTATATGATCTGGTTT
GGTAGGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
Found at i:306051 original size:7 final size:7
Alignment explanation
Indices: 306039--306064 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
306029 ACGAAAGAAA
306039 AAAAAAT
1 AAAAAAT
306046 AAAAAAT
1 AAAAAAT
306053 AAAAAAT
1 AAAAAAT
306060 AAAAA
1 AAAAA
306065 TATTAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:307366 original size:16 final size:16
Alignment explanation
Indices: 307347--307384 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
307337 GTTTTTTTTT
307347 TTCTGTGTAATCTCTG
1 TTCTGTGTAATCTCTG
307363 TTCTGTGTAATCTCTG
1 TTCTGTGTAATCTCTG
307379 TTCTGT
1 TTCTGT
307385 CTCCTCTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.53
Consensus pattern (16 bp):
TTCTGTGTAATCTCTG
Found at i:308159 original size:165 final size:165
Alignment explanation
Indices: 307886--308221 Score: 416
Period size: 165 Copynumber: 2.0 Consensus size: 165
307876 ATACTTGAAA
* * * * **
307886 AATCTTCAAATAACGGGTCTGCTCCCTTTTCTTTCAAGGAGTATAAGACTCGAACAATCCTTGGC
1 AATCTTCAAATAACGGGTCCGCTCCCTATCCGTTCAAGGAGTATAAGACTCGAACAATCCTTCAC
* * * *
307951 AAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCGA-CAAATGGGTC
66 AAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-ATCAAACGGGTC
308015 CGCTCCCTA-TCCGTTCA-AGGAGTATAGAACTCGAAC
130 CGCTCCCTATTCC-TTCAGA-GAGTATAGAACTCGAAC
*
308051 AATCTTCATAA-AACGGGTCCGCTCCCTATCCGTTCAGGGAGTAT-AGAACTCGAACAAT-CTTC
1 AATCTTCA-AATAACGGGTCCGCTCCCTATCCGTTCAAGGAGTATAAG-ACTCGAACAATCCTTC
* * * *
308113 ATAAAGCGTGTTTGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCATGAAACGG
64 ACAAA-CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCATCAAACGG
*
308177 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
127 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
308216 AATCTT
1 AATCTT
308222 TAACGAATTT
Statistics
Matches: 148, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
164 11 0.07
165 131 0.89
166 6 0.04
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (165 bp):
AATCTTCAAATAACGGGTCCGCTCCCTATCCGTTCAAGGAGTATAAGACTCGAACAATCCTTCAC
AAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAAACGGGTCC
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
Found at i:308220 original size:55 final size:55
Alignment explanation
Indices: 307897--308266 Score: 339
Period size: 55 Copynumber: 6.7 Consensus size: 55
307887 ATCTTCAAAT
* * * *
307897 AACGGGTCTGCTCCCTTTTCTTTCA-AGGAGTATA-AGACTCGAACAATCCTT--GGCA
1 AACGGGTCCGCTCCCTATTCCTTCAGA-GAGTATAGA-ACTCGAACAAT-CTTCATG-A
* * * * * *
307952 AACGTGTCTGCTCCCTATTCGTTCAGGGAGTATA-AGACTCGAATAATCTTCGA-CA
1 AACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTC-ATGA
* *
308007 AATGGGTCCGCTCCCTA-TCCGTTCA-AGGAGTATAGAACTCGAACAATCTTCATAA
1 AACGGGTCCGCTCCCTATTCC-TTCAGA-GAGTATAGAACTCGAACAATCTTCATGA
*
308062 AACGGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCGAACAATCTTCAT-A
1 AACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCATGA
* ** *
308116 AAGCGTGTTTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGA
1 AA-CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGA
* * *
308172 AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTTAACG-
1 AACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATC-TTCATGA
*** * *
308227 AATTTGTCCGCTCCCTATTCCTTTAGAGAGTATAGGACTC
1 AACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC
308267 AATCTTCAAC
Statistics
Matches: 271, Mismatches: 31, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
54 9 0.03
55 251 0.93
56 11 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (55 bp):
AACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGA
Found at i:308238 original size:165 final size:164
Alignment explanation
Indices: 307897--308266 Score: 405
Period size: 165 Copynumber: 2.2 Consensus size: 164
307887 ATCTTCAAAT
* * * * **
307897 AACGGGTCTGCTCCCTTTTCTTTCAAGGAGTATA-AGACTCGAACAATCCTTGGCAAACGTGTCT
1 AACGGGTCCGCTCCCTATTCCTTCAGGGAGTATAGA-ACTCGAACAATCCTTCACAAACGTGTCT
* * * *
307961 GCTCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCGACAAATGGGTCCGCTCCCTATC
65 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCGACAAACGGGTCCGCTCCCTATC
308026 CGTTCAAGGAGTATAGAACTCGAACAATCTTCATAA
130 CGTTCAAGGAGTATAGAACTCGAACAATCTT-ATAA
* *
308062 AACGGGTCCGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCGAACAAT-CTTCATAAAGCGTGTT
1 AACGGGTCCGCTCCCTATTCC-TTCAGGGAGTATAGAACTCGAACAATCCTTCACAAA-CGTGTC
* * *
308125 TGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTC-ATGAAACGGGTCCGCTCTCT
64 TGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCGA-CAAACGGGTCCGCTCCCT
308188 ATTCC-TTC-AGAGAGTATAGAACTCGAACAATCTT-TAA
127 A-TCCGTTCAAG-GAGTATAGAACTCGAACAATCTTATAA
*** * * *
308225 CGAATTTGTCCGCTCCCTATTCCTTTAGAGAGTATAGGACTC
1 --AACGGGTCCGCTCCCTATTCCTTCAGGGAGTATAGAACTC
308267 AATCTTCAAC
Statistics
Matches: 174, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
163 3 0.02
164 13 0.07
165 151 0.87
166 7 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (164 bp):
AACGGGTCCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCCTTCACAAACGTGTCTG
CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCGACAAACGGGTCCGCTCCCTATCC
GTTCAAGGAGTATAGAACTCGAACAATCTTATAA
Found at i:309661 original size:16 final size:16
Alignment explanation
Indices: 309641--309686 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
309631 TATTTCTCTT
309641 TTTTTTTCATTTTTC-
1 TTTTTTTCATTTTTCA
309656 TCTTTTTTCATTTTTCA
1 T-TTTTTTCATTTTTCA
*
309673 TTTTTTCCATTTTT
1 TTTTTTTCATTTTT
309687 TTCGTTTCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 1 0.04
16 26 0.93
17 1 0.04
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTCATTTTTCA
Found at i:309661 original size:17 final size:17
Alignment explanation
Indices: 309628--309752 Score: 62
Period size: 16 Copynumber: 7.3 Consensus size: 17
309618 TGAACCCTCC
* *
309628 TTTT-ATTTCTCTTTTT
1 TTTTCATTTTTCTCTTT
309644 TTTTCATTTTTCTC-TT
1 TTTTCATTTTTCTCTTT
*
309660 TTTTCATTTTTC-ATTT
1 TTTTCATTTTTCTCTTT
* *
309676 TTTCCATTTTTTTCGTTT
1 TTTTCATTTTTCTC-TTT
* *
309694 CGTTTTTATTATTAT-TATTT
1 --TTTTCATT-TT-TCTCTTT
* * *
309714 TTTTCTTTTTTTTCCTT
1 TTTTCATTTTTCTCTTT
*
309731 TTTTC-TTCTTCTCTTT
1 TTTTCATTTTTCTCTTT
309747 TATTTC
1 T-TTTC
309753 TTCTTCAAGC
Statistics
Matches: 83, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
16 40 0.48
17 21 0.25
18 9 0.11
20 9 0.11
21 3 0.04
22 1 0.01
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTCATTTTTCTCTTT
Found at i:309670 original size:9 final size:9
Alignment explanation
Indices: 309641--309734 Score: 63
Period size: 9 Copynumber: 10.7 Consensus size: 9
309631 TATTTCTCTT
309641 TTTTTTTCA
1 TTTTTTTCA
*
309650 TTTTTCTC-
1 TTTTTTTCA
309658 -TTTTTTCA
1 TTTTTTTCA
309666 --TTTTTCA
1 TTTTTTTCA
*
309673 TTTTTTCCA
1 TTTTTTTCA
*
309682 TTTTTTTCG
1 TTTTTTTCA
*
309691 TTTCGTTTTTA
1 TTT--TTTTCA
*
309702 TTATTATT-A
1 TT-TTTTTCA
*
309711 TTTTTTTCT
1 TTTTTTTCA
*
309720 TTTTTTTCC
1 TTTTTTTCA
309729 TTTTTT
1 TTTTTT
309735 CTTCTTCTCT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
7 13 0.19
8 4 0.06
9 40 0.60
10 3 0.04
11 6 0.09
12 1 0.01
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:321178 original size:13 final size:13
Alignment explanation
Indices: 321160--321186 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
321150 GAACGAAAGA
321160 AAAAAATAAAAAT
1 AAAAAATAAAAAT
321173 AAAAAATAAAAAT
1 AAAAAATAAAAAT
321186 A
1 A
321187 TTAACATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:323835 original size:22 final size:22
Alignment explanation
Indices: 323809--323885 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
323799 ATCTACACTC
323809 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
323831 TTCAAAGATGATGGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
323853 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
323875 TTCAAAGATGA
1 TTCAAAGATGA
323886 AAGCTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:324696 original size:167 final size:169
Alignment explanation
Indices: 324400--324732 Score: 512
Period size: 167 Copynumber: 2.0 Consensus size: 169
324390 AAAATGAGCA
324400 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATAATAATGAGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT----AAAATAATAATAATGAGA
* **
324465 AAACAATTTCTATAAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAAC
62 AAACAATTTCCATAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAAC
*
324530 GATTTCCTTAGTTTTTTTTACTTAGTAAATTATTTCCAACAACC
127 GATTTCCTTAG-TTTTTTTACTTAGTAAACTATTTCCAACAACC
**
324574 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGA-AA-AATAATGAGAAAAC
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAATAATAATAATGAGAAAAC
*
324636 GATTTCCAT-AGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGAT
66 AATTTCCATAAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGAT
*
324700 TTCCTTAGTTTTTTTACTTATTAAACTATTTCC
130 TTCCTTAGTTTTTTTACTTAGTAAACTATTTCC
324733 TACATCTGTA
Statistics
Matches: 150, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
166 43 0.29
167 61 0.41
168 2 0.01
169 1 0.01
174 43 0.29
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (169 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAATAATAATAATGAGAAAAC
AATTTCCATAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
TCCTTAGTTTTTTTACTTAGTAAACTATTTCCAACAACC
Found at i:324834 original size:76 final size:76
Alignment explanation
Indices: 324735--325455 Score: 1282
Period size: 76 Copynumber: 9.5 Consensus size: 76
324725 CTATTTCCTA
* *
324735 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTATCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
324800 AGCCTTAGGGT
66 AGCCTTAGGGT
*
324811 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
324875 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
324886 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
324951 AGCCTTAGGGT
66 AGCCTTAGGGT
324962 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
325027 AACCTTAGGGT
66 AGCCTTAGGGT
*
325038 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
325103 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
325114 CATCTGTAAGTCCTACAATGCATGATGTTACCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
325179 AAGCCTTAGGAT
65 AAGCCTTAGGGT
325191 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
325256 AACCTTAGGGT
66 AGCCTTAGGGT
*
325267 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
325332 AGCCTTAGGGT
66 AGCCTTAGGGT
*
325343 CATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
325408 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* *
325420 CATATGTAAGTCCTACAGTGCATGATGTTTTCAAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA
325456 CCTTAGGGTC
Statistics
Matches: 616, Mismatches: 26, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
75 72 0.12
76 398 0.65
77 146 0.24
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:325093 original size:152 final size:152
Alignment explanation
Indices: 324735--325455 Score: 1282
Period size: 153 Copynumber: 4.7 Consensus size: 152
324725 CTATTTCCTA
* *
324735 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTATCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
324800 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
324864 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* *
324886 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
324951 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
325016 GATGTTTTCAAAACCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
*
325038 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
325103 AGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTACCAAAAAAGCCTTCGGGAGCTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
*
325168 TGATGTTTTCAAAGCCTTAGGAT
130 TGATGTTTTCAAAGCCTTAGGGT
325191 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
325256 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
325321 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
*
325343 CATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
325408 AAGCCTTAGGGTCATATGTAAGTCCTACAGTGCATGATGTTTTCAAAA
65 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA
325456 CCTTAGGGTC
Statistics
Matches: 545, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
151 121 0.22
152 203 0.37
153 221 0.41
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (152 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGT
Found at i:325248 original size:229 final size:229
Alignment explanation
Indices: 324735--325455 Score: 1320
Period size: 229 Copynumber: 3.2 Consensus size: 229
324725 CTATTTCCTA
* *
324735 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTATCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
324800 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTT
66 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
324864 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTT
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCTT
*
324928 CGGGAGCTTTTTGATATTTTCAAAGCCTTAGGGT
196 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
324962 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
325027 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
325092 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTACCAAAAAAGCCTT
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCTT
*
325157 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGAT
196 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
325191 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
325256 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
325321 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCTT
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCTT
325386 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
325420 CATATGTAAGTCCTACAGTGCATGATGTTTTCAAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA
325456 CCTTAGGGTC
Statistics
Matches: 478, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
227 120 0.25
228 55 0.12
229 303 0.63
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (229 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:325461 original size:45 final size:45
Alignment explanation
Indices: 325397--325500 Score: 181
Period size: 45 Copynumber: 2.3 Consensus size: 45
325387 GGGAGCTTTT
*
325397 TGATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATATGTAAGTCCTACAGTGCA
*
325442 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATATGTAAGTCCTACAGTGCA
*
325487 TGATGTTTCCAAAA
1 TGATGTTTTCAAAA
325501 AGCCTTCGGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTAGGGTCATATGTAAGTCCTACAGTGCA
Found at i:325467 original size:198 final size:197
Alignment explanation
Indices: 325244--325706 Score: 786
Period size: 198 Copynumber: 2.4 Consensus size: 197
325234 GGGAGCTTTT
*
325244 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
* * *
325309 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTAC
66 CGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATCTATAAGTCCTACAATGCATGATGTTAC
*
325374 CAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGT
131 C-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATATATAAGTCCTACAGT
325439 GCA
195 GCA
325442 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
*
325507 CGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATCTATAAGTCCTACAATGCATGATGTTTC
66 CGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATCTATAAGTCCTACAATGCATGATGTTAC
* *
325572 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTTCAGTG
131 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATATATAAGTCCTACAGTG
325637 CA
196 CA
* * * *
325639 TGATGTTTTCAAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAA-CCT
1 TGATGTTTTC-AAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
325702 TCGGG
65 TCGGG
325707 TCATCTGTAA
Statistics
Matches: 252, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
196 8 0.03
197 77 0.31
198 167 0.66
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (197 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATCTATAAGTCCTACAATGCATGATGTTAC
CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATATATAAGTCCTACAGTG
CA
Found at i:325563 original size:121 final size:122
Alignment explanation
Indices: 325320--325576 Score: 444
Period size: 121 Copynumber: 2.1 Consensus size: 122
325310 GGGAGCTTTT
*
325320 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCT
* * *
325385 TCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGTGCA
66 TCGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATATATAAGTCCTACAATGCA
*
325442 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCT
*
325506 TCGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATCTATAAGTCCTACAATGCA
66 TCGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATATATAAGTCCTACAATGCA
*
325563 TGATGTTTCCAAAA
1 TGATGTTTTCAAAA
325577 AGCCTTCGGG
Statistics
Matches: 128, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
121 75 0.59
122 53 0.41
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (122 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAAGCCT
TCGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATATATAAGTCCTACAATGCA
Found at i:325568 original size:76 final size:76
Alignment explanation
Indices: 325442--325659 Score: 375
Period size: 76 Copynumber: 2.9 Consensus size: 76
325432 CTACAGTGCA
* *
325442 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
325507 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
325518 TGATGTTTCCAAAGCCTTAGGGTCATCTATAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
325583 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
325594 TGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTT
1 TGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
325658 CG
66 CG
325660 AGTCATCTGT
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
75 6 0.04
76 128 0.96
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (76 bp):
TGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTT
Found at i:325674 original size:46 final size:45
Alignment explanation
Indices: 325594--325741 Score: 242
Period size: 45 Copynumber: 3.3 Consensus size: 45
325584 GGGAGCTTTT
* * *
325594 TGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
325639 TGATGTTTTCAAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
325685 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
325730 TGATGTTTTCAA
1 TGATGTTTTCAA
325742 CATTTCCATC
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 55 0.57
46 41 0.43
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
Found at i:325901 original size:3 final size:3
Alignment explanation
Indices: 325895--325943 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
325885 TATTAAAATT
325895 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
325941 ATA
1 ATA
325944 TTATATATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:327403 original size:118 final size:117
Alignment explanation
Indices: 327281--327510 Score: 295
Period size: 119 Copynumber: 2.0 Consensus size: 117
327271 ATTTTAATCC
* * *
327281 TGTTTTAA-TATTTATTTATTTTTCAATAT-TAA-AAAAGGGCAGTCTTAAAACAACTGGAAGTC
1 TGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAG-AGT-
*
327343 CATTTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAAT
64 CATTTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAA-TATATATTAAT
* * ** * *
327399 TGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAGTCT
1 TGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAGTCA
**
327464 TTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATA
66 TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATA
327511 AAATAATATT
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
117 6 0.06
118 16 0.16
119 51 0.53
120 5 0.05
121 19 0.20
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (117 bp):
TGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAGTCA
TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATTAAT
Found at i:327410 original size:20 final size:19
Alignment explanation
Indices: 327385--327426 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
327375 CTATTTTATA
327385 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
327405 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
327424 AAT
1 AAT
327427 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:327511 original size:27 final size:27
Alignment explanation
Indices: 327483--327535 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
327473 ATTTCTAAAT
327483 AAATAAATATTTTATTT-ATAAATATATA
1 AAAT-AATATTTT-TTTCATAAATATATA
*
327511 AAATAATATTTTTTTCATAATTATA
1 AAATAATATTTTTTTCATAAATATA
327536 ATTTTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 3 0.13
27 16 0.70
28 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATAATATTTTTTTCATAAATATATA
Found at i:329033 original size:31 final size:31
Alignment explanation
Indices: 328995--329067 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
328985 ATAGGCGAAA
328995 AGCTACAGTTTACATTGAGGGGTATTGCAGC
1 AGCTACAGTTTACATTGAGGGGTATTGCAGC
** *
329026 AGCTACAGTTTATGTTGAGGGGTATTTCAGC
1 AGCTACAGTTTACATTGAGGGGTATTGCAGC
*
329057 AGCAACAGTTT
1 AGCTACAGTTT
329068 GACAAACCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (31 bp):
AGCTACAGTTTACATTGAGGGGTATTGCAGC
Found at i:330560 original size:2 final size:2
Alignment explanation
Indices: 330553--330582 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
330543 AATATTTGTT
330553 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
330583 TTTCATACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:331238 original size:15 final size:15
Alignment explanation
Indices: 331215--331250 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
331205 TAATTATACG
*
331215 TTTAGTATTTTATAA
1 TTTAATATTTTATAA
331230 TTTAATATTTTATAA
1 TTTAATATTTTATAA
*
331245 ATTAAT
1 TTTAAT
331251 TTAATGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTAATATTTTATAA
Found at i:332455 original size:37 final size:37
Alignment explanation
Indices: 332382--332456 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
332372 GTTAGAAAAT
* *
332382 ATTTATATATTTTATTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTATTTAAAAAATTGAAAATCATAAA
* *
332419 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTATTTAAAAAATTGAAAATCATAAA
332456 A
1 A
332457 AGGTTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTATTTAAAAAATTGAAAATCATAAA
Found at i:343491 original size:15 final size:15
Alignment explanation
Indices: 343471--343502 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
343461 AAAAAATAAG
343471 ATTTAATATAATTTT
1 ATTTAATATAATTTT
*
343486 ATTTAATTTAATTTT
1 ATTTAATATAATTTT
343501 AT
1 AT
343503 AAATAAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTAATATAATTTT
Done.