Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000692.1 Hibiscus syriacus cultivar Beakdansim tig00001349_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: 1095174
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 5
Found at i:696606 original size:42 final size:43
Alignment explanation
Indices: 696519--696607 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 43
696509 TTTATTCATT
* * *
696519 ACATTTTAAAGTGTCTAATATTAAAATTTGATTGTTAAGTTAC
1 ACATTTTAAAGTATCTAACATTAAAATTTGATTGTTAAGTGAC
*
696562 ACATTTTTAAGTATCTAACATT-AAATTTGATTGTTAAGTGAC
1 ACATTTTAAAGTATCTAACATTAAAATTTGATTGTTAAGTGAC
696604 ACAT
1 ACAT
696608 GTCACGTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 23 0.55
43 19 0.45
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (43 bp):
ACATTTTAAAGTATCTAACATTAAAATTTGATTGTTAAGTGAC
Found at i:698321 original size:16 final size:15
Alignment explanation
Indices: 698299--698341 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
698289 AATTAAATTA
698299 AAATAAAGAAAAAAT
1 AAATAAAGAAAAAAT
* *
698314 AAATTAAATAAAAGAT
1 AAA-TAAAGAAAAAAT
698330 AAGATAAAGAAA
1 AA-ATAAAGAAA
698342 GAAAAGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.13
16 19 0.83
17 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (15 bp):
AAATAAAGAAAAAAT
Found at i:698327 original size:21 final size:20
Alignment explanation
Indices: 698292--698355 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
698282 ATAAATTAAT
*
698292 TAAATTAAAATAAAGAAAAAA
1 TAAATTAAAA-AAAGATAAAA
*
698313 TAAATTAAATAAAAGATAAGA
1 TAAATTAAA-AAAAGATAAAA
*
698334 TAAA-GAAAGAAAAGATAAAA
1 TAAATTAAA-AAAAGATAAAA
698354 TA
1 TA
698356 GTAAGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 15 0.41
21 21 0.57
22 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (20 bp):
TAAATTAAAAAAAGATAAAA
Found at i:698388 original size:12 final size:12
Alignment explanation
Indices: 698371--698402 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
698361 TAAAATGAAT
*
698371 AAAAAATATATA
1 AAAAAATATAAA
698383 AAAAAATATAAA
1 AAAAAATATAAA
698395 AAAAAATA
1 AAAAAATA
698403 AAGAGAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAAATATAAA
Found at i:698448 original size:47 final size:46
Alignment explanation
Indices: 698370--698476 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 46
698360 GTAAAATGAA
* *
698370 TAAAAA-ATATATAAAAAAATATAAAAAAAAATAA-AGAGAAAGAAG
1 TAAAAATATATATAAAAAAACATAAAAAAAAATAATA-AGAAAAAAG
*
698415 -AAAAATATATATAAATAAAACA-AATAAATAAAATAATAATAAAAAAG
1 TAAAAATATATATAAA-AAAACATAA-AAA-AAAATAATAAGAAAAAAG
698462 TAAAAATAATATATA
1 TAAAAAT-ATATATA
698477 TATATATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
44 5 0.10
45 11 0.21
46 8 0.15
47 14 0.27
48 7 0.13
49 7 0.13
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.21
Consensus pattern (46 bp):
TAAAAATATATATAAAAAAACATAAAAAAAAATAATAAGAAAAAAG
Found at i:698515 original size:37 final size:35
Alignment explanation
Indices: 698447--698521 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
698437 AATAAATAAA
*
698447 ATAATAATAAAAAAGTAAAAATAATATATATATAT
1 ATAATAATAAAAAAGTAAAAATAATAAATATATAT
*
698482 ATAATAAATAAAAACA-TAAAAAATAGTAAATATATAT
1 ATAAT-AATAAAAA-AGT-AAAAATAATAAATATATAT
698519 ATA
1 ATA
698522 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 5 0.14
36 9 0.26
37 21 0.60
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (35 bp):
ATAATAATAAAAAAGTAAAAATAATAAATATATAT
Found at i:698516 original size:2 final size:2
Alignment explanation
Indices: 698511--698621 Score: 124
Period size: 2 Copynumber: 58.0 Consensus size: 2
698501 AAAATAGTAA
* * *
698511 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T A- AT A- AA AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
698550 AG AT A- AT AA AA AT A- AG 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
698590 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
698622 GTAATCTAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
1 5 0.05
2 91 0.95
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:699226 original size:37 final size:37
Alignment explanation
Indices: 699176--699247 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
699166 TTATGGATCC
*
699176 TATTTTTAGGAGTTTAAATCATAGTAGAACTCTATCA
1 TATTTTTAGGAGTTTAAATCATAGTAAAACTCTATCA
*
699213 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
1 TATTTTTAGGAGTTTAAATCATAGTAAAACTCTAT
699248 GTCCACCCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.42
Consensus pattern (37 bp):
TATTTTTAGGAGTTTAAATCATAGTAAAACTCTATCA
Found at i:702213 original size:69 final size:69
Alignment explanation
Indices: 702095--702232 Score: 224
Period size: 69 Copynumber: 2.0 Consensus size: 69
702085 GATTCAAACT
* *
702095 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAACCAATCCACTCGAAGATCATAGAGCA
702160 TCAA
66 TCAA
* *
702164 ATGAGATTGATCAAGCACAATCA-TTTCTGAATCATTGAATCAATCCACTCGAAGATCATAGAGC
1 ATGAGATTGATCAAGCACAATCATTTTC-GAATCACTGAACCAATCCACTCGAAGATCATAGAGC
702228 ATCAA
65 ATCAA
702233 GAAAGAGATA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
68 4 0.06
69 60 0.94
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAACCAATCCACTCGAAGATCATAGAGCA
TCAA
Found at i:703099 original size:64 final size:63
Alignment explanation
Indices: 703031--703211 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
703021 TTGGAACACT
* ***
703031 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
703095 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * *
703159 AGAGTGCACCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
703212 CAATTAATTC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
64 54 0.55
65 44 0.45
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:703183 original size:19 final size:19
Alignment explanation
Indices: 703159--703197 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
703149 GAAAATATTC
703159 AGAGTGCACCGATGCATGG
1 AGAGTGCACCGATGCATGG
* *
703178 AGAGTGCATCGGTGCATGG
1 AGAGTGCACCGATGCATGG
703197 A
1 A
703198 ATGCATTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.38, T:0.18
Consensus pattern (19 bp):
AGAGTGCACCGATGCATGG
Found at i:703185 original size:65 final size:65
Alignment explanation
Indices: 703052--703211 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
703042 TGCACCAAGT
* * ***
703052 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCACCGATGCATGGAGA
* **
703116 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCACCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCACCGATGCATGGAG
703180 A
65 A
* *
703181 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
703212 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.45
65 46 0.55
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCACCGATGCATGGAGA
Found at i:703451 original size:20 final size:21
Alignment explanation
Indices: 703428--703467 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
703418 GAATCGAATA
703428 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
703448 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
703468 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:710291 original size:56 final size:57
Alignment explanation
Indices: 710216--710324 Score: 159
Period size: 56 Copynumber: 1.9 Consensus size: 57
710206 TGTGCATCGA
* *
710216 TGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGA-TGCATCGATGCATGGCTTG
1 TGCATCAAATGCATTCGATGTTTTG-AAAATAGCCAGAGTGCATCGATGCATGGCTTG
**
710272 TGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 TGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGG
710325 AGAGTGCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
56 28 0.60
57 19 0.40
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (57 bp):
TGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGCTTG
Found at i:710330 original size:19 final size:19
Alignment explanation
Indices: 710306--710356 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
710296 GAAAATATTC
710306 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
710325 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
710344 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
710357 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:710598 original size:20 final size:21
Alignment explanation
Indices: 710575--710614 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
710565 GAATCGAATA
710575 TAAAAT-TATAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
710595 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
710615 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:711575 original size:23 final size:22
Alignment explanation
Indices: 711544--711592 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
711534 TGGTGGTTGG
*
711544 TTTTATGGT-TGTTTAAACTTTA
1 TTTTATGGTATATTTAAAC-TTA
*
711566 TTTTAATGGTATATTTAAGCTTA
1 TTTT-ATGGTATATTTAAACTTA
711589 TTTT
1 TTTT
711593 GGCTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 12 0.52
24 7 0.30
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.59
Consensus pattern (22 bp):
TTTTATGGTATATTTAAACTTA
Found at i:720823 original size:32 final size:32
Alignment explanation
Indices: 720786--720892 Score: 119
Period size: 32 Copynumber: 3.3 Consensus size: 32
720776 GGAACAATGA
720786 GGGCATCTTTGAAGATTCAACATCAGATGTTG
1 GGGCATCTTTGAAGATTCAACATCAGATGTTG
* * * * *
720818 GGGCATTTTTTAAGATTTAACATAAAATGTTG
1 GGGCATCTTTGAAGATTCAACATCAGATGTTG
* *
720850 GGGCATATTTTG-AGATTCAACATC-GAATATTG
1 GGGCAT-CTTTGAAGATTCAACATCAG-ATGTTG
720882 GGGCATCTTTG
1 GGGCATCTTTG
720893 GGAATTCAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
31 4 0.06
32 54 0.87
33 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (32 bp):
GGGCATCTTTGAAGATTCAACATCAGATGTTG
Found at i:723167 original size:15 final size:15
Alignment explanation
Indices: 723130--723161 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
723120 AAGTTTTGTC
723130 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
723145 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
723160 TC
1 TC
723162 CTTTGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:723188 original size:37 final size:37
Alignment explanation
Indices: 723145--723251 Score: 171
Period size: 36 Copynumber: 2.9 Consensus size: 37
723135 TGAGACAGTT
723145 TCTCTTGAGACAGTTTCCTTTGAAACAAAATCTTGTC
1 TCTCTTGAGACAGTTTCCTTTGAAACAAAATCTTGTC
* * *
723182 TTTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTC
1 TCTCTTGAGACAGTTTCCTTTGAAACAAAATCTTGTC
*
723218 TCTCTTGGGACAGTTTCCTTTGAAACAAAATCTT
1 TCTCTTGAGACAGTTTCCTTTGAAACAAAATCTT
723252 TGAATATCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 32 0.52
37 30 0.48
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
TCTCTTGAGACAGTTTCCTTTGAAACAAAATCTTGTC
Found at i:723327 original size:37 final size:36
Alignment explanation
Indices: 723266--723381 Score: 162
Period size: 36 Copynumber: 3.2 Consensus size: 36
723256 TATCTTTTCA
* *
723266 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
723302 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
723339 TTGAAACAAATTTTGTCTTTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
723375 TTGAAAC
1 TTGAAAC
723382 TAAAAAAAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.01
36 38 0.54
37 31 0.44
38 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:723583 original size:83 final size:84
Alignment explanation
Indices: 723444--723699 Score: 277
Period size: 83 Copynumber: 3.1 Consensus size: 84
723434 CTCTTGAAAC
* * *
723444 ACAAAG-CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAATG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTGCAGCATAACTCAAGG
* *
723508 CTATAAGGGTTATCTGTCA
66 CAATAAGGGTTATCAGTCA
* * *
723527 ACAAAGACCTTCGAGTTCGACTACGCTCAGTTTC-AAGGCATATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTGCAGCATAACTCAAGG
723591 CAATAAGGGTTATCAGTCA
66 CAATAAGGGTTATCAGTCA
* * * * * * * *
723610 TCAAAGACCTTCGAGTTTGATTACATTCAAC-TC-AGAGGCAAATCAAATTTACAGCATAGCTCA
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCGA-AGGCACATC--ATTTGCAGCATAACTCA
* * * *
723673 AGGCAAGAAGGGCTATCTGCCA
63 AGGCAATAAGGGTTATCAGTCA
723695 ACAAA
1 ACAAA
723700 ATTGTCGAGT
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
82 3 0.02
83 82 0.56
84 24 0.16
85 37 0.25
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (84 bp):
ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTGCAGCATAACTCAAGG
CAATAAGGGTTATCAGTCA
Found at i:724215 original size:37 final size:37
Alignment explanation
Indices: 724169--724311 Score: 128
Period size: 37 Copynumber: 3.9 Consensus size: 37
724159 ACAACCCTAA
* *
724169 TTTAGTAGGATTCAAAAAAC-AAACATAGCG-TTAGAGT
1 TTTACTAGGATTCAAAAAACTAAAAATAG-GATT-GAGT
***
724206 TTTACTAGGATTCAAACTCCTAAAAATAGGATTGAGT
1 TTTACTAGGATTCAAAAAACTAAAAATAGGATTGAGT
*** *
724243 TTTACTAGGATTCAAACTCCTAAAAATAGGATAGAGT
1 TTTACTAGGATTCAAAAAACTAAAAATAGGATTGAGT
* * ***
724280 TCTACTATGATTCAAACTCCTAAAAATAGGAT
1 TTTACTAGGATTCAAAAAACTAAAAATAGGAT
724312 CCAGAAGCAT
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
37 87 0.91
38 9 0.09
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
TTTACTAGGATTCAAAAAACTAAAAATAGGATTGAGT
Found at i:724874 original size:38 final size:40
Alignment explanation
Indices: 724832--724918 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
724822 ATTTTTTTAG
724832 TATATATATT-TTTTTTATT-T-T-TTTAGATTACATATATA
1 TATATATATTATTTTTTATTATCTGTTT-GATTA-ATATATA
*
724870 TATATATATTATTTTTTATTATCTGTTTTATTAATATATA
1 TATATATATTATTTTTTATTATCTGTTTGATTAATATATA
724910 TATATATAT
1 TATATATAT
724919 ATACATACTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
38 10 0.23
39 9 0.20
40 17 0.39
41 5 0.11
42 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (40 bp):
TATATATATTATTTTTTATTATCTGTTTGATTAATATATA
Found at i:724948 original size:48 final size:47
Alignment explanation
Indices: 724863--724959 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 47
724853 TTTAGATTAC
* *
724863 ATATATATATATATATTATTTTTTATTATCTGTTTTATTAATATATAT
1 ATATATATATACATACTATTTTTTATTATCTGTTTTATT-ATATATAT
*
724911 ATATATATATACATACTATTTTTTATGT-T-TTTATTTATTATATATAT
1 ATATATATATACATACTATTTTTTAT-TATCTGT-TTTATTATATATAT
724958 AT
1 AT
724960 TATTTTTACT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
47 12 0.27
48 31 0.70
49 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (47 bp):
ATATATATATACATACTATTTTTTATTATCTGTTTTATTATATATAT
Found at i:724979 original size:28 final size:27
Alignment explanation
Indices: 724940--725011 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 27
724930 TTTTTATGTT
724940 TTTA-TTTATTATATATATATTA-TT-
1 TTTATTTTATTATATATATATTATTTA
*
724964 TTTACTTTT-TTAT-TATTATTTTATTTA
1 TTTA-TTTTATTATATA-TATATTATTTA
724991 TTTATTTTATT-TATATATATT
1 TTTATTTTATTATATATATATT
725012 TTTCTTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
24 6 0.15
25 10 0.26
26 15 0.38
27 8 0.21
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTATTTTATTATATATATATTATTTA
Found at i:724980 original size:31 final size:33
Alignment explanation
Indices: 724916--724982 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
724906 TATATATATA
724916 TATATACATACTATTTTTTATGTTTTTATTTAT
1 TATATACATACTATTTTTTATGTTTTTATTTAT
* *
724949 TATATATATATTA-TTTTTACT-TTTTTA-TTAT
1 TATATACATACTATTTTTTA-TGTTTTTATTTAT
724980 TAT
1 TAT
724983 TTTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 7 0.23
32 12 0.39
33 12 0.39
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (33 bp):
TATATACATACTATTTTTTATGTTTTTATTTAT
Found at i:724991 original size:47 final size:50
Alignment explanation
Indices: 724926--725068 Score: 145
Period size: 47 Copynumber: 2.9 Consensus size: 50
724916 TATATACATA
* * *
724926 CTATTTTTTATGTT-TTTATTTATTATATATATATTATTTTTACTT-TTT
1 CTATTTATTATTTTATTTATTTATTATATTTATATTATTTTTACTTCTTT
*
724974 -TA-TTATTATTTTATTTATTTATTTTATTTATATATATTTTT-CTTCTTT
1 CTATTTATTATTTTATTTATTTATTATATTTATAT-TATTTTTACTTCTTT
* * * *
725022 CTATTTATTTTTTTATATTTTTTAATATATTTTTATT-TATTTTACTT
1 CTATTTATTATTTTAT-TTATTTATTATATTTATATTAT-TTTTACTT
725069 ACTATTTTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
46 8 0.10
47 23 0.29
48 10 0.13
49 3 0.04
50 16 0.21
51 18 0.23
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (50 bp):
CTATTTATTATTTTATTTATTTATTATATTTATATTATTTTTACTTCTTT
Found at i:724994 original size:19 final size:19
Alignment explanation
Indices: 724944--725031 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 19
724934 TATGTTTTTA
*
724944 TTTA-TTATATATATATTATT
1 TTTATTTATTTAT-TATTA-T
724964 TTTACTTT-TTTATTATTAT
1 TTTA-TTTATTTATTATTAT
724983 TTTATTTATTTATT-TTAT
1 TTTATTTATTTATTATTAT
* * *
725001 TTATATATATTT-TTCTTCT
1 TT-TATTTATTTATTATTAT
725020 TTCTATTTATTT
1 TT-TATTTATTT
725032 TTTTATATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.19
19 32 0.55
20 9 0.16
21 4 0.07
22 2 0.03
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTATTTATTATTAT
Found at i:725032 original size:19 final size:18
Alignment explanation
Indices: 724979--725037 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
724969 TTTTTTATTA
724979 TTATTT-TATTTATTTATT
1 TTATTTATATTTATTT-TT
*
724997 TTATTTATATATATTTTT
1 TTATTTATATTTATTTTT
* *
725015 CTTCTTTCTATTTATTTTT
1 -TTATTTATATTTATTTTT
725034 TTAT
1 TTAT
725038 ATTTTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.32
19 23 0.68
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTTATATTTATTTTT
Found at i:732717 original size:22 final size:22
Alignment explanation
Indices: 732674--732714 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
732664 AAAAAATTAT
732674 TTTTTATTAAATATTTTTAATA
1 TTTTTATTAAATATTTTTAATA
*
732696 TTTTTATTTAAT-TTTTTAA
1 TTTTTATTAAATATTTTTAA
732715 ATAATTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTAAATATTTTTAATA
Found at i:733428 original size:22 final size:23
Alignment explanation
Indices: 733398--733440 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
733388 CAATTAACTT
*
733398 AAAAGTAATATTTTAT-TTTTAA
1 AAAAATAATATTTTATCTTTTAA
733420 AAAAATAATATTTTATCTTTT
1 AAAAATAATATTTTATCTTTT
733441 TACATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AAAAATAATATTTTATCTTTTAA
Found at i:733686 original size:5 final size:5
Alignment explanation
Indices: 733668--733724 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
733658 ATGGTTGAAT
* * * *
733668 AATTA AATT- TATTA AATTAA AATAA AATAA AATAAA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATT-A AATTA AATTA AAT-TA AATTA AATTA AATTA
733719 AATTA A
1 AATTA A
733725 TATAGTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 3 0.07
5 33 0.73
6 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTA
Found at i:736036 original size:231 final size:232
Alignment explanation
Indices: 735633--736095 Score: 919
Period size: 231 Copynumber: 2.0 Consensus size: 232
735623 GTTTGTGAGG
735633 TTAAAATTTGACCTCATATTATTTTTCTGATATGTAAAATGATTTAAAATTTTGGCACTCAAACA
1 TTAAAATTTGACCTCATATTATTTTTCTGATATGTAAAATGATTTAAAATTTTGGCACTCAAACA
735698 CCAAACGTCTTGAGTGTTGACCAAATGGTAAATATATTATGCTCTTGCTCATTAGTTTATTTATG
66 CCAAACGTCTTGAGTGTTGACCAAATGGTAAATATATTATGCTCTTGCTCATTAGTTTATTTATG
735763 TAGATATATAACTACTTAAATATAGAGGTAGGTATTTCTCTAATACAGAGTTCATACACTTTTTG
131 TAGATATATAACTACTTAAATATAGAGGTAGGTATTTCTCTAATACAGAGTTCATACACTTTTTG
735828 CATAGAAACAAAGAGAAAAAAAG-AAATATAAAGAAA
196 CATAGAAACAAAGAGAAAAAAAGAAAATATAAAGAAA
735864 TTAAAATTTGACCTCATATTATTTTTCTGATATGTAAAATGATTTAAAATTTTGGCACTCAAACA
1 TTAAAATTTGACCTCATATTATTTTTCTGATATGTAAAATGATTTAAAATTTTGGCACTCAAACA
735929 CCAAACGTCTTGAGTGTTGACCAAATGGTAAATATATTATGCTCTTGCTCATTAGTTTATTTATG
66 CCAAACGTCTTGAGTGTTGACCAAATGGTAAATATATTATGCTCTTGCTCATTAGTTTATTTATG
735994 TAGATATATAACTACTTAAATATAGAGGTAGGTATTTCTCTAATACAGAGTTCATACACTTTTTG
131 TAGATATATAACTACTTAAATATAGAGGTAGGTATTTCTCTAATACAGAGTTCATACACTTTTTG
736059 CATAGAAACAAAGAGAAAAAAAGAAAATATAAAGAAA
196 CATAGAAACAAAGAGAAAAAAAGAAAATATAAAGAAA
736096 CTTGACTTGT
Statistics
Matches: 231, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
231 218 0.94
232 13 0.06
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (232 bp):
TTAAAATTTGACCTCATATTATTTTTCTGATATGTAAAATGATTTAAAATTTTGGCACTCAAACA
CCAAACGTCTTGAGTGTTGACCAAATGGTAAATATATTATGCTCTTGCTCATTAGTTTATTTATG
TAGATATATAACTACTTAAATATAGAGGTAGGTATTTCTCTAATACAGAGTTCATACACTTTTTG
CATAGAAACAAAGAGAAAAAAAGAAAATATAAAGAAA
Found at i:741639 original size:14 final size:14
Alignment explanation
Indices: 741616--741663 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
741606 ATAATATTTT
741616 TTATAAATTTAAAC
1 TTATAAATTTAAAC
* *
741630 TTATATATTTACAC
1 TTATAAATTTAAAC
741644 -T-T-AATTTAAAC
1 TTATAAATTTAAAC
741655 TT-TAAATTT
1 TTATAAATTT
741664 GTTTTTTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 7 0.25
12 3 0.11
13 6 0.21
14 12 0.43
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATAAATTTAAAC
Found at i:746358 original size:33 final size:33
Alignment explanation
Indices: 746321--746385 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
746311 GAGTTTGAGT
*
746321 AGGAACCAATGTTCCAAATCACGAATTAAGTAG
1 AGGAACCAACGTTCCAAATCACGAATTAAGTAG
746354 AGGAACCAACGTTCCAAATCACGAATTAAGTA
1 AGGAACCAACGTTCCAAATCACGAATTAAGTA
746386 AATCGCTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (33 bp):
AGGAACCAACGTTCCAAATCACGAATTAAGTAG
Found at i:747721 original size:23 final size:23
Alignment explanation
Indices: 747694--747778 Score: 134
Period size: 23 Copynumber: 3.7 Consensus size: 23
747684 GCTCGTATAT
*
747694 ATGCAACGAAGTGCCACGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
* *
747717 TTGCACCGAAGTGCCGCGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
*
747740 ATGCACCGAAGTGCCGCGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
747763 ATGCACCGAAGTGCCA
1 ATGCACCGAAGTGCCA
747779 TATAAAATGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.32, C:0.26, G:0.28, T:0.14
Consensus pattern (23 bp):
ATGCACCGAAGTGCCACGTAGAA
Found at i:749925 original size:21 final size:21
Alignment explanation
Indices: 749899--749940 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
749889 CCAGAATGGG
*
749899 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
749920 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
749941 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:750087 original size:19 final size:19
Alignment explanation
Indices: 750046--750093 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
750036 GAGCCTCGAG
* *
750046 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAACAGTAAA
*
750065 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAA
*
750084 TTACTATTCA
1 TTACTGTTCA
750094 TAAAAACATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAA
Found at i:750190 original size:29 final size:31
Alignment explanation
Indices: 750158--750217 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
750148 AAATTTTGAA
*
750158 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
750187 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
750218 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:750552 original size:24 final size:24
Alignment explanation
Indices: 750505--750564 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
750495 TCCCTTTGAA
*
750505 GTGTATCGTTAC-TCCATTCACTG
1 GTGTATCGGTACATCCATTCACTG
*
750528 GTGTATCGGTACATCCCTTCACTG
1 GTGTATCGGTACATCCATTCACTG
750552 GTGTATCGGTACA
1 GTGTATCGGTACA
750565 CTGCCTAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 11 0.32
24 23 0.68
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
GTGTATCGGTACATCCATTCACTG
Found at i:752297 original size:18 final size:18
Alignment explanation
Indices: 752260--752324 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
752250 TATGGAATTG
*
752260 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
752277 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
752295 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
752313 GATTCCAATTCC
1 GATTCCAATTCC
752325 CTCATAAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
17 12 0.26
18 34 0.74
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:753550 original size:45 final size:44
Alignment explanation
Indices: 753480--753564 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
753470 TTTCAAGATA
753480 GATTTAATCCAAACAGATATCTTTTAATATTCAAATGTAAACATG
1 GATTTAATCCAAACAGATATCTTTTAATATTCAAA-GTAAACATG
*
753525 GATTTAATCCAAACATATA-CTTTTTAATATTCAAAGTAAA
1 GATTTAATCCAAACAGATATC-TTTTAATATTCAAAGTAAA
753565 TAGATAACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
44 6 0.16
45 32 0.84
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (44 bp):
GATTTAATCCAAACAGATATCTTTTAATATTCAAAGTAAACATG
Found at i:754470 original size:3 final size:3
Alignment explanation
Indices: 754462--754489 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
754452 ATATCGTTAA
754462 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
754490 CTAACATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:756061 original size:29 final size:28
Alignment explanation
Indices: 756003--756062 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
755993 GGGTACTTAG
*
756003 GTGTTCTTATTTTGTGGGTTTCTCTTAAA
1 GTGTTCTTATTTTCTGGGTTTCTC-TAAA
*
756032 GTGTTCTTATTATTCTTGGTTATCTC-AAA
1 GTGTTCTTATT-TTCTGGGTT-TCTCTAAA
756061 GT
1 GT
756063 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 16 0.59
30 7 0.26
31 4 0.15
ACGTcount: A:0.17, C:0.12, G:0.18, T:0.53
Consensus pattern (28 bp):
GTGTTCTTATTTTCTGGGTTTCTCTAAA
Found at i:757318 original size:22 final size:23
Alignment explanation
Indices: 757273--757321 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
757263 CACCAGGAAA
757273 CTACAATCTGACGATGGTGGTGAAG
1 CTACAATCTGACGA--GTGGTGAAG
757298 CTACAATCTGACGA-TGGTGAAG
1 CTACAATCTGACGAGTGGTGAAG
757320 CT
1 CT
757322 CAGGGGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 10 0.42
25 14 0.58
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (23 bp):
CTACAATCTGACGAGTGGTGAAG
Found at i:760255 original size:12 final size:12
Alignment explanation
Indices: 760225--760268 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
760215 CATTTTCCAC
760225 TTTCATATTCAT
1 TTTCATATTCAT
**
760237 TCACATATTCAT
1 TTTCATATTCAT
760249 TTTCATATTCCAT
1 TTTCATATT-CAT
*
760262 GTTCATA
1 TTTCATA
760269 ATAAATACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTCATATTCAT
Found at i:760315 original size:19 final size:20
Alignment explanation
Indices: 760288--760376 Score: 69
Period size: 19 Copynumber: 4.7 Consensus size: 20
760278 TTCACATTTT
*
760288 AGAATTTATTTTCTA-AATC
1 AGAACTTATTTTCTAGAATC
*
760307 AGAACTTA-TTTCTAGATTC
1 AGAACTTATTTTCTAGAATC
* *
760326 ATAACTTATTTTC-AGACTC
1 AGAACTTATTTTCTAGAATC
* * * *
760345 ATAACTTACTATC-AGATTC
1 AGAACTTATTTTCTAGAATC
*
760364 ATAACTTATTTTC
1 AGAACTTATTTTC
760377 AAATTTACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
18 6 0.10
19 49 0.83
20 4 0.07
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.44
Consensus pattern (20 bp):
AGAACTTATTTTCTAGAATC
Found at i:762462 original size:2 final size:2
Alignment explanation
Indices: 762455--762491 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
762445 TCCTACCTCT
762455 TA TA TA 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 TA TA TA T
762492 TAGAGAGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:766821 original size:3 final size:3
Alignment explanation
Indices: 766808--766867 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
766798 TTAAAAAATA
*
766808 TAT TA- TAT TAT TAT TAT TACT TAT TAT TAT TAT TA- TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
766852 TAC TAT TAA TAT TAT T
1 TAT TAT TAT TAT TAT T
766868 TTTGCAGGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:766834 original size:16 final size:14
Alignment explanation
Indices: 766808--766850 Score: 68
Period size: 16 Copynumber: 2.9 Consensus size: 14
766798 TTAAAAAATA
766808 TATTATATTATTAT
1 TATTATATTATTAT
766822 TATTACTTATTATTAT
1 TATTA--TATTATTAT
766838 TATTATATTATTA
1 TATTATATTATTA
766851 ATACTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.48
16 14 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:767127 original size:9 final size:9
Alignment explanation
Indices: 767114--767144 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
767104 TTGAAACGGG
*
767114 GGAGGAAAG
1 GGAGGAAAA
767123 GGAGGAAAA
1 GGAGGAAAA
767132 GGAGGAAAA
1 GGAGGAAAA
767141 GGAG
1 GGAG
767145 CTAATTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (9 bp):
GGAGGAAAA
Found at i:767954 original size:19 final size:19
Alignment explanation
Indices: 767918--767953 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
767908 AGCAATTCGA
*
767918 ATTTAATTTTTAAATTTTG
1 ATTTAAATTTTAAATTTTG
767937 ATTTAAATTTT-AATTTT
1 ATTTAAATTTTAAATTTT
767954 TTCACAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTTAAATTTTAAATTTTG
Found at i:772007 original size:106 final size:105
Alignment explanation
Indices: 771844--772800 Score: 1430
Period size: 106 Copynumber: 9.0 Consensus size: 105
771834 TCCAATTTCA
* * * * *
771844 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
771909 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAC
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCAAT
*
771949 TTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * **
772014 AAGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTTCAAT
* * *
772056 TTCAGAGCCAATTTCAACTTCACAGCGAATGTTATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
772121 TGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTTCAAT
* * * *
772162 TTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGATTCCATACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
772227 CGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAAC-AATTTTCAAT
* *
772268 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
772333 CGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTT--CAAT
* *
772374 ATCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
772439 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTTCAAT
*
772480 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
772545 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTTCAAT
*
772586 TTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
772651 CGACTAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTT-TCAAT
* * * *
772692 TTCAGAGTCAATTTCAACTTCATAGCAAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
772757 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCAAC
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCAAT
772797 TTCA
1 TTCA
772801 CGACGAAGGA
Statistics
Matches: 786, Mismatches: 58, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
104 4 0.01
105 12 0.02
106 757 0.96
107 10 0.01
108 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCAAT
Found at i:772421 original size:318 final size:318
Alignment explanation
Indices: 771818--772800 Score: 1578
Period size: 318 Copynumber: 3.1 Consensus size: 318
771808 AAAAGTTGTC
* * *
771818 TGTCAACAAACAACTT-TCCAATTTCATTCAGAGTCT-ATTTCAACTTCGCAGCGAAGAAAATTG
1 TGTCAACAAACAACTTCT-CAA--T--TTCAGAG-CTAATTTCAACTTCACAGCGAAGGATATTG
* *
771881 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-AATTTT
60 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCT
* *
771945 CCACTTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
125 CAATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
* *
772010 CTTCAAGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCAATTTCAACT
189 CTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAATTTCAACT
* * *
772075 TCACAGCGAATGTTATTGGACTCCAGACAACGCATGTTCAACTTCATGACGAAGGGACCGCTGGT
254 TCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
772140 TGTCAACAAATAACTTCTCAATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGATTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
772205 ATACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTCAATTT
*
772270 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACG
131 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
772335 ACGAAGGGACCGCTGGTTGTCAATAAACATTTTCCCAATATCAGAGCCAATTTCAACTTCACAGC
196 ACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
772400 GAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
772458 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
772523 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTCAATTT
* *
772588 CAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
772653 ACTAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGTCAATTTCAACTTCATAGC
196 ACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
* * *
772718 AAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
772776 TGTCAATAAACAACTT-TCAACTTCA
1 TGTCAACAAACAACTTCTCAATTTCA
772801 CGACGAAGGA
Statistics
Matches: 617, Mismatches: 41, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
317 10 0.02
318 577 0.94
319 10 0.02
320 1 0.00
322 18 0.03
323 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (318 bp):
TGTCAACAAACAACTTCTCAATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
GAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:772993 original size:84 final size:84
Alignment explanation
Indices: 772835--773181 Score: 419
Period size: 84 Copynumber: 4.1 Consensus size: 84
772825 AGGCTATCTG
* * * * * * * *
772835 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGTGCACATCATTTACAGCATAGCTCAAGG
1 CCAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAG-GCACATCATTTGCAGCATAGCTCAAGG
* * *
772900 CTA-AGAGGGTTATCTGTC-A
65 CGAGA-AGGGCTATCTGCCAA
* * * *
772919 CCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGT
1 CC-AAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGG
* *
772984 CGAGAAGGGTTATCTTCCAA
65 CGAGAAGGGCTATCTGCCAA
* *
773004 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTCAAGGC
1 CCAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGC
* *
773069 AAGAAGGGCTATTTGCCAA
66 GAGAAGGGCTATCTGCCAA
* * * **
773088 CCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTT
1 CCAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGC
773153 GAGAAGGGCTATCTGCCAA
66 GAGAAGGGCTATCTGCCAA
773172 CCAAAGACCT
1 CCAAAGACCT
773182 GACGAGTTCG
Statistics
Matches: 226, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
84 195 0.86
85 31 0.14
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (84 bp):
CCAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGC
GAGAAGGGCTATCTGCCAA
Found at i:773114 original size:168 final size:169
Alignment explanation
Indices: 772835--773192 Score: 497
Period size: 168 Copynumber: 2.1 Consensus size: 169
772825 AGGCTATCTG
* * * *
772835 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGTGCACATCATTTACAGCATAGCTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGTGCACATCATTTACAGCATAGCTCAAGG
* * * *
772900 CTAAGAGGGTTATCTGTCACCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCTAAGGCACATCA
66 CTAAGAGGGCTATCTGCCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCA
* *
772965 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAA
131 TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAA
* * * *
773004 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAG-GTACATCATTTGCAGCATAGCTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGTGCACATCATTTACAGCATAGCTCAAGG
* *
773068 C-AAGAAGGGCTATTTGCCAACC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCCGAGGCACAT
66 CTAAG-AGGGCTATCTGCC-ACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACAT
* *
773131 CATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTGCCAA
129 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAA
*
773172 CCAAAGACCTGACGAGTTCGA
1 CCAAAGACCT-TCGAGTTCGA
773193 TTTCATTCAG
Statistics
Matches: 166, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
167 3 0.02
168 121 0.73
169 42 0.25
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (169 bp):
CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGTGCACATCATTTACAGCATAGCTCAAGG
CTAAGAGGGCTATCTGCCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCA
TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAA
Found at i:773434 original size:3 final size:3
Alignment explanation
Indices: 773421--773492 Score: 85
Period size: 3 Copynumber: 24.3 Consensus size: 3
773411 TTAAAAAATA
*
773421 TAT TA- TAT TAT TAT TAT TAT TAT TAT AAT TACT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * *
773466 TA- TAT TAT TAA TAC TAT TAA TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
773493 TTTGCAGGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
2 4 0.07
3 52 0.88
4 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:773459 original size:22 final size:21
Alignment explanation
Indices: 773421--773484 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
773411 TTAAAAAATA
773421 TATTAT-ATTATTATTATTAT
1 TATTATAATTATTATTATTAT
773441 TATTATAATTACTTATTATTAT
1 TATTATAATTA-TTATTATTAT
* *
773463 TATTAT-ATTATTAATACTAT
1 TATTATAATTATTATTATTAT
773483 TA
1 TA
773485 ATATTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.40
21 8 0.20
22 16 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATAATTATTATTATTAT
Found at i:784439 original size:23 final size:24
Alignment explanation
Indices: 784413--784461 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
784403 ATAATTTATT
784413 TTTA-TCACTTAAAAT-TCTATAAA
1 TTTATTCACTTAAAATAT-TATAAA
*
784436 TTTATTCTCTTAAAATATTATAAA
1 TTTATTCACTTAAAATATTATAAA
784460 TT
1 TT
784462 CACTTTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 18 0.78
25 1 0.04
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTATTCACTTAAAATATTATAAA
Found at i:785318 original size:60 final size:61
Alignment explanation
Indices: 785254--785391 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 61
785244 ATGTTTGAAC
** * *
785254 TTCATCCCTAAACTATAA-CTATTATTCTAAATTAATCCTCAAAC-GTTTGAACATTTCAAT
1 TTCATCCCTAAACTATAATCT-GCATTCTAAATTAATCCCCAAACTGTTTGAACATTCCAAT
** *
785314 TTCATTCCC-AAACTATAATCTGCATTCTAAATTGGTCCCCAAACTTTTTGAACATTCCAAT
1 TTCA-TCCCTAAACTATAATCTGCATTCTAAATTAATCCCCAAACTGTTTGAACATTCCAAT
* *
785375 CTCAT-CCTGAACTATAA
1 TTCATCCCTAAACTATAA
785392 GTGTATACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
59 2 0.03
60 40 0.62
61 23 0.35
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (61 bp):
TTCATCCCTAAACTATAATCTGCATTCTAAATTAATCCCCAAACTGTTTGAACATTCCAAT
Found at i:785609 original size:60 final size:60
Alignment explanation
Indices: 785528--785683 Score: 163
Period size: 60 Copynumber: 2.6 Consensus size: 60
785518 ATGAAGGTAA
** * ** * * * *
785528 AATATTCAAAAAGTTGCAGGACCGATTTAGAAATAGGGCCATAGTTTAGGGTTTAAATTAG
1 AATATTC-AAAAGTTTAAGGACTGATTTAGAAATAAAGCCATAGTCTAGGGATAAAACTAG
* *
785589 AATATTCAAAAGTTTAAGGACTAATTTAG-AATAAAAGTCATAGTCTAGGGATAAAACTAG
1 AATATTCAAAAGTTTAAGGACTGATTTAGAAAT-AAAGCCATAGTCTAGGGATAAAACTAG
* *
785649 AATATTCAAAAGCTTAAGGAATGATTTA-AAATAAA
1 AATATTCAAAAGTTTAAGGACTGATTTAGAAATAAA
785684 AAGTATAGTT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
59 6 0.08
60 66 0.84
61 7 0.09
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (60 bp):
AATATTCAAAAGTTTAAGGACTGATTTAGAAATAAAGCCATAGTCTAGGGATAAAACTAG
Found at i:785684 original size:60 final size:61
Alignment explanation
Indices: 785567--785692 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 61
785557 GAAATAGGGC
* * * * * * *
785567 CATAGTTTAGGGTTTAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAAT-AAAAGT
1 CATAGTCTAGGGATAAAACTAGAATATTCAAAAGCTTAAGGAATAATTTAAAATAAAAAGT
*
785627 CATAGTCTAGGGATAAAACTAGAATATTCAAAAGCTTAAGGAATGATTTAAAATAAAAAGT
1 CATAGTCTAGGGATAAAACTAGAATATTCAAAAGCTTAAGGAATAATTTAAAATAAAAAGT
785688 -ATAGT
1 CATAGT
785693 TTATAGACAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 51 0.89
61 6 0.11
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (61 bp):
CATAGTCTAGGGATAAAACTAGAATATTCAAAAGCTTAAGGAATAATTTAAAATAAAAAGT
Found at i:786195 original size:12 final size:12
Alignment explanation
Indices: 786158--786203 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
786148 AAATAAAGTT
*
786158 TTTTTAATAATA
1 TTTTTAAAAATA
* * *
786170 TTTATAACATTA
1 TTTTTAAAAATA
786182 TTTTTAAAAATA
1 TTTTTAAAAATA
786194 TTTTTAAAAA
1 TTTTTAAAAA
786204 GTCATGTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:789519 original size:2 final size:2
Alignment explanation
Indices: 789512--789537 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
789502 TTAAGAAACA
789512 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
789538 TACTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:790497 original size:23 final size:22
Alignment explanation
Indices: 790443--790498 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
790433 TTTTATTGAG
* * *
790443 TTTTAAAAATTTTCTAATATTT
1 TTTTAAATATTTTCCAATATTA
**
790465 TTTTTTATATTTTCCAATAATTA
1 TTTTAAATATTTTCCAAT-ATTA
790488 TTTTAAATATT
1 TTTTAAATATT
790499 ATACAGTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAAATATTTTCCAATATTA
Found at i:793381 original size:15 final size:15
Alignment explanation
Indices: 793357--793394 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
793347 GAGAGGAAAT
* *
793357 TGAATCTTCTCGTGA
1 TGAATTTTCTCATGA
793372 TGAATTTTCTCATGA
1 TGAATTTTCTCATGA
793387 TGAATTTT
1 TGAATTTT
793395 AGAACTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (15 bp):
TGAATTTTCTCATGA
Found at i:808437 original size:36 final size:36
Alignment explanation
Indices: 808386--808461 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
808376 GTCAACGGAG
* * *
808386 GAGAAACCTGCAGAATCGAAAGGTCTTGC-GCTAGTT
1 GAGAAACCTGAAGAATCGAAAGCTCTGGCAG-TAGTT
808422 GAGAAACCTGAAGAATCGAAAGCTCTGGCAGTAGTT
1 GAGAAACCTGAAGAATCGAAAGCTCTGGCAGTAGTT
808458 GAGA
1 GAGA
808462 GTAAGCTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (36 bp):
GAGAAACCTGAAGAATCGAAAGCTCTGGCAGTAGTT
Found at i:812858 original size:21 final size:22
Alignment explanation
Indices: 812817--812870 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
812807 TACTCGGGGT
*
812817 AGTATCGATACCCTTATATAAA
1 AGTATCGATACCCTCATATAAA
*
812839 AGTATCGATACCC-CATATAAG
1 AGTATCGATACCCTCATATAAA
812860 AGTATCGATAC
1 AGTATCGATAC
812871 TATAAGGTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (22 bp):
AGTATCGATACCCTCATATAAA
Found at i:813955 original size:23 final size:23
Alignment explanation
Indices: 813912--813955 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
813902 TAATTGAGTT
*
813912 TTAAAATATTAATGGGTTTAAGG
1 TTAAAATATTAATAGGTTTAAGG
*
813935 TTAAAAT-TTATTAGGTCTTAA
1 TTAAAATATTAATAGGT-TTAA
813956 TATTTCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (23 bp):
TTAAAATATTAATAGGTTTAAGG
Found at i:834087 original size:32 final size:32
Alignment explanation
Indices: 834051--834112 Score: 74
Period size: 32 Copynumber: 1.9 Consensus size: 32
834041 ATAAGTGTAA
834051 AATTT-TTATAAGTTTAATA-ACTATTTTATAAT
1 AATTTGTTA-AAGTTTAA-AGACTATTTTATAAT
* *
834083 AATTTGTTACAGTTTAAAGATTATTTTATA
1 AATTTGTTAAAGTTTAAAGACTATTTTATA
834113 TTGTTTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 1 0.04
32 22 0.85
33 3 0.12
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (32 bp):
AATTTGTTAAAGTTTAAAGACTATTTTATAAT
Found at i:837110 original size:38 final size:38
Alignment explanation
Indices: 837064--837138 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
837054 GAAACGAAGA
837064 AAAAACAATGTCAAGC-AATAAAAAAGTTCCCCAAATAT
1 AAAAACAATGTCAAGCAAAT-AAAAAGTTCCCCAAATAT
837102 AAAAACAATGTCAAGCAAATAAAAAGTTCCCCAAATA
1 AAAAACAATGTCAAGCAAATAAAAAGTTCCCCAAATA
837139 GAGTAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 33 0.92
39 3 0.08
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.17
Consensus pattern (38 bp):
AAAAACAATGTCAAGCAAATAAAAAGTTCCCCAAATAT
Found at i:839527 original size:18 final size:18
Alignment explanation
Indices: 839504--839545 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
839494 ATGTAATTCT
839504 GAAAATTTTGATAAACGA
1 GAAAATTTTGATAAACGA
839522 GAAAATTTTGATAAACGA
1 GAAAATTTTGATAAACGA
*
839540 AAAAAT
1 GAAAAT
839546 GACAACGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (18 bp):
GAAAATTTTGATAAACGA
Found at i:839841 original size:32 final size:32
Alignment explanation
Indices: 839795--839855 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
839785 GAGTAACAGT
* * * *
839795 ACTAGTATCGGTACTTCAGTGTATTTTTATAC
1 ACTAGTATCAGTACTGCAATATATTTTTATAC
839827 ACTAGTATCAGTACTGCAATATATTTTTA
1 ACTAGTATCAGTACTGCAATATATTTTTA
839856 CATTGGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (32 bp):
ACTAGTATCAGTACTGCAATATATTTTTATAC
Found at i:849488 original size:16 final size:16
Alignment explanation
Indices: 849462--849502 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
849452 AGATCCAATC
849462 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
849477 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
*
849494 AAAAACAAA
1 AAGAACAAA
849503 GAAAAAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 6 0.26
ACGTcount: A:0.78, C:0.10, G:0.12, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:849501 original size:32 final size:30
Alignment explanation
Indices: 849465--849539 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
849455 TCCAATCAAG
849465 AACAAAAAAGAAAAGAAGCAAAAAAGCAA-AAA
1 AACAAAAAAGAAAAG-AG-AAAAAAG-AACAAA
* *
849497 AACAAAGAA-AAAAGAGAAACAAGAACAAA
1 AACAAAAAAGAAAAGAGAAAAAAGAACAAA
849526 AATC-AAAAAGAAAA
1 AA-CAAAAAAGAAAA
849540 AGGGACAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 2 0.05
29 15 0.41
30 7 0.19
31 5 0.14
32 8 0.22
ACGTcount: A:0.77, C:0.09, G:0.12, T:0.01
Consensus pattern (30 bp):
AACAAAAAAGAAAAGAGAAAAAAGAACAAA
Found at i:850168 original size:22 final size:22
Alignment explanation
Indices: 850140--850194 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
850130 GCTACCCCAT
*
850140 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAACATCAAATGC
850162 CAAACCTTTGAACATCAAATGC
1 CAAACCTTTGAACATCAAATGC
850184 CAAACCTTTGA
1 CAAACCTTTGA
850195 CCAAACATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAACATCAAATGC
Found at i:851164 original size:16 final size:16
Alignment explanation
Indices: 851143--851183 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
851133 TTAGAAAAAC
*
851143 CTTTGAAATCGTTTCT
1 CTTTGAAATAGTTTCT
*
851159 CTTTGAAAAAGTTTCT
1 CTTTGAAATAGTTTCT
851175 C-TTGAAATA
1 CTTTGAAATA
851184 TAAACATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (16 bp):
CTTTGAAATAGTTTCT
Found at i:851388 original size:37 final size:37
Alignment explanation
Indices: 851318--851389 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
851308 TGGAACTAAG
* *
851318 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCATAAAACAAAA
* *
851355 TTTTGTCT-TCCTTGAGACCGTTTCTCATGAAACAA
1 TTTTGTCTCT-CTTGAGACAGTTTCTCATAAAACAA
851390 CAAATATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCTCTTGAGACAGTTTCTCATAAAACAAAA
Found at i:852419 original size:106 final size:106
Alignment explanation
Indices: 851991--852419 Score: 662
Period size: 106 Copynumber: 4.0 Consensus size: 106
851981 ATATCGTGCC
* * ** *
851991 ACTCGAGATAACACAAGTTCAACTTCACGACGAAGGGACAACTGGTTGTCAATAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
*
852056 AATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
852097 ACTCCAGACAACGCAAGTACAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
852162 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
852203 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGAAGGCTAGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
*
852268 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
852309 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
* * *
852374 AGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
852415 ACTCG
1 ACTCG
852420 GAACAATGCT
Statistics
Matches: 299, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
105 1 0.00
106 298 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:858276 original size:114 final size:113
Alignment explanation
Indices: 858074--858432 Score: 430
Period size: 114 Copynumber: 3.2 Consensus size: 113
858064 TCTTGATTTC
* * * **
858074 CAGATTGCAGAAGAAGGGAATCCCCAGCCAATCG-TCCCTAAACCCCCAAAACGAAAATACCAAT
1 CAGATTACAGAAGAAGAGAATCCCCAGCCAAT-GATCCCTAAACCTCCGCAACGAAAATACC-AT
* * *
858138 GCAGTCGCTGTGGTCAACAGGGACACAACCGCCGCACTGTTGTTTTCTGT
64 GCAGTCGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTTTCTGT
* * **
858188 CAGATTACAGAAGAAGGGAATCCCCTGCCGGTGATCCCTAAACCTCCGCAACGAAAATACCGATG
1 CAGATTACAGAAGAAGAGAATCCCCAGCCAATGATCCCTAAACCTCCGCAACGAAAATACC-ATG
858253 CAGTCGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTTTCTGT
65 CAGTCGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTTTCTGT
* * ** *
858302 CTGATGACAGAAGAAGAGAATCCCCAGCCAATGATCCCTAAACCTTGGCAA-G-GAAT---AT--
1 CAGATTACAGAAGAAGAGAATCCCCAGCCAATGATCCCTAAACCTCCGCAACGAAAATACCATGC
* * * **
858360 A-CCGCTGTGGTCGACGTGGACACAACCGCCGGACTGTTGCTCACTGT
66 AGTCGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTTTCTGT
858407 CAGATTACAGAAGAAGAGAATCCCCA
1 CAGATTACAGAAGAAGAGAATCCCCA
858433 ATCGATGGTT
Statistics
Matches: 217, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
105 65 0.30
106 1 0.00
108 2 0.01
112 3 0.01
113 2 0.01
114 144 0.66
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.19
Consensus pattern (113 bp):
CAGATTACAGAAGAAGAGAATCCCCAGCCAATGATCCCTAAACCTCCGCAACGAAAATACCATGC
AGTCGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTTTCTGT
Found at i:858467 original size:105 final size:105
Alignment explanation
Indices: 858257--858468 Score: 235
Period size: 105 Copynumber: 2.0 Consensus size: 105
858247 CCGATGCAGT
** *
858257 CGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTTTCTGTCTGATGACAGAAGAAGAGAA
1 CGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTCACTGTCAGATGACAGAAGAAGAGAA
* * * **** * *
858322 TCCCCAGCCAATGATCCCTAAACCTTGGCAAGGAATATAC
66 TCCCCAACCAATGATCACGAAACCTCCAAAAAGAAAATAC
* * *
858362 CGCTGTGGTCGACGTGGACACAACCGCCGGACTGTTGCTCACTGTCAGATTACAGAAGAAGAGAA
1 CGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTCACTGTCAGATGACAGAAGAAGAGAA
* * * * * *
858427 TCCCCAATCGATGGTTAGGAAGCCTCCAAAAAGAAAATAC
66 TCCCCAACCAATGATCACGAAACCTCCAAAAAGAAAATAC
858467 CG
1 CG
858469 TTGCGGTCAC
Statistics
Matches: 86, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
105 86 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.19
Consensus pattern (105 bp):
CGCTGTGGTCGACATGGACACAACCGCCGCACTGTTGCTCACTGTCAGATGACAGAAGAAGAGAA
TCCCCAACCAATGATCACGAAACCTCCAAAAAGAAAATAC
Found at i:865315 original size:37 final size:33
Alignment explanation
Indices: 865265--865332 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 33
865255 GTTTATCTTC
865265 GTTTATTTATTTTTATAATTATTTATATTTAGTTTGT
1 GTTTATTTATTTTT-TAA-TA-TTATATTT-GTTTGT
865302 GTTTATTTATTTTTTAATATTATATTTGTTT
1 GTTTATTTATTTTTTAATATTATATTTGTTT
865333 ACTTATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 4 0.13
34 8 0.26
35 2 0.06
36 3 0.10
37 14 0.45
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (33 bp):
GTTTATTTATTTTTTAATATTATATTTGTTTGT
Found at i:865331 original size:27 final size:29
Alignment explanation
Indices: 865301--865374 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 29
865291 ATTTAGTTTG
865301 TGTTTATTTATTTTTTAATAT-TATAT-T
1 TGTTTATTTATTTTTTAATATATATATGT
* * *
865328 TGTTTACTTATTTTTAAATATATTTATGT
1 TGTTTATTTATTTTTTAATATATATATGT
*
865357 TCGTTTATTTATTATTTA
1 T-GTTTATTTATTTTTTA
865375 CGAATATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 19 0.50
28 4 0.11
29 2 0.05
30 13 0.34
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (29 bp):
TGTTTATTTATTTTTTAATATATATATGT
Found at i:866994 original size:16 final size:18
Alignment explanation
Indices: 866975--867010 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
866965 TTTTAACTAA
866975 AAATTATTT-A-AAATTT
1 AAATTATTTGATAAATTT
866991 AAATTATTTGATAAATTT
1 AAATTATTTGATAAATTT
867009 AA
1 AA
867011 CAACAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAATTATTTGATAAATTT
Found at i:871623 original size:18 final size:19
Alignment explanation
Indices: 871583--871622 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
871573 AATTCCAAAA
*
871583 CCCC-AGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
871601 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGATT
871620 CCC
1 CCC
871623 TTTCAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:875526 original size:22 final size:21
Alignment explanation
Indices: 875484--875523 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
875474 GAGTTTATTT
*
875484 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
875505 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
875524 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:878083 original size:20 final size:21
Alignment explanation
Indices: 878058--878098 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
878048 TTTTGCCCTA
878058 ATTCAT-CTAGTATCGATATT
1 ATTCATCCTAGTATCGATATT
878078 ATTCATCCTAGTATCGATATT
1 ATTCATCCTAGTATCGATATT
878099 TGAACCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (21 bp):
ATTCATCCTAGTATCGATATT
Found at i:881159 original size:20 final size:20
Alignment explanation
Indices: 881134--881220 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
881124 TTTTCCGACT
881134 ATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAATATG-ACA
* *
881154 ATCGCAATGCGAGTATGACT
1 ATCGCAATGCGAATATGACA
*
881174 ATCGCAATGC-AAGTATGACT
1 ATCGCAATGCGAA-TATGACA
* * * *
881194 ATCGCAACGCGATTCTGACT
1 ATCGCAATGCGAATATGACA
881214 ATCGCAA
1 ATCGCAA
881221 CGAGATTCTG
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.03
20 55 0.95
21 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATATGACA
Found at i:881182 original size:40 final size:40
Alignment explanation
Indices: 881130--881260 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 40
881120 GCGATTTTCC
*
881130 GACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGAGTAT
1 GACTATCGCAATGC-AAGTATG-ACAATCGCAACGCGAGTAT
* * *
881170 GACTATCGCAATGCAAGTATGACTATCGCAACGCGATTCT
1 GACTATCGCAATGCAAGTATGACAATCGCAACGCGAGTAT
* * * * * *
881210 GACTATCGCAACG-AGATTCTGACTATCGCAACGCGATTCT
1 GACTATCGCAATGCA-AGTATGACAATCGCAACGCGAGTAT
*
881250 GACTGTCGCAA
1 GACTATCGCAA
881261 CGCGATGCTG
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.05
40 76 0.95
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
GACTATCGCAATGCAAGTATGACAATCGCAACGCGAGTAT
Found at i:881221 original size:20 final size:20
Alignment explanation
Indices: 881154--881287 Score: 169
Period size: 20 Copynumber: 6.7 Consensus size: 20
881144 GAATATGTAA
* * *
881154 ATCGCAATGCGAGTATGACT
1 ATCGCAACGCGATTCTGACT
* * * *
881174 ATCGCAATGCAAGTATGACT
1 ATCGCAACGCGATTCTGACT
881194 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
881214 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
881234 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
881254 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
*
881274 ATCGCAATGCGATT
1 ATCGCAACGCGATT
881288 TTCAAAGCGC
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 102 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:881873 original size:19 final size:19
Alignment explanation
Indices: 881849--881896 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
881839 TGAAACCGAG
881849 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
881868 AATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAATGAA
*
881887 AATTGCAACG
1 AATCGCAACG
881897 ACAGAATCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:881964 original size:20 final size:20
Alignment explanation
Indices: 881920--881989 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
881910 GCGATTTTAG
*
881920 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
* *
881940 ATTCGCATTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
881960 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
*
881980 TTTCGTGTTG
1 TTTCGCGTTG
881990 TGATTTTAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:881994 original size:20 final size:20
Alignment explanation
Indices: 881956--881996 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
881946 ATTGCGATAG
881956 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
*
881976 TCATTTTCGTGTTGTGATTT
1 TCATTTTCGTGTTGCGATTT
881996 T
1 T
881997 AAGTTTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.59
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:882003 original size:20 final size:20
Alignment explanation
Indices: 881960--882003 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
881950 CGATAGTCAT
* *
881960 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
*
881980 TTTCGTGTTGTGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
882000 TTTC
1 TTTC
882004 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:0.11, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:883754 original size:18 final size:18
Alignment explanation
Indices: 883731--883780 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
883721 TTTACTCGTA
883731 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
883749 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
883767 ATTTCACTTAGATT
1 ATTTCACTTAGATT
883781 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:884052 original size:20 final size:20
Alignment explanation
Indices: 884000--884053 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
883990 GATTCTCTCG
** *
884000 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCATTTTCGCA
884020 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
884040 TTGCGATAGTCATT
1 TTGCGATAGTCATT
884054 CGTGTTACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:884645 original size:21 final size:21
Alignment explanation
Indices: 884554--884652 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
884544 GACTCACCTG
*
884554 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
884576 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
884596 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
884617 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
884638 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
884653 TCCCACCCAA
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 55 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:886091 original size:14 final size:14
Alignment explanation
Indices: 886057--886095 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
886047 TTTCTTGTTT
*
886057 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
886071 AACTGATTTGTAAA
1 AATTGATTTGTAAA
*
886085 AGTTGATTTGT
1 AATTGATTTGT
886096 TTAATATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:886270 original size:20 final size:20
Alignment explanation
Indices: 886217--886270 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
886207 AGGTACACTT
* **
886217 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGACAAAA
*
886237 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAAGACAAAA
886257 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
886271 TCAATTCGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGACAAAA
Found at i:886358 original size:20 final size:20
Alignment explanation
Indices: 886313--886551 Score: 113
Period size: 20 Copynumber: 12.8 Consensus size: 20
886303 GAGATTTTCT
* * *
886313 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAATCAAATTCG
*
886333 CATTGCGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
* *
886353 TGTTGCGAT--T----TTCT
1 CGTTGCGATAATCAAATTCG
* *
886367 CGTTGCGATATTCAAA-TAG
1 CGTTGCGATAATCAAATTCG
*
886386 CCGTTGCGATAGTCAAATTCG
1 -CGTTGCGATAATCAAATTCG
*
886407 CGTTACGATAGA-CAAATTCG
1 CGTTGCGATA-ATCAAATTCG
* * *
886427 TGTTGC---AAT---TTTTG
1 CGTTGCGATAATCAAATTCG
* *
886441 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAATCAAATTCG
* *
886461 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
*
886481 CGTTGCGAT--T----TTTG
1 CGTTGCGATAATCAAATTCG
*
886495 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
* *
886515 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
* *
886535 CGTTGTGATATTCAAAT
1 CGTTGCGATAATCAAAT
886552 GAATGTGTAA
Statistics
Matches: 165, Mismatches: 32, Indels: 44
0.68 0.13 0.18
Matches are distributed among these distances:
14 30 0.18
16 3 0.02
17 3 0.02
18 2 0.01
19 1 0.01
20 124 0.75
21 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:886363 original size:54 final size:54
Alignment explanation
Indices: 886305--886415 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
886295 TACGCTTTGA
* *
886305 GATTTTCTCGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCGTGTTGC
1 GATTTTCTCGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCGCGTTAC
* * * *
886359 GATTTTCTCGTTGCGATATTCAAATAGCCGTTGCGATAGTCAAATTCGCGTTAC
1 GATTTTCTCGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCGCGTTAC
886413 GAT
1 GAT
886416 AGACAAATTC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (54 bp):
GATTTTCTCGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCGCGTTAC
Found at i:886382 original size:34 final size:34
Alignment explanation
Indices: 886335--886469 Score: 103
Period size: 34 Copynumber: 3.8 Consensus size: 34
886325 CAAATACCCA
*
886335 TTGCGATAATCAAATTCGTGTTGCGATTTTCTCG
1 TTGCGATAGTCAAATTCGTGTTGCGATTTTCTCG
* * * *
886369 TTGCGATATTCAAA-TAGCCGTTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCG-TGTTGCGAT--T----TTCTCG
* * *
886409 TTACGATAGACAAATTCGTGTTGCAATTTT-TGCG
1 TTGCGATAGTCAAATTCGTGTTGCGATTTTCT-CG
*
886443 TTGCGATAGTCATATTCGTGTTGCGAT
1 TTGCGATAGTCAAATTCGTGTTGCGAT
886470 AGTCAAATTC
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
33 2 0.03
34 48 0.62
36 1 0.01
38 1 0.01
40 23 0.30
41 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (34 bp):
TTGCGATAGTCAAATTCGTGTTGCGATTTTCTCG
Found at i:886445 original size:54 final size:54
Alignment explanation
Indices: 886387--886539 Score: 225
Period size: 54 Copynumber: 2.8 Consensus size: 54
886377 TTCAAATAGC
* * *
886387 CGTTGCGATAGTCAAATTCGCGTTACGATAGACAAATTCGTGTTGCAATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTTG
* * *
886441 CGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTTG
* * *
886495 AGTTGCGATAATCAAATTCGCGTTGTGATAGTCAAATTCGCGTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
886540 TGATATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTTG
Found at i:886478 original size:74 final size:74
Alignment explanation
Indices: 886313--886489 Score: 225
Period size: 74 Copynumber: 2.4 Consensus size: 74
886303 GAGATTTTCT
* * * * *
886313 CGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCGTGTTGCGATTTTCTCGTTGCGATAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGTGTTGCAATTTTCTCGTTGCGATAG
886378 TCAAATAGC
66 TCAAATAGC
*
886387 CGTTGCGATAGTCAAATTCGCGTTACGATAGA-CAAATTCGTGTTGCAATTTT-TGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATA-ATCAAATTCGTGTTGCAATTTTCT-CGTTGCGAT
* *
886450 AGTCATAT-TC
64 AGTCAAATAGC
*
886460 GTGTTGCGATAGTCAAATTCGCGTTGCGAT
1 -CGTTGCGATAGTCAAATTCGCGTTGCGAT
886490 TTTTGAGTTG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 2 0.02
74 87 0.97
75 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (74 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGTGTTGCAATTTTCTCGTTGCGATAG
TCAAATAGC
Found at i:886774 original size:140 final size:140
Alignment explanation
Indices: 886522--886791 Score: 522
Period size: 140 Copynumber: 1.9 Consensus size: 140
886512 TCGCGTTGTG
* *
886522 ATAGTCAAATTCGCGTTGTGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
886587 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
886652 AATACACATA
131 AATACACATA
886662 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
886727 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
886792 TACAACGTTT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 128 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:889184 original size:24 final size:24
Alignment explanation
Indices: 889150--889203 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
889140 CTGAATCATC
889150 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
889174 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
889198 ATCAAA
1 ATCAAA
889204 TTTAGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:890085 original size:20 final size:20
Alignment explanation
Indices: 890025--890091 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
890015 AAATTCAGTG
* * *
890025 TTGCGACAGTTAGAATCGCG
1 TTGCGATAGTCAGAATCGCA
890045 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
*
890065 TTGCGATAGTCATAA-CTGCA
1 TTGCGATAGTCAGAATC-GCA
890085 TTGCGAT
1 TTGCGAT
890092 TTACATATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.02
20 41 0.98
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:890098 original size:20 final size:20
Alignment explanation
Indices: 890082--890151 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
890072 AGTCATAACT
890082 GCATTGCGATTTACATATTC
1 GCATTGCGATTTACATATTC
*
890102 GCATTGCGATTTATATATTC
1 GCATTGCGATTTACATATTC
890122 GCATTGCGATTTACATATTC
1 GCATTGCGATTTACATATTC
890142 GCATTGCGAT
1 GCATTGCGAT
890152 AGTCGAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (20 bp):
GCATTGCGATTTACATATTC
Found at i:890104 original size:40 final size:42
Alignment explanation
Indices: 890060--890155 Score: 146
Period size: 40 Copynumber: 2.4 Consensus size: 42
890050 ATAGTCAGAA
890060 TCGCATTGCGATAGTCATA-ACT-GCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATATACTCGCATTGCGATTTACATAT
* *
890100 TCGCATTGCGAT--TTATATATTCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATATACTCGCATTGCGATTTACATAT
890140 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
890156 GAAAAATCGC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
38 4 0.08
39 2 0.04
40 42 0.86
42 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (42 bp):
TCGCATTGCGATAGTCATATACTCGCATTGCGATTTACATAT
Found at i:893615 original size:45 final size:46
Alignment explanation
Indices: 893544--893649 Score: 178
Period size: 45 Copynumber: 2.3 Consensus size: 46
893534 ATTTATTTTC
*
893544 ATTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGTTT
1 ATTTTTTGAAT-AATGCATGCGAACTAGATATCATGCGGTTAGGTTT
893591 ATTTTTTGAATAA-GCATGCGAACTAGATATCATGCGGTTAGGTTT
1 ATTTTTTGAATAATGCATGCGAACTAGATATCATGCGGTTAGGTTT
893636 ATTTTTGTGAATAA
1 ATTTTT-TGAATAA
893650 CAAAGCATGG
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
45 38 0.67
46 9 0.16
47 10 0.18
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (46 bp):
ATTTTTTGAATAATGCATGCGAACTAGATATCATGCGGTTAGGTTT
Found at i:903326 original size:9 final size:8
Alignment explanation
Indices: 903298--903397 Score: 57
Period size: 8 Copynumber: 12.6 Consensus size: 8
903288 AAAGAAATGA
903298 AAAAAGAG
1 AAAAAGAG
* *
903306 AAAGAGAA
1 AAAAAGAG
903314 AAAAAGGAG
1 AAAAA-GAG
* *
903323 AAAAAAAT
1 AAAAAGAG
*
903331 AAAAATA-
1 AAAAAGAG
*
903338 AAAAAGGGG
1 AAAAA-GAG
903347 AAAAAGAG
1 AAAAAGAG
903355 AAAAAAGAG
1 -AAAAAGAG
*
903364 AAAAAAATG
1 AAAAAGA-G
903373 -AAAAGA-
1 AAAAAGAG
*
903379 AAAAA-TG
1 AAAAAGAG
903386 AAAAAGA-
1 AAAAAGAG
903393 AAAAA
1 AAAAA
903398 AAAAAGAAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
7 19 0.27
8 30 0.43
9 21 0.30
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (8 bp):
AAAAAGAG
Found at i:903358 original size:24 final size:23
Alignment explanation
Indices: 903298--903360 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
903288 AAAGAAATGA
903298 AAAAAGAGAAAGAGAAAAAAAGGAG
1 AAAAAGAGAAA-A-AAAAAAAGGAG
* * *
903323 AAAAAAATAAAAATAAAAAAGGGG
1 AAAAAGAGAAAAA-AAAAAAGGAG
903347 AAAAAGAGAAAAAA
1 AAAAAGAGAAAAAA
903361 GAGAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.06
24 21 0.66
25 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (23 bp):
AAAAAGAGAAAAAAAAAAAGGAG
Found at i:903359 original size:41 final size:40
Alignment explanation
Indices: 903292--903399 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 40
903282 GCCTGAAAAG
* *
903292 AAATGAAAAAAGAGAAAGAGAAAAAAAGGAGAAAAAAATAA
1 AAAT-AAAAAAGAGAAAAAGAAAAAAAAGAGAAAAAAATAA
* * *
903333 AAATAAAAAAGGGGAAAAAGAGAAAAAAGAGAAAAAAATGA
1 AAATAAAAAA-GAGAAAAAGAAAAAAAAGAGAAAAAAATAA
* *
903374 AAAGAAAAAA-TGAAAAAGAAAAAAAA
1 AAATAAAAAAGAGAAAAAGAAAAAAAA
903400 AAAGAAGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 14 0.24
40 6 0.10
41 38 0.66
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (40 bp):
AAATAAAAAAGAGAAAAAGAAAAAAAAGAGAAAAAAATAA
Found at i:903381 original size:14 final size:14
Alignment explanation
Indices: 903362--903417 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
903352 GAGAAAAAAG
903362 AGAAAAAAATGAAA
1 AGAAAAAAATGAAA
903376 AG-AAAAAATGAAAA
1 AGAAAAAAATG-AAA
**
903390 AGAAAAAAAAAAAGA
1 AGAAAAAAATGAA-A
903405 AGAAATAAAATGA
1 AGAAA-AAAATGA
903418 GGGTTCAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 8 0.24
14 9 0.26
15 12 0.35
16 5 0.15
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AGAAAAAAATGAAA
Found at i:903383 original size:13 final size:13
Alignment explanation
Indices: 903365--903414 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
903355 AAAAAAGAGA
903365 AAAAAATGAAAAG
1 AAAAAATGAAAAG
903378 AAAAAATGAAAAAG
1 AAAAAATG-AAAAG
*
903392 AAAAAA-AAAAAG
1 AAAAAATGAAAAG
*
903404 AAGAAAT-AAAA
1 AAAAAATGAAAA
903415 TGAGGGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 14 0.42
13 8 0.24
14 11 0.33
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAAATGAAAAG
Found at i:904714 original size:55 final size:55
Alignment explanation
Indices: 904644--905080 Score: 493
Period size: 55 Copynumber: 8.1 Consensus size: 55
904634 GTTAAAGATT
* *
904644 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTC
* * *
904699 AAGTCCTATACTCTCTGAAGGAATAGGGAGC-GAACACGTTTATTGAAGA----TC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAG-ACACGTTTGTTGAAGATTGTTC
* * * *
904750 GAGTCTTATACTCCCTGAATGAATAAGGAGCAGACCCGTTTGTTGAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTC
* * * *
904805 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACATTTATTGAAGA----TC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTC
* * *
904856 GAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTATTC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTC
* * * *
904911 GAGTCTTATACTCCCTGAACGAACAGGGAGCAGACACGTTTGTTGAAGATTGTTT
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTC
* * * ***
904966 GAGTCTTATACTCACTGAATGAATAGGGAGCATACACGTTTGCCAAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTC
* * *
905021 GAGTCTTATACTC-CTTAAAAGAATAGGGAGCAGACCCGTTAT-TTGAAGATT-TTC
1 GAGTCTTATACTCTC-TGAAGGAATAGGGAGCAGACACGTT-TGTTGAAGATTGTTC
*
905075 AAGTCT
1 GAGTCT
905081 CGCTTATACT
Statistics
Matches: 325, Mismatches: 45, Indels: 25
0.82 0.11 0.06
Matches are distributed among these distances:
51 89 0.27
52 1 0.00
54 10 0.03
55 224 0.69
56 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (55 bp):
GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGTTC
Found at i:904814 original size:106 final size:106
Alignment explanation
Indices: 904629--905051 Score: 526
Period size: 106 Copynumber: 4.0 Consensus size: 106
904619 GAAGCAAACT
* * * *
904629 CGTTTGTTAAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGAT
1 CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGAT
*
904694 TGTTCAAGTCCTATACTCTCTGAAGGAATAGGGAGCGAACA
66 TGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGAACA
* * *
904735 CGTTTATTGAAGATCGAGTCTTATACTCCCTGAATGAATAAGGAGCAGACCCGTTTGTTGAAGAT
1 CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGAT
*
904800 TGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
66 TGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGAACA
* *
904841 CATTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGAT
1 CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGAT
* * * * *
904906 TATTCGAGTCTTATACTCCCTGAACGAACAGGGAGC-AGACA
66 TGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGA-ACA
* * * * * * ***
904947 CGTTTGTTGAAGATTGTTTGAGTCTTATACTCACTGAATGAATAGGGAGCATACACGTTTGCCAA
1 CGTTTATTGAAGA----TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGA
* * *
905012 AGATTGTTCGAGTCTTATACTC-CTTAAAAGAATAGGGAGC
62 AGATTGTTCGAGTCCTATACTCTC-TGAAGGAATAGGGAGC
905052 AGACCCGTTA
Statistics
Matches: 276, Mismatches: 35, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
106 202 0.73
109 1 0.00
110 73 0.26
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (106 bp):
CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGAT
TGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGAACA
Found at i:904915 original size:161 final size:158
Alignment explanation
Indices: 904644--905002 Score: 486
Period size: 161 Copynumber: 2.2 Consensus size: 158
904634 GTTAAAGATT
* * *
904644 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGATTGTTCAAGTCCTATA
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACATTTATTGAAGA---TTCAAGTCCTATA
* *
904709 CTCTCTGAAGGAATAGGGAGCGAACACGTTTATTGAAGATCGAGTCTTATACTCCCTGAATGAAT
63 CTCTCTGAAGGAATAGGGAGCGAACACGTTTATTGAAGATCGAGTCTTATACTCCCTGAACGAAC
*
904774 AAGGAGCAGACCCGTTTGTTGAAGATTGTTC
128 AAGGAGCAGACACGTTTGTTGAAGATTGTTC
* * *
904805 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACATTTATTGAAGA-TCGAGTCTTATACTC
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACATTTATTGAAGATTCAAGTCCTATACTC
* * *
904869 TCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAACGAA
66 TCTGAAGGAATAGGGAGCGAACACGTTTATTGAAG---A-TCGAGTCTTATACTCCCTGAACGAA
* *
904934 CAGGGAGCAGACACGTTTGTTGAAGATTGTTT
127 CAAGGAGCAGACACGTTTGTTGAAGATTGTTC
* * * *
904966 GAGTCTTATACTCACTGAATGAATAGGGAGCATACAC
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACAC
905003 GTTTGCCAAA
Statistics
Matches: 175, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
157 45 0.26
160 1 0.01
161 129 0.74
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (158 bp):
GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACATTTATTGAAGATTCAAGTCCTATACTC
TCTGAAGGAATAGGGAGCGAACACGTTTATTGAAGATCGAGTCTTATACTCCCTGAACGAACAAG
GAGCAGACACGTTTGTTGAAGATTGTTC
Found at i:906217 original size:2 final size:2
Alignment explanation
Indices: 906212--906251 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
906202 ATTTTTTAAA
906212 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
906252 TTTAAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.