Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 22
Found at i:349320 original size:17 final size:16
Alignment explanation
Indices: 349271--349320 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
349261 AACACTATAT
*
349271 TTTTAAT-TTATCTTA
1 TTTTAATATTATTTTA
349286 TTTTAATCATTA-TTTA
1 TTTTAAT-ATTATTTTA
349302 TTTTCAATATTATTTTA
1 TTTT-AATATTATTTTA
349319 TT
1 TT
349321 ATTACTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.23
16 11 0.37
17 12 0.40
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATATTATTTTA
Found at i:349329 original size:24 final size:23
Alignment explanation
Indices: 349294--349364 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 23
349284 TATTTTAATC
349294 ATTATTTA-TTTTCAATATTATTTT
1 ATTA-TTACTTTT-AATATTATTTT
*
349318 ATTATTACTTTT-ATA-T-TTTA
1 ATTATTACTTTTAATATTATTTT
*
349338 ATTATTGC-TTTAATTATTATTTT
1 ATTATTACTTTTAA-TATTATTTT
349361 ATTA
1 ATTA
349365 GTCATATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
19 3 0.08
20 11 0.28
21 3 0.08
22 4 0.10
23 10 0.26
24 8 0.21
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (23 bp):
ATTATTACTTTTAATATTATTTT
Found at i:359301 original size:23 final size:23
Alignment explanation
Indices: 359246--359301 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
359236 ATCTATACTC
359246 TTCAAAGATGATAGATTCTCTCT
1 TTCAAAGATGATAGATTCTCTCT
* *
359269 TT-AAAGATGATAGATTCTTTTT
1 TTCAAAGATGATAGATTCTCTCT
359291 TTCAAAGATGA
1 TTCAAAGATGA
359302 AAGGTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (23 bp):
TTCAAAGATGATAGATTCTCTCT
Found at i:360062 original size:46 final size:46
Alignment explanation
Indices: 359960--360371 Score: 614
Period size: 46 Copynumber: 8.9 Consensus size: 46
359950 CTATTTCCAA
* * *
359960 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTC--AAAAACCTTCGGGT
* *
360008 CATCTGTAAGCCCTTCAGTGCTTGATGTTATCAAAAACCTCCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* * * * **
360054 CATTTGTAAGCCCTTCAGTGCATGATGTTATCAAAAACCTCCATGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
360100 CATCTGTAAGCCCTTCAGTGCATT-ATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGC-TTGATGTTTTCAAAAACCTTCGGGT
*
360146 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
360192 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
360237 CATCTATAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGC
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
360283 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTC-AAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
360328 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCG
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAA-CCTTCG
360372 AGAGCTTTTT
Statistics
Matches: 337, Mismatches: 22, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
45 88 0.26
46 213 0.63
47 6 0.02
48 30 0.09
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (46 bp):
CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
Found at i:360273 original size:91 final size:92
Alignment explanation
Indices: 359960--360371 Score: 623
Period size: 91 Copynumber: 4.5 Consensus size: 92
359950 CTATTTCCAA
* *
359960 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAAAACCTTCGGGTCATCTGTAAGCCCTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGTCATCTGTAAGCCCTTCA
*
360025 GTGCTTGATGTTATCAAAAACCTCCGGGT
64 GTGCTTGATGTTATCAAAAACCTTCGGGT
* * * **
360054 CATTTGTAAGCCCTTCAGTGCATGATGTTATCAAAAACCTCCATGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
360119 GCATT-ATGTTATCAAAAACCTTCGGGT
66 GC-TTGATGTTATCAAAAACCTTCGGGT
* *
360146 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
*
360211 GCTTGATGTTTTC-AAAACCTTCGGGT
66 GCTTGATGTTATCAAAAACCTTCGGGT
* * *
360237 CATCTATAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGCCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
* *
360302 GCTTGATGTTTTC-AAAACCTTTGGGT
66 GCTTGATGTTATCAAAAACCTTCGGGT
360328 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCG
360372 AGAGCTTTTT
Statistics
Matches: 295, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
91 137 0.46
92 126 0.43
93 2 0.01
94 30 0.10
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (92 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
GCTTGATGTTATCAAAAACCTTCGGGT
Found at i:360409 original size:73 final size:74
Alignment explanation
Indices: 360324--360501 Score: 295
Period size: 74 Copynumber: 2.4 Consensus size: 74
360314 CAAAACCTTT
360324 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAAAGCCTTCGAGAGCTTTTTGATTTT
1 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAAGCCTTCGAGAGCTTTTTGATTTT
360388 AAAGCCTCA
66 AAAGCCTCA
* * *
360397 GGGTCATCTGTAAGCTCTTCAGTACATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTGATTTT
1 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAAGCCTTCGAGAGCTTTTTGATTTT
360462 AAAGCCTCA
66 AAAGCCTCA
* * *
360471 GGGTCATCTGTAAGACCTACAGTGCAAGATG
1 GGGTCATCTGTAAGCCCTTCAGTGCATGATG
360502 ATAAGACTTC
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 34 0.35
74 62 0.65
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (74 bp):
GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAAGCCTTCGAGAGCTTTTTGATTTT
AAAGCCTCA
Found at i:360683 original size:3 final size:3
Alignment explanation
Indices: 360677--360730 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
360667 TCATTTCGTT
* * *
360677 TTA TTA TTA TTA TTA TCA ATA TTA GTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
360725 TTA TTA
1 TTA TTA
360731 AATAAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:362455 original size:23 final size:23
Alignment explanation
Indices: 362423--362466 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
362413 CCTTTTCTGA
*
362423 TATTTCTAAATAAATAAATATCT
1 TATTTATAAATAAATAAATATCT
*
362446 TATTTATAAATAAATATATAT
1 TATTTATAAATAAATAAATAT
362467 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCT
Found at i:365161 original size:2 final size:2
Alignment explanation
Indices: 365154--365183 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
365144 TGGAAACAAT
365154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
365184 AACCAGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:366707 original size:2 final size:2
Alignment explanation
Indices: 366700--366737 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
366690 ACAAAAAGCA
366700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
366738 CGGTGAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:369704 original size:67 final size:67
Alignment explanation
Indices: 369609--369742 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
369599 AAATGGGTGC
*
369609 GAGAAAATGGAATGGTGATGTCATGGTTGATAAACTCAATGGTAATCGCAATCGGAA-AAAAGTT
1 GAGAAAATGGAAAGGTGATGTCATGGTTGATAAACTCAATGGTAATCGCAAT-GGAAGAAAAGTT
369673 TTT
65 TTT
* * *
369676 GAGAAAATGGAAAGGTGATGTCATGGTTGATAAATTCAATGGTACTCGCAATTGAAGAAAAGTTT
1 GAGAAAATGGAAAGGTGATGTCATGGTTGATAAACTCAATGGTAATCGCAATGGAAGAAAAGTTT
369741 TT
66 TT
369743 TCTTTATGCA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 3 0.05
67 59 0.95
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (67 bp):
GAGAAAATGGAAAGGTGATGTCATGGTTGATAAACTCAATGGTAATCGCAATGGAAGAAAAGTTT
TT
Found at i:378757 original size:60 final size:60
Alignment explanation
Indices: 378682--378860 Score: 207
Period size: 60 Copynumber: 3.0 Consensus size: 60
378672 ATATGTCTCC
* * * *
378682 AAACTATAACCCTCATTTTAAATTGGTCCTTAAATTTTTAAATATTCCAATTTCATCCCT
1 AAACTATGACCCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCCCT
* * * * * *
378742 AGACTATGACTCTCATTATAAATTAGTCCTTAAACTTTTGAACATTCTAATTTCATCCTT
1 AAACTATGACCCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCCCT
* * * * *
378802 AAAGTATGACCCTC-TTTCTAAATTAGTTCTCATACTTTTGAATATTTCAATTTCATCCC
1 AAACTATGACCCTCATTT-TAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCCC
378861 CAAATTCATG
Statistics
Matches: 97, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 2 0.02
60 95 0.98
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (60 bp):
AAACTATGACCCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCCCT
Found at i:379095 original size:60 final size:60
Alignment explanation
Indices: 378989--379163 Score: 205
Period size: 60 Copynumber: 2.9 Consensus size: 60
378979 GTATATACAT
* * * *
378989 ATAGTTTGG-GATGAAATTGGAATATTTAAAAAGTTTGGGGCCAATTTAGAATGAATA-TC
1 ATAGTTTGGAGATGAAATTGGAATATTT-AAAAGTTTAGGACTAATTTAAAATGAATAGTC
* * * *
379048 ATAGTTTGGAGATGAAATTGAAATGTTTAAAAGTTTAAGGAATAATTTATAATG-ATAGTC
1 ATAGTTTGGAGATGAAATTGGAATATTTAAAAGTTT-AGGACTAATTTAAAATGAATAGTC
*
379108 ATAGTTT-TAGGATGAAATTGGAATATTTAAAAGTTTAGAGACTAATTTAAAATGAA
1 ATAGTTTGGA-GATGAAATTGGAATATTTAAAAGTTTAG-GACTAATTTAAAATGAA
379164 GATTATACTT
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
59 23 0.23
60 74 0.76
61 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (60 bp):
ATAGTTTGGAGATGAAATTGGAATATTTAAAAGTTTAGGACTAATTTAAAATGAATAGTC
Found at i:379928 original size:20 final size:21
Alignment explanation
Indices: 379903--379995 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
379893 TTTTCCCAAT
*
379903 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
379923 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
379944 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
379964 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
379985 TCGCAATGCGA
1 TCGCAATGCGA
379996 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:380010 original size:41 final size:41
Alignment explanation
Indices: 379903--379995 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
379893 TTTTCCCAAT
379903 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
379944 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
379985 TCGCAATGCGA
1 TCGCAATGCGA
379996 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:380026 original size:41 final size:41
Alignment explanation
Indices: 379981--380078 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
379971 GCGAATTGGG
*
379981 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* * * * *
380022 AAAATCGCAACGAGATACTTACTTTTGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
*
380063 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
380079 TTTCAAAGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:380282 original size:22 final size:22
Alignment explanation
Indices: 380246--380289 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
380236 CACTCTCTCA
*
380246 CCCATCTCCGACGAAATCCGTC
1 CCCATCACCGACGAAATCCGTC
*
380268 CCCATCACCGGCGAAATCCGTC
1 CCCATCACCGACGAAATCCGTC
380290 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (22 bp):
CCCATCACCGACGAAATCCGTC
Found at i:380562 original size:20 final size:20
Alignment explanation
Indices: 380533--380576 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
380523 GCGATTTTAG
380533 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
380553 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
380573 TTTC
1 TTTC
380577 AGAAACTATT
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:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:381917 original size:18 final size:18
Alignment explanation
Indices: 381896--381940 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
381886 TCCACTTCGG
*
381896 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
381914 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
381932 GAGCCATCA
1 GAGCCATCA
381941 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:382476 original size:19 final size:20
Alignment explanation
Indices: 382422--382488 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
382412 TAGTTTACTT
* *
382422 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
382442 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
382462 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
382481 TCGCAACG
1 TCGCAACG
382489 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:382496 original size:14 final size:14
Alignment explanation
Indices: 382477--382534 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
382467 ATGCGAAATG
382477 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
382491 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
382507 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
382523 AAAATCGCAACG
1 AAAATCGCAACG
382535 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:382519 original size:32 final size:33
Alignment explanation
Indices: 382461--382551 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
382451 GGAAATGGCT
382461 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
382494 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
382526 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
382552 TGCAATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:382587 original size:14 final size:14
Alignment explanation
Indices: 382568--382625 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
382558 TTGTGTTTCG
382568 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
382582 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
382598 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
382614 CGTTGCGATTTT
1 CGTTGCGATTTT
382626 CATTTCGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:382604 original size:32 final size:33
Alignment explanation
Indices: 382563--382641 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
382553 GCAATTTGTG
382563 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
382595 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
**
382628 TTTCGTATTGCGAT
1 TTTCGCGTTGCGAT
382642 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 27 0.61
33 17 0.39
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:382648 original size:19 final size:19
Alignment explanation
Indices: 382626--382680 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
382616 TTGCGATTTT
*
382626 CATTTCGTATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* *
382645 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
382665 CATTTCGCGTTGCGAT
1 CATTTCGCATTGCGAT
382681 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:382660 original size:20 final size:19
Alignment explanation
Indices: 382635--382680 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
382625 TCATTTCGTA
382635 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTT-CGCG
*
382655 TTGCGATAGTCATTTCGCG
1 TTGCGATAGCCATTTCGCG
382674 TTGCGAT
1 TTGCGAT
382681 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (19 bp):
TTGCGATAGCCATTTCGCG
Found at i:384569 original size:14 final size:14
Alignment explanation
Indices: 384550--384585 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
384540 ATTGTTTAAT
384550 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
384564 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
384578 TGATTTGT
1 TGATTTGT
384586 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:384724 original size:19 final size:19
Alignment explanation
Indices: 384702--384769 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
384692 ATCGCAACGA
384702 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
384721 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
384740 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
384754 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
384770 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:384813 original size:20 final size:20
Alignment explanation
Indices: 384788--384845 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
384778 TCGCATTGCG
*
384788 ATTTTCTCGTTGCGATAGCC
1 ATTTTCACGTTGCGATAGCC
*
384808 ATTTTCGCGTTGCGATAGCC
1 ATTTTCACGTTGCGATAGCC
384828 ATTTTCACGTTGCGATAG
1 ATTTTCACGTTGCGATAG
384846 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCACGTTGCGATAGCC
Found at i:385929 original size:24 final size:24
Alignment explanation
Indices: 385902--385955 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
385892 GTATTCGAAA
* *
385902 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
385926 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
385950 TTTGAT
1 TTTGAT
385956 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:386147 original size:12 final size:12
Alignment explanation
Indices: 386130--386154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
386120 ATATAATCCT
386130 GAAGAAGAAAAA
1 GAAGAAGAAAAA
386142 GAAGAAGAAAAA
1 GAAGAAGAAAAA
386154 G
1 G
386155 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:388468 original size:19 final size:19
Alignment explanation
Indices: 388446--388510 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
388436 GGAAATTACT
388446 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
388465 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
388479 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
388498 ATCGCAACGCGAA
1 ATCGCAATGCGAA
388511 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:388469 original size:39 final size:33
Alignment explanation
Indices: 388446--388508 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
388436 GGAAATTACT
*
388446 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
388479 ATCGCAATGCGAAATGAAAATCGCAACGCG
1 ATCGCAATGCGAAATGAAAATCGCAACGCG
388509 AATTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
Found at i:388528 original size:19 final size:21
Alignment explanation
Indices: 388506--388551 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
388496 AAATCGCAAC
388506 GCGAATTT-A-ATTTCGCGTT
1 GCGAATTTCATATTTCGCGTT
* *
388525 GCGATTTTCATTTTTCGCGTT
1 GCGAATTTCATATTTCGCGTT
388546 GC-AATT
1 GCGAATT
388552 CCCTCGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (21 bp):
GCGAATTTCATATTTCGCGTT
Found at i:388709 original size:14 final size:14
Alignment explanation
Indices: 388690--388726 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
388680 CATCAATTAA
388690 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
388704 ACAAATCACCTTTT
1 ACAAATCAACTTTT
388718 ACAAATCAA
1 ACAAATCAA
388727 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:390150 original size:21 final size:21
Alignment explanation
Indices: 390084--390150 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
390074 GTGAATCGGG
*
390084 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
390104 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
390126 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
390147 CTCT
1 CTCT
390151 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:390169 original size:42 final size:41
Alignment explanation
Indices: 390084--390206 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
390074 GTGAATCGGG
* * * *
390084 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
390126 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
390168 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
390207 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:392260 original size:14 final size:14
Alignment explanation
Indices: 392241--392277 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
392231 GGAAATGACT
* *
392241 ATCGCAAGGATAGA
1 ATCGCAACGAGAGA
392255 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
392269 ATCGCAACG
1 ATCGCAACG
392278 CGAAATGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:392305 original size:47 final size:48
Alignment explanation
Indices: 392217--392310 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 48
392207 ACGAGATAAT
** * *
392217 GAGAATCGCAACGCGGAAATGACTATCGCAAGGATAGAATCGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
*
392265 GAGAATCGCAACGC-GAAATGACTATCGCGACCAGACAATCGCAACG
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACG
392311 CGAAATGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 27 0.66
48 14 0.34
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (48 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
Found at i:392323 original size:19 final size:19
Alignment explanation
Indices: 392301--392371 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
392291 GCGACCAGAC
392301 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
392320 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
392340 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
392359 AATCGCAATGCGA
1 AATCGCAACGCGA
392372 TTTTTGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
19 30 0.62
20 18 0.38
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:392325 original size:33 final size:33
Alignment explanation
Indices: 392254--392366 Score: 109
Period size: 33 Copynumber: 3.2 Consensus size: 33
392244 GCAAGGATAG
* * *
392254 AATCGCAACGAGAGAATCGCAACGCGAAATGAC
1 AATCGCAACCAGACAATCGCAACGCGAAATGAA
* *
392287 TATCGCGACCAGACAATCGCAACGCGAAATGAA
1 AATCGCAACCAGACAATCGCAACGCGAAATGAA
* *
392320 AATCGCAACCGCGAAATAAAAATCGCAACGCGAAATGAA
1 AATCGCAA-C-C---A-GACAATCGCAACGCGAAATGAA
392359 AATCGCAA
1 AATCGCAA
392367 TGCGATTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 34 0.52
34 1 0.02
35 1 0.02
38 1 0.02
39 28 0.43
ACGTcount: A:0.44, C:0.25, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACCAGACAATCGCAACGCGAAATGAA
Found at i:392334 original size:20 final size:19
Alignment explanation
Indices: 392192--392371 Score: 120
Period size: 20 Copynumber: 10.1 Consensus size: 19
392182 TCTTTTGGTT
*
392192 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
392211 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
392231 GGAAATGACTATCGCAA-G-
1 -GAAATGAAAATCGCAACGC
*
392249 G--AT-AGAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
392263 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
392279 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
392297 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
392312 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
392332 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
392351 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
392370 GA
1 GA
392372 TTTTTGTTTC
Statistics
Matches: 131, Mismatches: 15, Indels: 30
0.74 0.09 0.17
Matches are distributed among these distances:
14 30 0.23
15 4 0.03
16 2 0.02
17 1 0.01
18 3 0.02
19 44 0.34
20 45 0.34
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:392403 original size:19 final size:19
Alignment explanation
Indices: 392367--392433 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
392357 AAAATCGCAA
*
392367 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
392386 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
392405 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
392425 TGCGATTTT
1 TGCGATTTT
392434 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:392998 original size:20 final size:20
Alignment explanation
Indices: 392947--392999 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
392937 GCGCTATGTA
*
392947 AATCGCGTTGCAAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
392967 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
392987 TATCTCGTTGCGA
1 AATCGCGTTGCGA
393000 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:393033 original size:20 final size:20
Alignment explanation
Indices: 393008--393061 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
392998 GATTTTGTAT
393008 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
393028 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
393048 TATCGCATTGCGAT
1 TATCGCATTGCGAT
393062 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:393080 original size:61 final size:61
Alignment explanation
Indices: 392948--393082 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
392938 CGCTATGTAA
* * * * * * ** *
392948 ATCGCGTTGCAAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
393009 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
393071 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
393083 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:393172 original size:21 final size:21
Alignment explanation
Indices: 393132--393172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
393122 ACTGTATACC
**
393132 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
393153 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
393173 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:396295 original size:14 final size:13
Alignment explanation
Indices: 396271--396301 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
396261 AAAGGTTTGA
396271 TATTTTTTTATTT
1 TATTTTTTTATTT
396284 TATTTGTTTTATTT
1 TATTT-TTTTATTT
396298 TATT
1 TATT
396302 CTTGTTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:397889 original size:179 final size:180
Alignment explanation
Indices: 397558--397944 Score: 426
Period size: 179 Copynumber: 2.2 Consensus size: 180
397548 TGACAAATTT
*
397558 TGTTTGTAATTATATATTTTAATTATAGTGACAAAATGTATAGTCACAAATGATTATCTCCAATT
1 TGTTTGTAATTATATATTTTAATTATAGTGACAAAATATATAGTCACAAATGATTATCTCCAATT
* ** * *
397623 TTTGGTAAAAAAACAAAATCATATAGTGACATGTTTTGTAACTATAAACTATAATTATTGTTACA
66 TTTGGTAAAAAAACAAAATCATAAAGTGACAAATTTTGTAACTATAAACTATAATAATTATTACA
397688 AAAAAATTGTAACAATAAATAATGAGATTCAAGTTTTTAGTAAAAAAAAA
131 AAAAAATTGTAACAATAAATAATGAGATTCAAGTTTTTAGTAAAAAAAAA
** * * * *
397738 TGTTTGTCGTTATATGTTTTAATTATAGTGACAAAATATATTGTTACAAA-GATTTTCCTCCATA
1 TGTTTGTAATTATATATTTTAATTATAGTGACAAAATATATAGTCACAAATGATTAT-CTCCA-A
* *** * * *
397802 TTTTTTGT-GCCAAA-AAAGTCATAAAGTGACAAATTTTGTAACTAT-AAGTGTTAATAATTATT
64 TTTTTGGTAAAAAAACAAAATCATAAAGTGACAAATTTTGTAACTATAAACT-ATAATAATTATT
* * * * * **
397864 ACAAAAAACATTGTCACAA-AAATAATGATATTCACGTTTTT-GTGACAAATTA
128 ACAAAAAA-ATTGTAACAATAAATAATGAGATTCAAGTTTTTAGTAAAAAAAAA
* * * *
397916 TATTTGTAGTTTTATATTTTAACTATAGT
1 TGTTTGTAATTATATATTTTAATTATAGT
397945 AATAGCATAT
Statistics
Matches: 172, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
178 34 0.20
179 69 0.40
180 61 0.35
181 8 0.05
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (180 bp):
TGTTTGTAATTATATATTTTAATTATAGTGACAAAATATATAGTCACAAATGATTATCTCCAATT
TTTGGTAAAAAAACAAAATCATAAAGTGACAAATTTTGTAACTATAAACTATAATAATTATTACA
AAAAAATTGTAACAATAAATAATGAGATTCAAGTTTTTAGTAAAAAAAAA
Found at i:398506 original size:66 final size:66
Alignment explanation
Indices: 398430--398586 Score: 314
Period size: 66 Copynumber: 2.4 Consensus size: 66
398420 ATAAGTTTTG
398430 TAATAACAAAATATATTATCAAAATGTTTTCATTTATTTTTTACGAAGTTAGTTTCAAATAAAAG
1 TAATAACAAAATATATTATCAAAATGTTTTCATTTATTTTTTACGAAGTTAGTTTCAAATAAAAG
398495 A
66 A
398496 TAATAACAAAATATATTATCAAAATGTTTTCATTTATTTTTTACGAAGTTAGTTTCAAATAAAAG
1 TAATAACAAAATATATTATCAAAATGTTTTCATTTATTTTTTACGAAGTTAGTTTCAAATAAAAG
398561 A
66 A
398562 TAATAACAAAATATATTATCAAAAT
1 TAATAACAAAATATATTATCAAAAT
398587 AGTGAAAATG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 91 1.00
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.39
Consensus pattern (66 bp):
TAATAACAAAATATATTATCAAAATGTTTTCATTTATTTTTTACGAAGTTAGTTTCAAATAAAAG
A
Found at i:407307 original size:32 final size:31
Alignment explanation
Indices: 407271--407359 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 31
407261 CAATATTTTG
407271 TCAAAATAAAAAATTATGACAAATTAATTTAA
1 TCAAAATAAAAAATTATGACAAATTAATTT-A
* * * *
407303 TCAAAATAACAATTTATAACAAATATTAATTTC
1 TCAAAATAAAAAATTATGAC-AA-ATTAATTTA
** *
407336 TCATTATAAAAAATTGTGACAAAT
1 TCAAAATAAAAAATTATGACAAAT
407360 AATATTCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
31 2 0.04
32 19 0.42
33 16 0.36
34 8 0.18
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (31 bp):
TCAAAATAAAAAATTATGACAAATTAATTTA
Found at i:408335 original size:42 final size:42
Alignment explanation
Indices: 408288--408373 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
408278 ATCTCAAAAA
* * * * *
408288 GTCAGGTCGGGTGGAGGGTATATATTTTTTGGGTCAGGCCGG
1 GTCAGGTCAGGTGAAGGATATAAAATTTTTGGGTCAGGCCGG
* *
408330 GTCAGGTCAGGTGAAGGATGTAAAATTTTTGGGTCAGGTCGG
1 GTCAGGTCAGGTGAAGGATATAAAATTTTTGGGTCAGGCCGG
408372 GT
1 GT
408374 TTGTCGAAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.19, C:0.10, G:0.41, T:0.30
Consensus pattern (42 bp):
GTCAGGTCAGGTGAAGGATATAAAATTTTTGGGTCAGGCCGG
Found at i:410215 original size:21 final size:22
Alignment explanation
Indices: 410191--410232 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
410181 TAGGGGTTAT
410191 GGTTT-ATGCTTTAA-GTTTTAG
1 GGTTTAATG-TTTAATGTTTTAG
410212 GGTTTAATGTTTAATGTTTTA
1 GGTTTAATGTTTAATGTTTTA
410233 TGTTTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.21, C:0.02, G:0.21, T:0.55
Consensus pattern (22 bp):
GGTTTAATGTTTAATGTTTTAG
Found at i:410603 original size:20 final size:20
Alignment explanation
Indices: 410577--410621 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
410567 CTTACAGTAT
410577 CGATACCTCATGAACAATAC
1 CGATACCTCATGAACAATAC
*
410597 TGATACCTCATGAACAATAC
1 CGATACCTCATGAACAATAC
410617 CGATA
1 CGATA
410622 TTGTTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (20 bp):
CGATACCTCATGAACAATAC
Found at i:410984 original size:35 final size:35
Alignment explanation
Indices: 410940--411006 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
410930 AGGGTATAAT
410940 GTTTAAGGTTTATAATTT-AGAGTTTAGAGTTTTAG
1 GTTTAAGGTTTATAATTTAAGA-TTTAGAGTTTTAG
* *
410975 GTTTTAGGTTTATAATTTAAGATTTATAGTTT
1 GTTTAAGGTTTATAATTTAAGATTTAGAGTTT
411007 AGAGTATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 26 0.90
36 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.52
Consensus pattern (35 bp):
GTTTAAGGTTTATAATTTAAGATTTAGAGTTTTAG
Found at i:411006 original size:21 final size:21
Alignment explanation
Indices: 410980--411034 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
410970 TTTAGGTTTT
*
410980 AGGTTTATAATTTAAGATTTA
1 AGGTTTATAATATAAGATTTA
* *
411001 TA-GTTTAGAGTATAAGATTTA
1 -AGGTTTATAATATAAGATTTA
*
411022 AGGTTTATGATAT
1 AGGTTTATAATAT
411035 TAGGGATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (21 bp):
AGGTTTATAATATAAGATTTA
Found at i:411272 original size:29 final size:30
Alignment explanation
Indices: 411241--411318 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
411231 AGGTTTGCTA
* *
411241 TTTAGGGTTTATGGTTTATTGTTTTAAGAT
1 TTTAGGGTTTATGGTTTATGGTTTTAAAAT
* * *
411271 TTTTGGTTTTATTGTTT-TGGTTTTAAAAT
1 TTTAGGGTTTATGGTTTATGGTTTTAAAAT
*
411300 TTTATGGTTTATGGTTTAT
1 TTTAGGGTTTATGGTTTAT
411319 AATTTAGTCA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.62
Consensus pattern (30 bp):
TTTAGGGTTTATGGTTTATGGTTTTAAAAT
Found at i:411519 original size:7 final size:7
Alignment explanation
Indices: 411509--411619 Score: 60
Period size: 7 Copynumber: 15.7 Consensus size: 7
411499 TGTTTGTAGT
411509 GTTTAAG
1 GTTTAAG
*
411516 GTTTAAA
1 GTTTAAG
*
411523 GTTTACG
1 GTTTAAG
411530 GTTTAGAG
1 GTTTA-AG
* *
411538 TTTTATG
1 GTTTAAG
**
411545 GTTTGTG
1 GTTTAAG
*
411552 ATTTAAG
1 GTTTAAG
*
411559 GTTTAAT
1 GTTTAAG
*
411566 GTTTAAT
1 GTTTAAG
*
411573 GTTTAGG
1 GTTTAAG
*
411580 GTTTAGG
1 GTTTAAG
* *
411587 GTTTTAT
1 GTTTAAG
* *
411594 TTTTAAT
1 GTTTAAG
*
411601 GTTTAGG
1 GTTTAAG
411608 GTTTAAG
1 GTTTAAG
*
411615 ATTTA
1 GTTTA
411620 TTATTTATGT
Statistics
Matches: 78, Mismatches: 25, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
7 73 0.94
8 5 0.06
ACGTcount: A:0.23, C:0.01, G:0.24, T:0.51
Consensus pattern (7 bp):
GTTTAAG
Found at i:411590 original size:21 final size:21
Alignment explanation
Indices: 411553--411613 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
411543 TGGTTTGTGA
**
411553 TTTAAGGTTTAATGTTTAATG
1 TTTAAGGTTTAGGGTTTAATG
* * *
411574 TTTAGGGTTTAGGGTTTTATT
1 TTTAAGGTTTAGGGTTTAATG
*
411595 TTTAATGTTTAGGGTTTAA
1 TTTAAGGTTTAGGGTTTAA
411614 GATTTATTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTAATG
Found at i:411619 original size:21 final size:21
Alignment explanation
Indices: 411580--411661 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
411570 AATGTTTAGG
* **
411580 GTTTAGGGTTTTATTTTTAAT
1 GTTTAGGGTTTAAGATTTAAT
*
411601 GTTTAGGGTTTAAGATTTATT
1 GTTTAGGGTTTAAGATTTAAT
* * * *
411622 ATTTA-TGTTTTAGATTTTAT
1 GTTTAGGGTTTAAGATTTAAT
* *
411642 GGTTTAGAGTTTAAGGTTTA
1 -GTTTAGGGTTTAAGATTTA
411662 TGGGTTATTG
Statistics
Matches: 45, Mismatches: 14, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
20 11 0.24
21 25 0.56
22 9 0.20
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTAAT
Found at i:411640 original size:14 final size:14
Alignment explanation
Indices: 411623--411661 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
411613 AGATTTATTA
* *
411623 TTTATGTTTTAGAT
1 TTTATGGTTTAGAG
411637 TTTATGGTTTAGAG
1 TTTATGGTTTAGAG
*
411651 TTTAAGGTTTA
1 TTTATGGTTTA
411662 TGGGTTATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (14 bp):
TTTATGGTTTAGAG
Found at i:421953 original size:25 final size:24
Alignment explanation
Indices: 421906--421953 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
421896 TTTTAGTCAC
* *
421906 TTTTTATTTTTGATTTGGCTATTA
1 TTTTTATTTATGATTCGGCTATTA
*
421930 TTTTTATTATATGATTCGGTTATT
1 TTTTTATT-TATGATTCGGCTATT
421954 CATGATTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (24 bp):
TTTTTATTTATGATTCGGCTATTA
Found at i:424883 original size:25 final size:24
Alignment explanation
Indices: 424829--424886 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
424819 CATGACATGA
424829 GATATATGAAAGAGAAAATATATGT
1 GATATATGAAAGAG-AAATATATGT
*
424854 GATATATGAAAGTG-AATCATATGT
1 GATATATGAAAGAGAAAT-ATATGT
*
424878 -CTATATGAA
1 GATATATGAA
424887 TATGGGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 11 0.37
24 6 0.20
25 13 0.43
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (24 bp):
GATATATGAAAGAGAAATATATGT
Found at i:425015 original size:22 final size:22
Alignment explanation
Indices: 424989--425031 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
424979 CATTCAGGAC
424989 ATATGGACAAGTCCTTCGGGAT
1 ATATGGACAAGTCCTTCGGGAT
* **
425011 ATATGTATGAGTCCTTCGGGA
1 ATATGGACAAGTCCTTCGGGA
425032 CATAGATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (22 bp):
ATATGGACAAGTCCTTCGGGAT
Found at i:427260 original size:43 final size:42
Alignment explanation
Indices: 427119--427265 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 42
427109 ATTTGGTCTC
* *
427119 CACGGAAGAGTAGTGGAAATAAATCAACCTTGAATCTGATCTT
1 CACGGAAGAGTAGTGGAAA-AAATCAATCTCGAATCTGATCTT
* * * ** *
427162 CACGAAAGAGTAGT-GAAACAAATTC-TTTTCAAGTCAATCCAATCTC
1 CACGGAAGAGTAGTGGAAA-AAA-TCAATCTC--G--AATCTGATCTT
*
427208 CACGGAAGAGTAGTGGAAGAAAATCAATCTCGAATCTGACCTT
1 CACGGAAGAGTAGTGGAA-AAAATCAATCTCGAATCTGATCTT
427251 CACGGAAGAGTAGTG
1 CACGGAAGAGTAGTG
427266 AAGCAATGCA
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
42 8 0.10
43 37 0.46
44 1 0.01
45 1 0.01
46 23 0.29
47 9 0.11
48 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (42 bp):
CACGGAAGAGTAGTGGAAAAAATCAATCTCGAATCTGATCTT
Found at i:427511 original size:11 final size:11
Alignment explanation
Indices: 427492--427533 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
427482 TTATAAGTAG
*
427492 TATAATATTAT
1 TATATTATTAT
427503 TATATTATTAT
1 TATATTATTAT
**
427514 TATATTAGAAT
1 TATATTATTAT
427525 TA-ATTATTA
1 TATATTATTA
427534 CAATTTTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TATATTATTAT
Found at i:427612 original size:25 final size:26
Alignment explanation
Indices: 427564--427613 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
427554 TGAAGCCCAA
* *
427564 ATTACAACTCGAATGCCCATTTACAC
1 ATTACAACCCGAATGCCCAGTTACAC
*
427590 ATTAC-ACCCGAATGCCCGGTTACA
1 ATTACAACCCGAATGCCCAGTTACA
427614 ATAAAATCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (26 bp):
ATTACAACCCGAATGCCCAGTTACAC
Found at i:428623 original size:2 final size:2
Alignment explanation
Indices: 428616--428692 Score: 147
Period size: 2 Copynumber: 39.0 Consensus size: 2
428606 ACTGACCGTG
428616 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
428657 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
428693 CTTTATGATA
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 73 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:436599 original size:43 final size:43
Alignment explanation
Indices: 436522--436603 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
436512 ATGTACATCT
* ** *
436522 CCCAAAAAGTGTAGCTTTGGTGTAAATATATACATCTCCCAAA
1 CCCAAAAAGTATAGCACTGGTATAAATATATACATCTCCCAAA
* *
436565 CCCAAAAAGTATAGCACTGGTATAAGTATGTACATCTCC
1 CCCAAAAAGTATAGCACTGGTATAAATATATACATCTCC
436604 TAATACAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (43 bp):
CCCAAAAAGTATAGCACTGGTATAAATATATACATCTCCCAAA
Found at i:443584 original size:14 final size:14
Alignment explanation
Indices: 443565--443594 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
443555 GGTACTCGGG
443565 CAGTATAGATACCA
1 CAGTATAGATACCA
*
443579 CAGTATCGATACCA
1 CAGTATAGATACCA
443593 CA
1 CA
443595 AAGAAGAAGT
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:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (14 bp):
CAGTATAGATACCA
Found at i:445273 original size:57 final size:58
Alignment explanation
Indices: 445200--445314 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 58
445190 ACTCTTGGTT
445200 ATAATAACTAATAAGAAAAACCTAAGAGTATCTCCACTACTGGGATATCCAAAATGTA
1 ATAATAACTAATAAGAAAAACCTAAGAGTATCTCCACTACTGGGATATCCAAAATGTA
*
445258 ATAAT-ACTAATAAGAAAAACCTAAGATTATCTCCACTACTGGGATATCCAAAATGTA
1 ATAATAACTAATAAGAAAAACCTAAGAGTATCTCCACTACTGGGATATCCAAAATGTA
445315 GCCCAGAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 51 0.91
58 5 0.09
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.25
Consensus pattern (58 bp):
ATAATAACTAATAAGAAAAACCTAAGAGTATCTCCACTACTGGGATATCCAAAATGTA
Found at i:460084 original size:14 final size:14
Alignment explanation
Indices: 460065--460093 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
460055 AGAAAGTCAA
460065 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
460079 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
460093 C
1 C
460094 AGACCAGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.55, T:0.21
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:467373 original size:9 final size:9
Alignment explanation
Indices: 467359--467393 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
467349 ACCGGTTTAG
467359 ACCGGTCAA
1 ACCGGTCAA
467368 ACCGGTTCAAA
1 ACCGG-TC-AA
467379 ACCGGTCAA
1 ACCGGTCAA
467388 ACCGGT
1 ACCGGT
467394 TTTCAAGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 13 0.54
10 4 0.17
11 7 0.29
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.14
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:467382 original size:11 final size:10
Alignment explanation
Indices: 467349--467394 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
467339 GTCGGGTCAG
* *
467349 ACCGGTTTAG
1 ACCGGTTCAA
467359 ACCGG-TCAA
1 ACCGGTTCAA
467368 ACCGGTTCAAA
1 ACCGGTTC-AA
467379 ACCGG-TCAA
1 ACCGGTTCAA
467388 ACCGGTT
1 ACCGGTT
467395 TTCAAGCTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 14 0.45
10 10 0.32
11 7 0.23
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:473172 original size:2 final size:2
Alignment explanation
Indices: 473167--473197 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
473157 TCTATGTGTG
473167 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
473198 TAATTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:478865 original size:2 final size:2
Alignment explanation
Indices: 478860--478897 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
478850 AAAACAGTTT
478860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
478898 AATGAATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:490159 original size:24 final size:25
Alignment explanation
Indices: 490126--490178 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
490116 GGGATACTCT
*
490126 TTTTCCTCCCTTTAGGTTAGGG-AG
1 TTTTCATCCCTTTAGGTTAGGGAAG
490150 TTTTCATCCCTTTAGGTTAGGGAAG
1 TTTTCATCCCTTTAGGTTAGGGAAG
490175 TTTT
1 TTTT
490179 TTAATGAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (25 bp):
TTTTCATCCCTTTAGGTTAGGGAAG
Found at i:490429 original size:28 final size:28
Alignment explanation
Indices: 490397--490451 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
490387 TAAGACCTTG
490397 AAGTTTTGATTTAGATTATTAGTTTATT
1 AAGTTTTGATTTAGATTATTAGTTTATT
*
490425 AAGTTTTGATTTGGATTATTAGTTTAT
1 AAGTTTTGATTTAGATTATTAGTTTAT
490452 AAATTAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (28 bp):
AAGTTTTGATTTAGATTATTAGTTTATT
Found at i:506722 original size:18 final size:17
Alignment explanation
Indices: 506689--506721 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
506679 TTTAATATTT
506689 AATATTTAATTTTTTTA
1 AATATTTAATTTTTTTA
*
506706 AATATTTGATTTTTTT
1 AATATTTAATTTTTTT
506722 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
AATATTTAATTTTTTTA
Found at i:510572 original size:12 final size:12
Alignment explanation
Indices: 510555--510597 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
510545 ACACTGTATC
510555 ACTGTTCATGGT
1 ACTGTTCATGGT
510567 ACTGTTCAT--T
1 ACTGTTCATGGT
*
510577 ATTGTTCATGGT
1 ACTGTTCATGGT
*
510589 ATTGTTCAT
1 ACTGTTCAT
510598 AAAGACGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 9 0.32
12 19 0.68
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (12 bp):
ACTGTTCATGGT
Found at i:511391 original size:17 final size:17
Alignment explanation
Indices: 511347--511393 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
511337 TGAGGAGTGT
511347 TTTTAG-ATATATCGAA
1 TTTTAGTATATATCGAA
511363 TTTTGAGATATATATC-AGA
1 TTTT-AG-TATATATCGA-A
511382 TTTTAGTATATA
1 TTTTAGTATATA
511394 ATAAATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 3 0.11
19 12 0.44
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (17 bp):
TTTTAGTATATATCGAA
Found at i:514820 original size:17 final size:18
Alignment explanation
Indices: 514792--514825 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
514782 CCCTACTATT
514792 ATTATATATTATATTTTC
1 ATTATATATTATATTTTC
514810 ATTAT-TATTATATTTT
1 ATTATATATTATATTTT
514826 TATACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTATATATTATATTTTC
Found at i:526942 original size:48 final size:47
Alignment explanation
Indices: 526871--526961 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
526861 AATATTTCGC
* * *
526871 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTTGAAAAAAAAAATGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAA-ATTGAAAAAAAAAATGT
*
526919 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAAA
526962 TAGAAAAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 12 0.31
48 27 0.69
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (47 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAAAATGT
Found at i:528310 original size:106 final size:106
Alignment explanation
Indices: 527739--528711 Score: 1436
Period size: 106 Copynumber: 9.2 Consensus size: 106
527729 AGGTTTTACC
* *
527739 CAGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
527804 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCCCGATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
*
527844 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
527909 ACGAAGGGACCGCTGGTTGTCAACAAAC-ACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
527949 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
528014 ACGAAGGGACCGCTGGTTGTCAACAAA-TATTTCCCGATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
528054 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
528119 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
***
528159 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAGTACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** * *
528224 ACGAAGGGACCGCTGCCTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
** * * *
528265 CAGAGCCAATTTCAACTTCACAGTGAAGGATATTGAACTCAAGACAACGCAAGTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** *
528330 ACGAAGGGACCGCTAATTGTCAATAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * *
528371 CAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCCATACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
528436 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * * *
528477 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** * * *
528542 ACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAATGT
66 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * * * * *
528583 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCGACTTCAC-
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** * * *
528647 AGCGAAGGGA-CGACTGACTGTCAACGAACAATTTCTCAATTC
66 A-CGAAGGGACCG-CTGGTTGTCAACAAACAATTTCCCAATTT
* *
528689 CATAGCCAATTCCAACTTCACAA
1 CAGAGCCAATTTCAACTTCACAA
528712 ACAGATTGAC
Statistics
Matches: 801, Mismatches: 62, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
105 393 0.49
106 408 0.51
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (106 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
Found at i:540242 original size:35 final size:34
Alignment explanation
Indices: 540157--540243 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
540147 AAAATAGTTT
*
540157 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
540191 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
540229 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
540244 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:541435 original size:2 final size:2
Alignment explanation
Indices: 541428--541503 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
541418 AAACTAAAAC
541428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
541470 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
541504 TTTTATCAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:541905 original size:19 final size:19
Alignment explanation
Indices: 541881--541921 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
541871 GTACAGGCAA
541881 GCCCCAACTGAGTGATCCG
1 GCCCCAACTGAGTGATCCG
541900 GCCCCAACTGAGTGATCCG
1 GCCCCAACTGAGTGATCCG
541919 GCC
1 GCC
541922 AGATGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.15
Consensus pattern (19 bp):
GCCCCAACTGAGTGATCCG
Found at i:546944 original size:2 final size:2
Alignment explanation
Indices: 546937--546974 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
546927 CTGCTTTTTA
546937 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
546975 CCCCTCTCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:547253 original size:13 final size:13
Alignment explanation
Indices: 547235--547266 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
547225 TTTTTCATTT
547235 GGTTTTGAATTAG
1 GGTTTTGAATTAG
*
547248 GGTTTTGATTTAG
1 GGTTTTGAATTAG
547261 GGTTTT
1 GGTTTT
547267 AAGGTGAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (13 bp):
GGTTTTGAATTAG
Found at i:548559 original size:6 final size:6
Alignment explanation
Indices: 548548--548576 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
548538 AGAAAAGATA
548548 CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
548577 TACAGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCTCTC
Found at i:548805 original size:32 final size:33
Alignment explanation
Indices: 548758--548825 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
548748 TTAGGCCATG
*
548758 TTTAATTTTAGAAAAT-ATTTT-ATGTTTATGTT
1 TTTAATTTTAAAAAATAATTTTCATGTTTA-GTT
* *
548790 TTTATTTTTAAAAAATAATTTTCATTTTTAGTT
1 TTTAATTTTAAAAAATAATTTTCATGTTTAGTT
548823 TTT
1 TTT
548826 TTTAAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 14 0.45
33 11 0.35
34 6 0.19
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (33 bp):
TTTAATTTTAAAAAATAATTTTCATGTTTAGTT
Found at i:549535 original size:16 final size:16
Alignment explanation
Indices: 549504--549536 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
549494 AAAAATATAA
549504 ACAATTATTAAGATAT
1 ACAATTATTAAGATAT
549520 ACAATATATTAA-ATAT
1 ACAAT-TATTAAGATAT
549536 A
1 A
549537 AAAATACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (16 bp):
ACAATTATTAAGATAT
Found at i:551496 original size:22 final size:22
Alignment explanation
Indices: 551446--551497 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
551436 GAAGGTGAAA
*
551446 TTAATAAATTCATTACATTTTT
1 TTAATAAATTCATTACATTTAT
* *
551468 TTAATAATTTCATTTATATTTAT
1 TTAATAAATTCA-TTACATTTAT
551491 TT-ATAAA
1 TTAATAAA
551498 GTAGAATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATAAATTCATTACATTTAT
Found at i:553870 original size:18 final size:18
Alignment explanation
Indices: 553844--553884 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
553834 ATTGTTCGAA
*
553844 AAGACTGAAGTAAATGAT
1 AAGACTGAAGTAAATAAT
* *
553862 AAGATTGAATTAAATAAT
1 AAGACTGAAGTAAATAAT
553880 AAGAC
1 AAGAC
553885 CGGATGGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
AAGACTGAAGTAAATAAT
Found at i:555882 original size:31 final size:31
Alignment explanation
Indices: 555844--555935 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
555834 CCCGAAGGAC
* *
555844 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
555875 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
555906 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
555936 CCCTCGACCC
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:560281 original size:31 final size:31
Alignment explanation
Indices: 560243--560334 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
560233 CCCGAAGGAC
* *
560243 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
560274 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
560305 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
560335 CCCTCGACCC
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:565730 original size:18 final size:18
Alignment explanation
Indices: 565704--565744 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
565694 ATTGTTCGAA
* *
565704 AAGACTGAAGTAAATGAT
1 AAGATTGAAGTAAATAAT
*
565722 AAGATTGAATTAAATAAT
1 AAGATTGAAGTAAATAAT
565740 AAGAT
1 AAGAT
565745 CGGATGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.27
Consensus pattern (18 bp):
AAGATTGAAGTAAATAAT
Found at i:568614 original size:16 final size:15
Alignment explanation
Indices: 568588--568626 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
568578 TTATGAGGTG
568588 AAAAAAT-ATTATTGT
1 AAAAAATAATTATT-T
568603 AAAAAATAATTATTT
1 AAAAAATAATTATTT
568618 AAAACAATA
1 AAAA-AATA
568627 TCTAACTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAAAATAATTATTT
Found at i:578719 original size:22 final size:19
Alignment explanation
Indices: 578668--578720 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
578658 CCCTATATAT
*
578668 ATATTATTTTTTTAATTAA
1 ATATTTTTTTTTTAATTAA
*
578687 ATCTTTATTTTTATTGAATTAAA
1 ATATTT-TTTTT-TT-AATT-AA
578710 ATATTTTTTTT
1 ATATTTTTTTT
578721 CTTTTGGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 2 0.07
22 9 0.33
23 7 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATATTTTTTTTTTAATTAA
Found at i:583102 original size:14 final size:14
Alignment explanation
Indices: 583067--583105 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
583057 TCTGTCCATG
* *
583067 TGCAGAGATTTTTT
1 TGCAGGGATTTATT
583081 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
583096 TGCAGGGATT
1 TGCAGGGATT
583106 ACTTTCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:584915 original size:5 final size:5
Alignment explanation
Indices: 584905--584969 Score: 53
Period size: 5 Copynumber: 13.2 Consensus size: 5
584895 TATTTAAAAG
* * * *
584905 ATATT ATATT ATATT ATATT ATAAT AAATT AATATT -T-TA ATATT TTATT
1 ATATT ATATT ATATT ATATT ATATT ATATT -ATATT ATATT ATATT ATATT
* *
584954 AAATT GTATT ATATT A
1 ATATT ATATT ATATT A
584970 ATTTTTTTTG
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 38 0.84
6 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:588480 original size:20 final size:19
Alignment explanation
Indices: 588442--588481 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
588432 AAAATGTTTT
*
588442 TATGAATAGTATTATACTG
1 TATGAATAGTATGATACTG
588461 TATGAATAGTATCGATACTG
1 TATGAATAGTAT-GATACTG
588481 T
1 T
588482 GTACCGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (19 bp):
TATGAATAGTATGATACTG
Found at i:589172 original size:31 final size:31
Alignment explanation
Indices: 589134--589227 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
589124 CCCGAAGGAC
* *
589134 CAGTCCATAGGTCCCGAA-AATCCTAGGTAAT
1 CAGTCCATATGTCCCGAAGAA-CATAGGTAAT
*
589165 CAGTCCATATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
*
589196 CAGTCCATATGTCCTGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
589227 C
1 C
589228 CTCGACTCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 55 0.96
32 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAT
Found at i:594797 original size:17 final size:17
Alignment explanation
Indices: 594775--594809 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
594765 ATGCAATAAC
*
594775 ATATAACACATATACTT
1 ATATAAAACATATACTT
*
594792 ATATAAAACATATGCTT
1 ATATAAAACATATACTT
594809 A
1 A
594810 CATTCATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (17 bp):
ATATAAAACATATACTT
Found at i:598312 original size:22 final size:22
Alignment explanation
Indices: 598287--598343 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
598277 GGCATGCGAA
*
598287 ATGTATCCTGAAGGACCTATGC
1 ATGTATCCCGAAGGACCTATGC
* *
598309 ATGTGTCCCGAAGGACCTATCC
1 ATGTATCCCGAAGGACCTATGC
* *
598331 ATATGTCCCGAAG
1 ATGTATCCCGAAG
598344 AAAATAGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (22 bp):
ATGTATCCCGAAGGACCTATGC
Found at i:598398 original size:32 final size:31
Alignment explanation
Indices: 598323--598419 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
598313 GTCCCGAAGG
* *
598323 ACCTATCCATATGTCCCGAAGAAAATAGGTA
1 ACCTGTCCATATGTCCCGAAGAACATAGGTA
*
598354 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGAACATAGGTA
*
598385 ATCTTGTCCATATGTCCCGAAGAACATAGGTA
1 A-CCTGTCCATATGTCCCGAAGAACATAGGTA
598417 ACC
1 ACC
598420 CTCGACTCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 30 0.51
32 29 0.49
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (31 bp):
ACCTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:598644 original size:18 final size:19
Alignment explanation
Indices: 598609--598653 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
598599 TATATCATGT
*
598609 TCACATATATTTCCCATAAA
1 TCACATATA-TTCACATAAA
598629 TCACATATA-TCACATAAA
1 TCACATATATTCACATAAA
*
598647 CCACATA
1 TCACATA
598654 ACACATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 14 0.61
20 9 0.39
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (19 bp):
TCACATATATTCACATAAA
Found at i:599707 original size:21 final size:21
Alignment explanation
Indices: 599681--599735 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
599671 AAGTTCCCCG
*
599681 GGTATCGATACCCTCCACATA
1 GGTATCGATACCCTCCACACA
** * *
599702 GGTATCGATACTATTCATACA
1 GGTATCGATACCCTCCACACA
599723 GGTATCGATACCC
1 GGTATCGATACCC
599736 CATGAATCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
GGTATCGATACCCTCCACACA
Found at i:602262 original size:59 final size:59
Alignment explanation
Indices: 602181--602551 Score: 406
Period size: 59 Copynumber: 6.3 Consensus size: 59
602171 TGTTGGTTTA
* ** * * *
602181 TATTGTTGATAAATAGTTTTAAAAGAGTGTTTGATACGTAATTAATTTTGGTTATAGTGG
1 TATTTTTG-TAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
* * *
602241 TATTTTTGTAAATAATATTAAAAGAATGACTAATACGTAATTAATTTCGGTTATGGTGG
1 TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
* * *
602300 TATTTTTGTAAATCGTTTTAAAAGAGTGACTAATACATAATTAATTTCGGTTATGGTAG
1 TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
* * * * * *
602359 TATTTTTGTAAATAGCTTTAAAAG-GTAACTATTACATTATTAATTTCGGTTATGGTGT
1 TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
* * * * *
602417 TATTTTTGTAAATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTCTGTTA-GGTGC
1 TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
** * * ** * * *
602475 TATTTTTGTAAATTTTTTTTTAAAAGGGTGCCTAATACGTAATTAATTTTTGTAAGGGTGA
1 TATTTTTGTAAA--TAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
602536 TATTTTTGTAAA-AGTT
1 TATTTTTGTAAATAGTT
602552 GACTGTTTAC
Statistics
Matches: 270, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
58 69 0.26
59 140 0.52
60 45 0.17
61 16 0.06
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (59 bp):
TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
Found at i:602450 original size:117 final size:117
Alignment explanation
Indices: 602181--602487 Score: 377
Period size: 117 Copynumber: 2.6 Consensus size: 117
602171 TGTTGGTTTA
* ** * * *
602181 TATTGTTGATAAATAGTTTTAAAAGAGTGTTTGATACGTAATTAATTTTGGTTATAGTGGTATTT
1 TATTTTTG-TAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGT-GTATTT
* *
602246 TTGTAAATAATATTAAAAGAATGACTAATACGTAATTAATTTCGGTTATGGTGG
64 TTGTAAATAATATTAAAAGAATAACTAATACATAATTAATTTCGGTTATGGTGG
* *
602300 TATTTTTGTAAATCGTTTTAAAAGAGTGACTAATACATAATTAATTTCGGTTATGGTAGTATTTT
1 TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGT-GTATTTT
* * * * *
602365 TGTAAATAGCT-TTAAAAG-GTAACTATTACATTATTAATTTCGGTTATGGTGT
65 TGTAAATA-ATATTAAAAGAATAACTAATACATAATTAATTTCGGTTATGGTGG
* * * *
602417 TATTTTTGTAAATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTCTGTTA-GGTGCTATTTT
1 TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTG-TATTTT
602481 TGTAAAT
65 TGTAAAT
602488 TTTTTTTTAA
Statistics
Matches: 164, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
115 1 0.01
116 16 0.10
117 75 0.46
118 64 0.39
119 8 0.05
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.45
Consensus pattern (117 bp):
TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGTATTTTT
GTAAATAATATTAAAAGAATAACTAATACATAATTAATTTCGGTTATGGTGG
Found at i:602525 original size:30 final size:30
Alignment explanation
Indices: 602430--602534 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 30
602420 TTTTGTAAAT
602430 ATTTTTAAAAGGGTGCCTAATACGTAATTA
1 ATTTTTAAAAGGGTGCCTAATACGTAATTA
* *** * ** *
602460 ATTTCTGTTA-GGTG-CTATTTTTGTAAATTT
1 ATTTTTAAAAGGGTGCCTA-ATACGT-AATTA
*
602490 TTTTTTAAAAGGGTGCCTAATACGTAATTA
1 ATTTTTAAAAGGGTGCCTAATACGTAATTA
**
602520 ATTTTTGTAAGGGTG
1 ATTTTTAAAAGGGTG
602535 ATATTTTTGT
Statistics
Matches: 51, Mismatches: 20, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
28 3 0.06
29 7 0.14
30 31 0.61
31 7 0.14
32 3 0.06
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.45
Consensus pattern (30 bp):
ATTTTTAAAAGGGTGCCTAATACGTAATTA
Found at i:606828 original size:58 final size:59
Alignment explanation
Indices: 606512--606938 Score: 540
Period size: 59 Copynumber: 7.3 Consensus size: 59
606502 TGTTGGTTTA
* * * * ** *
606512 TATTGTTGATAAATAGTTTTAAAAGAGTGGCTGATACGTAATTAATTTCCGTTATAGTGG
1 TATTTTTG-TAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTATTATGGTGG
* * *
606572 TATTTTTGTAAATAGTATTAAAAGAGTGACTAATACGTAATTAATTTCGATTATGGTGG
1 TATTTTTGTAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTATTATGGTGG
* **
606631 TATTTTTGTAAATAGTTTTAAAAGAGTGACTAATACGTAATTAATTTCGGTTATGGTGG
1 TATTTTTGTAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTATTATGGTGG
* *
606690 TATTTTTGTAAATAGTTTTAAAAGGATGACTAATACGTAATTAATTTC-AGTTATGGTGT
1 TATTTTTGTAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTA-TTATGGTGG
* * * *
606749 TATTTTTGTAAATATTTTTAAAAGGGTGCCAAATACGTAATTAATTTCTATT-TGGTGC
1 TATTTTTGTAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTATTATGGTGG
* * *
606807 TATTTTTGTAAATATTTTTAAAAGGGTGCCTAATACGTAATTAATTTCTATTA-GGTGT
1 TATTTTTGTAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTATTATGGTGG
* * * * * *
606865 TATTTTTGTAAATATTTTTAAAA-GGTGCCTAATACGTAATTAATTTCTGTAAGGGTGC
1 TATTTTTGTAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTATTATGGTGG
*
606923 TATTTTTGCAAA-AGTT
1 TATTTTTGTAAATAGTT
606939 GATTGTTTAC
Statistics
Matches: 338, Mismatches: 25, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
57 30 0.09
58 98 0.29
59 202 0.60
60 8 0.02
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (59 bp):
TATTTTTGTAAATAGTTTTAAAAGGGTGACTAATACGTAATTAATTTCTATTATGGTGG
Found at i:606863 original size:29 final size:29
Alignment explanation
Indices: 606762--606912 Score: 76
Period size: 29 Copynumber: 5.2 Consensus size: 29
606752 TTTTGTAAAT
* *
606762 ATTTTTAAAAGGGTGCCAAATACGTAATTA
1 ATTTCTAAAA-GGTGCCTAATACGTAATTA
*** * ** *
606792 ATTTCTATTTGGTG-CTATTTTTGTAAAT-
1 ATTTCTAAAAGGTGCCTA-ATACGTAATTA
*
606820 ATTTTTAAAAGGGTGCCTAATACGTAATTA
1 ATTTCTAAAA-GGTGCCTAATACGTAATTA
** * * ** *
606850 ATTTCTATTAGGTG-TTATTTTTGTAAAT-
1 ATTTCTAAAAGGTGCCTA-ATACGTAATTA
*
606878 ATTTTTAAAAGGTGCCTAATACGTAATTA
1 ATTTCTAAAAGGTGCCTAATACGTAATTA
606907 ATTTCT
1 ATTTCT
606913 GTAAGGGTGC
Statistics
Matches: 80, Mismatches: 34, Indels: 15
0.62 0.26 0.12
Matches are distributed among these distances:
28 27 0.34
29 37 0.46
30 16 0.20
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (29 bp):
ATTTCTAAAAGGTGCCTAATACGTAATTA
Found at i:607829 original size:31 final size:31
Alignment explanation
Indices: 607791--607865 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 31
607781 TAAGTTGAGC
* ** *
607791 CTTGGGTAGGCTTTGCGGCCTTGAGAATTTT
1 CTTGGGTAGGCTTAGCGGCCCCGAGAATTGT
* *
607822 CTTGGGTAAGCCTTAGTGGCCCCGAGAATTGT
1 CTTGGGT-AGGCTTAGCGGCCCCGAGAATTGT
*
607854 CTTGTGTAGGCT
1 CTTGGGTAGGCT
607866 CGCAGGCCCC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 11 0.31
32 24 0.69
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.35
Consensus pattern (31 bp):
CTTGGGTAGGCTTAGCGGCCCCGAGAATTGT
Found at i:608583 original size:13 final size:13
Alignment explanation
Indices: 608565--608591 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
608555 GCGTTTTGAA
608565 CTGTCAGCTTTTC
1 CTGTCAGCTTTTC
608578 CTGTCAGCTTTTC
1 CTGTCAGCTTTTC
608591 C
1 C
608592 AAGCGGGAAA
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:0.07, C:0.33, G:0.15, T:0.44
Consensus pattern (13 bp):
CTGTCAGCTTTTC
Found at i:610636 original size:19 final size:19
Alignment explanation
Indices: 610597--610638 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
610587 ATAACTATTT
* *
610597 TTATTATTTTAAATATGAA
1 TTATTATTTTAAACATAAA
*
610616 TTATTATTTTATACATAAA
1 TTATTATTTTAAACATAAA
610635 TTAT
1 TTAT
610639 ATAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTATTTTAAACATAAA
Found at i:614153 original size:32 final size:32
Alignment explanation
Indices: 614116--614184 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
614106 TGTACATCAC
614116 ATATGAAAAAAATATAAAACATATATATATAT
1 ATATGAAAAAAATATAAAACATATATATATAT
614148 ATATGAAAAAAATATAAAACATATATATATAT
1 ATATGAAAAAAATATAAAACATATATATATAT
614180 ATATG
1 ATATG
614185 TCTCTCGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (32 bp):
ATATGAAAAAAATATAAAACATATATATATAT
Found at i:614507 original size:3 final size:3
Alignment explanation
Indices: 614499--614527 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
614489 GAATTGGGTT
614499 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
614528 ATAAAAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:618275 original size:64 final size:64
Alignment explanation
Indices: 618174--618332 Score: 214
Period size: 64 Copynumber: 2.5 Consensus size: 64
618164 TACACTTGGG
* * *
618174 GTGTATTGGTACACTAATTGCATTCGATGTTTTAATAAAGCCA-GAGTGCATCGATGCATAGGAT
1 GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAAGCCAGGAGTGCATCGATGCAT-GGAT
* * * *
618238 GTGTATCGGTACACAAACTGCATTCGATGTTTTAATAAAGCTAGGAGTGTATCGATGCATGGTT
1 GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAAGCCAGGAGTGCATCGATGCATGGAT
*
618302 GTGCATCGGTACACAAAATAGC-TTCGATGTT
1 GTGTATCGGTACACAAAAT-GCATTCGATGTT
618333 GGGTGTGCAT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
64 68 0.80
65 17 0.20
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAAGCCAGGAGTGCATCGATGCATGGAT
Found at i:626186 original size:17 final size:17
Alignment explanation
Indices: 626164--626219 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
626154 AACAGTCAAC
*
626164 GGTCAACGGTCGGGACG
1 GGTCAACGGTCGGGTCG
626181 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
626198 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
626215 GGTCA
1 GGTCA
626220 GACCGGTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.16
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Done.