Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 117 of 186
Found at i:38858453 original size:24 final size:23
Alignment explanation
Indices: 38858414--38858463 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
38858404 CGAGCACTAA
38858414 TAAAACAGAGAAAGAAAACCTAG
1 TAAAACAGAGAAAGAAAACCTAG
* *
38858437 TAAAACTGAGTAAAGAAAATCTAG
1 TAAAACAGAG-AAAGAAAACCTAG
38858461 TAA
1 TAA
38858464 GCATTTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.58, C:0.10, G:0.16, T:0.16
Consensus pattern (23 bp):
TAAAACAGAGAAAGAAAACCTAG
Found at i:38860700 original size:13 final size:13
Alignment explanation
Indices: 38860684--38860709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38860674 TTATTTACCG
38860684 AAATTATTATAAT
1 AAATTATTATAAT
38860697 AAATTATTATAAT
1 AAATTATTATAAT
38860710 TATGATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:38865933 original size:28 final size:27
Alignment explanation
Indices: 38865869--38865993 Score: 187
Period size: 28 Copynumber: 4.6 Consensus size: 27
38865859 TTATTAAGTC
* *
38865869 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
38865896 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
38865924 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
38865952 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
38865979 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38865994 GCACAATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
27 40 0.44
28 50 0.55
29 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38865982 original size:55 final size:55
Alignment explanation
Indices: 38865869--38865993 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
38865859 TTATTAAGTC
* *
38865869 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCATACT
* * *
38865924 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCATACT
38865979 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38865994 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 37 0.58
56 27 0.42
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:38866012 original size:56 final size:56
Alignment explanation
Indices: 38865869--38866018 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 56
38865859 TTATTAAGTC
* * * *
38865869 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCATACT
* * *
38865924 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCATACT
* *
38865979 CGCACACTTAGTGCTGCACA-ATTTAAACCCGCACACTTAG
1 CGCACACTTAGTGCT--ACATAGTCAAACCCGCACACTTAG
38866019 CGCCAATCTC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
55 37 0.44
56 44 0.52
57 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCATACT
Found at i:38878749 original size:23 final size:22
Alignment explanation
Indices: 38878702--38878763 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
38878692 ATCGCAGCGT
38878702 AGCTGCTAATAGTAATCCAGCAA
1 AGCTGCTAATAGTAA-CCAGCAA
* *
38878725 AGCTGCTAATAGTAACGTAGTAA
1 AGCTGCTAATAGTAAC-CAGCAA
* *
38878748 AGCTACAAATAGTAAC
1 AGCTGCTAATAGTAAC
38878764 ACAACAAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (22 bp):
AGCTGCTAATAGTAACCAGCAA
Found at i:38879741 original size:21 final size:21
Alignment explanation
Indices: 38879715--38879755 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38879705 CAAACCTTTC
*
38879715 GAAATTAAATACAATTAAGTA
1 GAAATTAAATACAACTAAGTA
38879736 GAAATTAAATACAACTAAGT
1 GAAATTAAATACAACTAAGT
38879756 TAGCTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (21 bp):
GAAATTAAATACAACTAAGTA
Found at i:38887157 original size:20 final size:20
Alignment explanation
Indices: 38887128--38887172 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38887118 AGCACATGTA
*
38887128 TTCATAAAATTTTAAAATTT
1 TTCATAAAATTTTAAAACTT
* *
38887148 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTAAAACTT
38887168 TTCAT
1 TTCAT
38887173 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAAAACTT
Found at i:38890325 original size:46 final size:46
Alignment explanation
Indices: 38890257--38890393 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
38890247 TATATATACA
* * * *
38890257 CATCTCATACATATCTCACATTAGCGATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
38890303 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
38890349 TATCTCATACACATTTCTCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
38890394 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:38890428 original size:47 final size:47
Alignment explanation
Indices: 38890367--38890655 Score: 380
Period size: 47 Copynumber: 6.1 Consensus size: 47
38890357 ACACATTTCT
* * *
38890367 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCCTCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
38890414 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
38890461 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
38890508 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
38890555 CATTGGCCATTCGGCCTTATCGCACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * * **
38890606 CATTTGCCATTCGGCCTGATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
38890653 CAT
1 CAT
38890656 AAAATCCTAA
Statistics
Matches: 219, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 176 0.80
49 5 0.02
51 38 0.17
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:38890508 original size:25 final size:25
Alignment explanation
Indices: 38890479--38890556 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 25
38890469 ATTCGGCCTT
38890479 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** ** *
38890504 AT--CACATTGGCCAT-TTGGCCTT-
1 ATCACACATACG-CATGTTCACATTC
38890526 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
38890551 ATCACA
1 ATCACA
38890557 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 2 0.05
23 14 0.37
24 14 0.37
25 8 0.21
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.29
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:38892340 original size:27 final size:27
Alignment explanation
Indices: 38892310--38892487 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38892300 ATATTGAGTC
* * * *
38892310 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38892337 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38892364 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38892392 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38892419 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38892446 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38892473 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38892488 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38892449 original size:82 final size:81
Alignment explanation
Indices: 38892331--38892486 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38892321 TGCTATATAA
* *
38892331 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38892396 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38892413 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38892477 CACTTAGTGC
65 CACTTAGTGC
38892487 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38895032 original size:182 final size:182
Alignment explanation
Indices: 38894725--38895088 Score: 656
Period size: 182 Copynumber: 2.0 Consensus size: 182
38894715 TGAATCTCAG
*
38894725 GCTCAACTTGCCCTTATGGCCAAACCTAAGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTT
1 GCTCAACTTGCCCTTACGGCCAAACCTAAGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTT
* *
38894790 TATCTCCCACCTGATATTCAATGTCTTTTCGTTTCAAATCCGCATACGATTTCTGACGATCTGTG
66 TATCCCCCACCTGATATTCAATGTCCTTTCGTTTCAAATCCGCATACGATTTCTGACGATCTGTG
*
38894855 GCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCTTTAA
131 GCTGCCTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCTTTAA
*
38894907 GCTCAACTTGCCCTTACGGCCAAACCTAAGTACCTTTTTCCAAGGCGAAACTTTAAGGAACACTT
1 GCTCAACTTGCCCTTACGGCCAAACCTAAGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTT
*
38894972 TATCCCCCACCTGATATTCAATGTCCTTTCGTTTCAGATCCGCATACGATTTCTGACGATCTGTG
66 TATCCCCCACCTGATATTCAATGTCCTTTCGTTTCAAATCCGCATACGATTTCTGACGATCTGTG
**
38895037 GCTGCCTTCAGACTTTTGCGGATTACCTTTACTTTCTGTTCGGCATCTTTAA
131 GCTGCCTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCTTTAA
38895089 TCAAATCAAC
Statistics
Matches: 174, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 174 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (182 bp):
GCTCAACTTGCCCTTACGGCCAAACCTAAGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTT
TATCCCCCACCTGATATTCAATGTCCTTTCGTTTCAAATCCGCATACGATTTCTGACGATCTGTG
GCTGCCTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCTTTAA
Found at i:38905553 original size:96 final size:97
Alignment explanation
Indices: 38905371--38905547 Score: 211
Period size: 96 Copynumber: 1.8 Consensus size: 97
38905361 TTTTAGTTTA
*
38905371 AAGAATGATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTT
1 AAGAATGATAATTATTAATATATAATTATATCCATTAAAATATATATTAATTATTATCAAATTTT
* *** *
38905436 AGGATTTTATTTGATAAGTTTTTAATGATAAT
66 AGCATAGAATTGGATAAGTTTTTAATGATAAT
*
38905468 AAGAA-GATAATCT-TTAATATATAATTATATCTATTAAAAAATATATATTAATCT-TTATC-AA
1 AAGAATGATAAT-TATTAATATATAATTATATCCATT--AAAATATATATTAAT-TATTATCAAA
38905529 -TTTAGCATAGAATTAGGAT
62 TTTTAGCATAGAATT-GGAT
38905548 TGTTTTAATC
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
96 37 0.54
97 11 0.16
98 19 0.28
99 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (97 bp):
AAGAATGATAATTATTAATATATAATTATATCCATTAAAATATATATTAATTATTATCAAATTTT
AGCATAGAATTGGATAAGTTTTTAATGATAAT
Found at i:38923068 original size:41 final size:41
Alignment explanation
Indices: 38923016--38923195 Score: 177
Period size: 41 Copynumber: 4.4 Consensus size: 41
38923006 TGATTTCAAT
*
38923016 AAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTAGTC
1 AAAACGCCACTAAAAACTGAGCAATAGCGGCATTTCTAGTC
* * *
38923057 CAAACGCCACTAAAAACTGAGCAATAGCGGCATTTTTAGTG
1 AAAACGCCACTAAAAACTGAGCAATAGCGGCATTTCTAGTC
* *
38923098 AAAACGCCGA-TAAAAACTAAGCAATAGCGGCGTTTCT-GCTC
1 AAAACGCC-ACTAAAAACTGAGCAATAGCGGCATTTCTAG-TC
* * * * * * *
38923139 AAAACGCCGC-AAAAAGATTATCTATAGCGGCATTTTTGGTC
1 AAAACGCCACTAAAAA-CTGAGCAATAGCGGCATTTCTAGTC
* *
38923180 CAAACGCCACAAAAAA
1 AAAACGCCACTAAAAA
38923196 GTTGAGCAGC
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 6 0.05
41 102 0.89
42 7 0.06
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
AAAACGCCACTAAAAACTGAGCAATAGCGGCATTTCTAGTC
Found at i:38923166 original size:82 final size:82
Alignment explanation
Indices: 38923016--38923195 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 82
38923006 TGATTTCAAT
* * *
38923016 AAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTAGTCCAAACGCCACTAAAAACTGAGCAA
1 AAAACGCCACTAAAAACTAAGCAATAGCGGCGTTTCTAGTCAAAACGCCACTAAAAAATGAGCAA
38923081 TAGCGGCATTTTTAGTG
66 TAGCGGCATTTTTAGTG
* * *
38923098 AAAACGCCGA-TAAAAACTAAGCAATAGCGGCGTTTCT-GCTCAAAACGCCGC-AAAAAGATTAT
1 AAAACGCC-ACTAAAAACTAAGCAATAGCGGCGTTTCTAG-TCAAAACGCCACTAAAAA-ATGAG
* * *
38923160 CTATAGCGGCATTTTTGGTC
63 CAATAGCGGCATTTTTAGTG
* *
38923180 CAAACGCCACAAAAAA
1 AAAACGCCACTAAAAA
38923196 GTTGAGCAGC
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
81 7 0.08
82 75 0.90
83 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (82 bp):
AAAACGCCACTAAAAACTAAGCAATAGCGGCGTTTCTAGTCAAAACGCCACTAAAAAATGAGCAA
TAGCGGCATTTTTAGTG
Found at i:38923484 original size:8 final size:7
Alignment explanation
Indices: 38923470--38923534 Score: 60
Period size: 7 Copynumber: 9.1 Consensus size: 7
38923460 ATGGCTTTCT
38923470 CTAAACC
1 CTAAACC
38923477 CTTAAACC
1 C-TAAACC
38923485 CTAAA-C
1 CTAAACC
* *
38923491 ATAGACC
1 CTAAACC
*
38923498 CTAAACA
1 CTAAACC
*
38923505 CTAATCC
1 CTAAACC
*
38923512 ATAAACC
1 CTAAACC
38923519 CTAAGACC
1 CTAA-ACC
38923527 CTAAACC
1 CTAAACC
38923534 C
1 C
38923535 CAAAAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
6 4 0.09
7 27 0.60
8 14 0.31
ACGTcount: A:0.43, C:0.37, G:0.03, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:38923672 original size:7 final size:7
Alignment explanation
Indices: 38923648--38923709 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
38923638 TATTTTTGGA
*
38923648 TTTAGGG
1 TTTAAGG
**
38923655 TTTAATA
1 TTTAAGG
38923662 TTTAAGG
1 TTTAAGG
38923669 TTTAAGG
1 TTTAAGG
* *
38923676 TCTATGG
1 TTTAAGG
*
38923683 TTTAGGG
1 TTTAAGG
*
38923690 TTCTATGG
1 TT-TAAGG
38923698 TTTAAGG
1 TTTAAGG
38923705 TTTAA
1 TTTAA
38923710 TGGCCATGGG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:38923696 original size:15 final size:15
Alignment explanation
Indices: 38923667--38923706 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
38923657 TAATATTTAA
38923667 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTCTAT
*
38923681 GGTTTAGGGTTCTAT
1 GGTTTAAGGTTCTAT
38923696 GGTTTAAGGTT
1 GGTTTAAGGTT
38923707 TAATGGCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (15 bp):
GGTTTAAGGTTCTAT
Found at i:38923712 original size:15 final size:14
Alignment explanation
Indices: 38923648--38923708 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
38923638 TATTTTTGGA
* **
38923648 TTTAGGGTTTAATA
1 TTTATGGTTTAAGG
*
38923662 TTTAAGGTTTAAGG
1 TTTATGGTTTAAGG
* *
38923676 TCTATGGTTTAGGG
1 TTTATGGTTTAAGG
38923690 TTCTATGGTTTAAGG
1 TT-TATGGTTTAAGG
38923705 TTTA
1 TTTA
38923709 ATGGCCATGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.48
Consensus pattern (14 bp):
TTTATGGTTTAAGG
Found at i:38924073 original size:21 final size:21
Alignment explanation
Indices: 38924021--38924074 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
38924011 TTAAGTTTAT
38924021 GGTTTAAGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
* **
38924042 GGCTTGGGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
38924063 GGTTTAAGGTTT
1 GGTTTAAGGTTT
38924075 AAGGTATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.11, C:0.02, G:0.33, T:0.54
Consensus pattern (21 bp):
GGTTTAAGGTTTGTTATTTTG
Found at i:38924759 original size:40 final size:40
Alignment explanation
Indices: 38924699--38924782 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
38924689 CTTCAGTGGC
38924699 ATTAGCGGCACTTTTAGAAAAACGCCGCTATAGATTAAGT
1 ATTAGCGGCACTTTTAGAAAAACGCCGCTATAGATTAAGT
* * * *
38924739 ATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGATTGAGT
1 ATTAGCGGCACTTTTAGAAAAACGCCGCTATAGATTAAGT
38924779 ATTA
1 ATTA
38924783 CTCAAAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (40 bp):
ATTAGCGGCACTTTTAGAAAAACGCCGCTATAGATTAAGT
Found at i:38928849 original size:18 final size:17
Alignment explanation
Indices: 38928821--38928858 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
38928811 TTAAAGTTTA
*
38928821 AATTTCATAACTTACGT
1 AATTTCATAACTTACAT
38928838 AATTTACATAACTTACAT
1 AATTT-CATAACTTACAT
38928856 AAT
1 AAT
38928859 ACATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (17 bp):
AATTTCATAACTTACAT
Found at i:38928889 original size:43 final size:43
Alignment explanation
Indices: 38928842--38928940 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
38928832 TTACGTAATT
*
38928842 TACATAACTTACATAATACATAAATATATATCATATTACAACA
1 TACATAACTTACATAATACATAAATATATATCATATCACAACA
* * * *
38928885 TACATAACTTACATAATACTTAAATATTTATCATATCATATCA
1 TACATAACTTACATAATACATAAATATATATCATATCACAACA
38928928 TACATAACTTACA
1 TACATAACTTACA
38928941 AAACTTACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.35
Consensus pattern (43 bp):
TACATAACTTACATAATACATAAATATATATCATATCACAACA
Found at i:38928940 original size:9 final size:9
Alignment explanation
Indices: 38928928--38928961 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
38928918 TATCATATCA
38928928 TACATAACT
1 TACATAACT
*
38928937 TACAAAACT
1 TACATAACT
*
38928946 TACTTAACT
1 TACATAACT
38928955 TACATAA
1 TACATAA
38928962 TACATAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:38932485 original size:40 final size:40
Alignment explanation
Indices: 38932422--38932625 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
38932412 CGGAATTTAA
** *
38932422 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38932462 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38932502 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38932541 CC-GAAATTAGTAACTCGCACAAATGTCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38932581 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38932621 CCGGA
1 CCGGA
38932626 CATCATTCGA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 4 0.03
39 29 0.21
40 88 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38932585 original size:79 final size:80
Alignment explanation
Indices: 38932443--38932623 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
38932433 TACTCGTTCA
* ** *
38932443 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
38932508 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
38932523 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGTCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
38932585 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
38932602 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
38932624 GACATCATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 56 0.66
80 25 0.29
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:38933829 original size:56 final size:56
Alignment explanation
Indices: 38933762--38933881 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38933752 TATTAGTTTA
38933762 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
38933818 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
38933874 TTGCCCAT
1 TTGCCCAT
38933882 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:38937109 original size:13 final size:14
Alignment explanation
Indices: 38937093--38937121 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38937083 TTATAAATAT
38937093 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
38937106 TTATAATGGTTTAA
1 TTATAATGGTTTAA
38937120 TT
1 TT
38937122 CGTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:38939549 original size:41 final size:40
Alignment explanation
Indices: 38939492--38939640 Score: 201
Period size: 41 Copynumber: 3.7 Consensus size: 40
38939482 TTGGGGTTTA
38939492 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCA-TGTCAT
*
38939533 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCATGTCAC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCATGTCAT
* * * * * * *
38939573 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCC-ATGTCAT
38939613 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
38939641 TGAGTCAGCG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
39 23 0.25
40 15 0.16
41 53 0.58
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (40 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCATGTCAT
Found at i:38941334 original size:31 final size:31
Alignment explanation
Indices: 38941299--38941359 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
38941289 TTTTATTTTT
*
38941299 ATGCTACATTTGCTGTTTTTAGTTGGATTTC
1 ATGCTACATTTGCTGTTTTCAGTTGGATTTC
* * *
38941330 ATGCTATATTTGTTGTTTTCGGTTGGATTT
1 ATGCTACATTTGCTGTTTTCAGTTGGATTT
38941360 AATGTAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTCAGTTGGATTTC
Found at i:38941488 original size:43 final size:43
Alignment explanation
Indices: 38941440--38941576 Score: 170
Period size: 44 Copynumber: 3.2 Consensus size: 43
38941430 CAAAAGCACC
* *
38941440 TTTCGCAGTGCTTCCCCCAAAAACACCGCTAAAAGCCATGACT
1 TTTCGCAGTGCTTCCCCCACAAACGCCGCTAAAAGCCATGACT
*
38941483 TTTCGC-GCGCTTCCCCCACAAACGCCGCTAAAAGGCCATGACT
1 TTTCGCAGTGCTTCCCCCACAAACGCCGCTAAAA-GCCATGACT
** * * *
38941526 TTTAACGGTGCTTCTCCCACAAACGCCGCTAAAAGTCATGATCT
1 TTTCGCAGTGCTTCCCCCACAAACGCCGCTAAAAGCCATGA-CT
38941570 TTT-GCAG
1 TTTCGCAG
38941577 CGTTTGCTAC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 24 0.30
43 27 0.33
44 30 0.37
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (43 bp):
TTTCGCAGTGCTTCCCCCACAAACGCCGCTAAAAGCCATGACT
Found at i:38941730 original size:122 final size:122
Alignment explanation
Indices: 38941505--38941764 Score: 385
Period size: 122 Copynumber: 2.1 Consensus size: 122
38941495 CCCCCACAAA
* *
38941505 CGCCGCTAAAAGGCCATGACTTTTAACGGTGCTTCTCCCACAAACGCCGCTAAAAGTCATGATCT
1 CGCCGCT-AAAGGCCATGACTTTTAACGGCGCTTCTCCCACAAACGCCGCTAAAAGTCACGATCT
* * *
38941570 TTTGCAGCGTTTGCTACAGCGGCGTTGCGCTGCAAATAGTTCTAGGGGCGCTTAAAAG
65 TTTGCAGCATTTGCTACAGCGGCGTTGCGCCGCAAATAGTTATAGGGGCGCTTAAAAG
* * *
38941628 CGTCGCTAAAGGCCATGTCTTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAAGTCACGATCTT
1 CGCCGCTAAAGGCCATGACTTTTAACGGCGCTTCTCCCACAAACGCCGCTAAAAGTCACGATCTT
* * * * * *
38941693 TTGCGGCATTTTCTATAGTGGCGTTGTGCCGTAAATAGTTATAGGGGCGCTTAAAAG
66 TTGCAGCATTTGCTACAGCGGCGTTGCGCCGCAAATAGTTATAGGGGCGCTTAAAAG
38941750 CGCCGCTAAAGGCCA
1 CGCCGCTAAAGGCCA
38941765 AAAAAATGCC
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
122 116 0.95
123 6 0.05
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (122 bp):
CGCCGCTAAAGGCCATGACTTTTAACGGCGCTTCTCCCACAAACGCCGCTAAAAGTCACGATCTT
TTGCAGCATTTGCTACAGCGGCGTTGCGCCGCAAATAGTTATAGGGGCGCTTAAAAG
Found at i:38948546 original size:50 final size:50
Alignment explanation
Indices: 38948471--38948802 Score: 321
Period size: 50 Copynumber: 6.6 Consensus size: 50
38948461 TTAACTTCGA
38948471 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
* * ** * * * *
38948521 TCACGTGTGTAATACGAAGTGCAGGCTACTATGTGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
** * * ***
38948571 TTGCATGTGTAGTACTAAGTGCAGGCTACT--ATGCAT-A-CCCGTTAACTTTG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAA----G
* *
38948621 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAAG
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
*
38948672 TCACGTGTGTAGTACTAAGTGCAGGATACTACATGTATCAGATGGTTAAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
* * ** * * * * *
38948722 TCATGTGTGTAGAACTAAGTGCATTCTACTACGTGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
* * *
38948772 TCGCATGTGTAGTACTAAGTGCAAGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
38948803 TGCGTACTAG
Statistics
Matches: 225, Mismatches: 48, Indels: 18
0.77 0.16 0.06
Matches are distributed among these distances:
46 3 0.01
47 1 0.00
48 3 0.01
50 180 0.80
51 28 0.12
53 4 0.02
54 1 0.00
55 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
Found at i:38948702 original size:151 final size:151
Alignment explanation
Indices: 38948428--38948702 Score: 496
Period size: 151 Copynumber: 1.8 Consensus size: 151
38948418 GAGTCACGTG
38948428 GTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGC
1 GTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGC
*
38948493 AGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGGCTACTATGTGTA
66 AGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGGATACTATGTGTA
38948558 CCAGATTGATAGGTTGCATGT
131 CCAGATTGATAGGTTGCATGT
*
38948579 GTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGC
1 GTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGC
* * * *
38948644 AGGCTACTACGTGTATTAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGATACTA
66 AGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGGATACTA
38948703 CATGTATCAG
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
151 118 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (151 bp):
GTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGC
AGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGGATACTATGTGTA
CCAGATTGATAGGTTGCATGT
Found at i:38948752 original size:151 final size:151
Alignment explanation
Indices: 38948419--38948744 Score: 487
Period size: 151 Copynumber: 2.2 Consensus size: 151
38948409 ATTCGTTGTG
*
38948419 AGTCACGTG-GTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAG
1 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAG
*
38948483 TACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGGCT
66 TACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGGAT
** *
38948548 ACTATGTGTACCAGATTGATA
131 ACTACATGTACCAGATGGATA
* *
38948569 GGT--TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGT
1 AGTCATG--TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGT
* * * *
38948632 AGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGG
64 AGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGG
* *
38948697 ATACTACATGTATCAGATGGTTA
129 ATACTACATGTACCAGATGGATA
*
38948720 AGTCATGTGTGTAGAACTAAGTGCA
1 AGTCATGTGTGTAGTACTAAGTGCA
38948745 TTCTACTACG
Statistics
Matches: 156, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
148 1 0.01
150 4 0.03
151 149 0.96
153 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (151 bp):
AGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAATACGAAGTGCAGGAT
ACTACATGTACCAGATGGATA
Found at i:38949034 original size:16 final size:16
Alignment explanation
Indices: 38949013--38949044 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38949003 AGAATAGAGT
38949013 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38949029 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38949045 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38949174 original size:21 final size:21
Alignment explanation
Indices: 38949148--38949190 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38949138 AATTTTAATG
38949148 AGTCTATTTTTTCATAAAAGA
1 AGTCTATTTTTTCATAAAAGA
38949169 AGTCTATTTTTTCATAAAAGA
1 AGTCTATTTTTTCATAAAAGA
38949190 A
1 A
38949191 ATGATGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (21 bp):
AGTCTATTTTTTCATAAAAGA
Found at i:38951115 original size:15 final size:16
Alignment explanation
Indices: 38951079--38951122 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
38951069 TATGATATTG
38951079 TATCTTGGATTTC-CT
1 TATCTTGGATTTCTCT
*
38951094 TAACTTGGATTTCTC-
1 TATCTTGGATTTCTCT
*
38951109 TATCTTGGACTTCT
1 TATCTTGGATTTCT
38951123 TAATCCTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (16 bp):
TATCTTGGATTTCTCT
Found at i:38953652 original size:18 final size:20
Alignment explanation
Indices: 38953616--38953662 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38953606 AGTTGTAAAT
38953616 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38953636 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
38953655 ATGATATA
1 AT-ATATA
38953663 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38954201 original size:101 final size:98
Alignment explanation
Indices: 38954012--38954404 Score: 387
Period size: 101 Copynumber: 3.9 Consensus size: 98
38954002 TCATTGTGAG
* * * * *
38954012 TCACGTGTGTAGTGCTAAGTGCAGGCTACTACGTGCACTAGATTGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
* *
38954077 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCAA
66 TAAGTGCAGGCTACTATGTGTACCAGTT-A-TT-AA
* * * * * * *
38954113 TCACATATGTAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
** *
38954178 TAAGTGCAGGCTACTACATGTACCAGATTGA-TAGG
66 TAAGTGCAGGCTACTATGTGTACCAG-TT-ATTA-A
* * * * * *
38954213 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCA-A-TAACTTCGATCACGTGTGTAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGA--TAGGTCACATGTGTAG
* **
38954276 TACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAA
63 TACTAAGTGCAGGCTACTATGTGTACCAG-TTATTAA
* * *
38954313 GTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTA
1 -TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTA
* *
38954378 ATAAGTGCAGGCTACTATGCGTACCAG
65 CTAAGTGCAGGCTACTATGTGTACCAG
38954405 AGAGCTTCGG
Statistics
Matches: 236, Mismatches: 47, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
99 1 0.00
100 76 0.32
101 154 0.65
102 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGTGTACCAGTTATTAA
Found at i:38954246 original size:26 final size:26
Alignment explanation
Indices: 38954217--38954300 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
38954207 GATAGGTCGC
38954217 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
** * * * *
38954243 ATGTGTACCCAATAACTTC--GATCAC-
1 ATGTGTA-GTACTAAGTGCAGGCT-ACT
*
38954268 GTGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
38954294 ATGTGTA
1 ATGTGTA
38954301 TCAGATGGTT
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
24 6 0.15
25 10 0.26
26 17 0.44
27 6 0.15
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:38954284 original size:151 final size:151
Alignment explanation
Indices: 38954010--38954402 Score: 651
Period size: 151 Copynumber: 2.6 Consensus size: 151
38954000 ATTCATTGTG
* * * *
38954010 AGTCACGTGTGTAGTGCTAAGTGCAGGCTACTACGTGCACTAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
**
38954075 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCAATCACATATGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCAATCACATATGTAGTACTAAGTGCAGGCT
38954140 ACCACGTGTATCAGATGGTTA
131 ACCACGTGTATCAGATGGTTA
38954161 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
* * * *
38954226 ACTAAGTGCAGGCTACTATGTGTACCCAATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCAATCACATATGTAGTACTAAGTGCAGGCT
* *
38954291 ACTATGTGTATCAGATGGTTA
131 ACCACGTGTATCAGATGGTTA
* *
38954312 AGTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
*
38954377 AATAAGTGCAGGCTACTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
38954403 AGAGAGCTTC
Statistics
Matches: 226, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 226 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCAATCACATATGTAGTACTAAGTGCAGGCT
ACCACGTGTATCAGATGGTTA
Found at i:38954402 original size:50 final size:50
Alignment explanation
Indices: 38954011--38954405 Score: 393
Period size: 50 Copynumber: 7.9 Consensus size: 50
38954001 TTCATTGTGA
* * * *
38954011 GTCACGTGTGTAGTGCTAAGTGCAGGCTACTACGTGCACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
38954061 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCA-
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--T-AG
* * * * * * *
38954112 ATCACATATGTAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
38954162 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
38954212 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCA-A-TAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGA--TAG
* * * * * * *
38954263 ATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
38954313 GTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
38954363 GTCGCATGTGTAGTAATAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
38954406 GAGCTTCGGT
Statistics
Matches: 276, Mismatches: 59, Indels: 20
0.78 0.17 0.06
Matches are distributed among these distances:
49 6 0.02
50 192 0.70
51 76 0.28
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:38954625 original size:16 final size:16
Alignment explanation
Indices: 38954604--38954635 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38954594 AGAATGGAGT
38954604 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38954620 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38954636 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38959853 original size:66 final size:69
Alignment explanation
Indices: 38959724--38959853 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 69
38959714 GAGATGTATC
* * *
38959724 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATATAGACAAGAGAGCTACG-GAGAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
38959789 AGGATA
64 AGGATA
* * *
38959795 CCATATAGACAAGAGAGCTAC-GAGA-A-AAATCG-GCTAGGTCGCATTAGTGGTACTAAGTG
1 CCATATAGACAAGAGAGCTACGGAGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
38959854 TTCACCACGT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
66 22 0.42
67 4 0.08
68 2 0.04
69 4 0.08
71 20 0.38
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (69 bp):
CCATATAGACAAGAGAGCTACGGAGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAG
GATA
Found at i:38964186 original size:11 final size:12
Alignment explanation
Indices: 38964170--38964200 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
38964160 CGAGATAGAA
38964170 ATAATTATTTT-
1 ATAATTATTTTG
38964181 ATAATTATTTTG
1 ATAATTATTTTG
38964193 ATAATTAT
1 ATAATTAT
38964201 GATATGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
ATAATTATTTTG
Found at i:38965481 original size:93 final size:93
Alignment explanation
Indices: 38965322--38965492 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
38965312 GGATGGTTGA
* *
38965322 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
38965387 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
38965415 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
38965480 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38965493 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38965495 original size:46 final size:45
Alignment explanation
Indices: 38965326--38965497 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 45
38965316 GGTTGAGCAT
* * *
38965326 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGGC
* * *
38965372 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAGGC
38965417 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-GC
*
38965465 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38965498 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 61 0.57
47 31 0.29
48 4 0.04
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGGC
Found at i:38970876 original size:28 final size:28
Alignment explanation
Indices: 38970844--38970907 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
38970834 AGGGGTGTTA
* *
38970844 CAATATTTCTCACACTAAGTGTCATTCT
1 CAATATTTCGCACACTAAGTGCCATTCT
*
38970872 CAATATCTCGCACACTAAGTGCCATTCT
1 CAATATTTCGCACACTAAGTGCCATTCT
38970900 CAATATTT
1 CAATATTT
38970908 TATTCATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.36
Consensus pattern (28 bp):
CAATATTTCGCACACTAAGTGCCATTCT
Found at i:38975667 original size:13 final size:13
Alignment explanation
Indices: 38975649--38975673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38975639 TTATGTGTGT
38975649 GAAAATTTTATCA
1 GAAAATTTTATCA
38975662 GAAAATTTTATC
1 GAAAATTTTATC
38975674 GTTTGAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
GAAAATTTTATCA
Found at i:38976907 original size:86 final size:86
Alignment explanation
Indices: 38976759--38976930 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 86
38976749 TATGTGATTC
** *
38976759 CGATATATGATTACGTGTAAGACCATGTCTGGGACAATTTCATCGATATGTGATTACGTGTAAGA
1 CGATATATGATTACGTGTAAGACCATGTCTGGGACAATGGCATCGATATGTGATTACATGTAAGA
* *
38976824 CCCCATTTAGGACGTTGGCAT
66 CCACATCTAGGACGTTGGCAT
* * *
38976845 CGATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGA
1 CGATATATGATTACGTGTAAGACCATGTCTGGGACAATGGCATCGATATGTGATTACATGTAAGA
* *
38976910 CCACGTCTGGGACGTTGGCAT
66 CCACATCTAGGACGTTGGCAT
38976931 TGTACGATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (86 bp):
CGATATATGATTACGTGTAAGACCATGTCTGGGACAATGGCATCGATATGTGATTACATGTAAGA
CCACATCTAGGACGTTGGCAT
Found at i:38976929 original size:43 final size:44
Alignment explanation
Indices: 38976759--38976930 Score: 219
Period size: 43 Copynumber: 4.0 Consensus size: 44
38976749 TATGTGATTC
* * * *
38976759 CGATATATGATTACGTGTAAGACCATGTCTGGGACAATT-TCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACAGTTGGCAT
* * * *
38976802 CGATATGTGATTACGTGTAAGACCCCATTTAGGAC-GTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACAGTTGGCAT
38976845 CGATATGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTGGGACAGTTGGCAT
*
38976888 CGATATGTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACAGTTGGCAT
38976931 TGTACGATAT
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
42 4 0.04
43 106 0.95
44 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACAGTTGGCAT
Found at i:38983373 original size:25 final size:25
Alignment explanation
Indices: 38983323--38983370 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
38983313 ATGAGAGAAG
**
38983323 GAGGAATTTTCAGGCTCTTATTTTA
1 GAGGAATTTTCAAACTCTTATTTTA
38983348 GAGGAATTTTCAAACTC-TATTTT
1 GAGGAATTTTCAAACTCTTATTTT
38983371 TAGTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (25 bp):
GAGGAATTTTCAAACTCTTATTTTA
Found at i:38986251 original size:49 final size:50
Alignment explanation
Indices: 38986122--38986254 Score: 162
Period size: 51 Copynumber: 2.7 Consensus size: 50
38986112 TCTATTGTGA
* *
38986122 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGT
* * * * * *
38986173 GATCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTA-CC-AGATTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-T
38986222 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
38986255 TGCATACCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 4 0.06
49 31 0.44
50 2 0.03
51 33 0.47
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTGT
Found at i:38986263 original size:49 final size:48
Alignment explanation
Indices: 38986122--38986266 Score: 173
Period size: 49 Copynumber: 2.9 Consensus size: 48
38986112 TCTATTGTGA
* * *
38986122 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGATTGT
* * * * *
38986173 GATCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCAGATTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTG-T
*
38986222 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
38986267 AGCTTCGGCT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
48 4 0.05
49 40 0.51
50 2 0.03
51 33 0.42
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGT
Found at i:38990201 original size:6 final size:6
Alignment explanation
Indices: 38990183--38990264 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
38990173 AAGAAACATT
* *
38990183 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
38990232 ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
38990265 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.07
6 46 0.79
7 6 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:38990228 original size:25 final size:25
Alignment explanation
Indices: 38990197--38990264 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
38990187 GAACTAGAAT
* *
38990197 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
38990222 CAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
38990247 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
38990265 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:38990685 original size:27 final size:27
Alignment explanation
Indices: 38990624--38990686 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
38990614 AGTCACTTGG
*
38990624 CCACAAGGGCAAAATAGTCATTTAACA
1 CCACAAGGGCAAAATAGTAATTTAACA
** * * *
38990651 CCTTAAGGGCAAAATGGTAATTTTACC
1 CCACAAGGGCAAAATAGTAATTTAACA
38990678 CCACAAGGG
1 CCACAAGGG
38990687 TATCTCGGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (27 bp):
CCACAAGGGCAAAATAGTAATTTAACA
Found at i:38990696 original size:27 final size:27
Alignment explanation
Indices: 38990666--38990915 Score: 374
Period size: 27 Copynumber: 9.3 Consensus size: 27
38990656 AGGGCAAAAT
* * * *
38990666 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38990693 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38990720 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38990747 GGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38990774 GCTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38990801 GGTTATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38990828 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
38990855 AGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38990882 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38990909 GGTAATT
1 GGTAATT
38990916 TCACAAAGTA
Statistics
Matches: 202, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 202 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:38990959 original size:54 final size:54
Alignment explanation
Indices: 38990901--38991024 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
38990891 ACCCTACAAG
*
38990901 GGTATTTCGGTAATTTCACAAAGTAG-GGGTATTTTGGTAATTTTACAAACTAAT
1 GGTATTTCGGTAATTTCACAAA-TAGAGGGTATTTTGGTAATTTTACAAACCAAT
* * *** * **
38990955 GGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTCGGTAATTTCACAAATAGAGGGTATTTTGGTAATTTTACAAACCAAT
*
38991009 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
38991025 TTTACATTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (54 bp):
GGTATTTCGGTAATTTCACAAATAGAGGGTATTTTGGTAATTTTACAAACCAAT
Found at i:38990959 original size:81 final size:81
Alignment explanation
Indices: 38990666--38990969 Score: 265
Period size: 81 Copynumber: 3.8 Consensus size: 81
38990656 AGGGCAAAAT
* ** * * * * ** * * *
38990666 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTAC
1 GGTAATTCTACCAAACAGGGGTATTTCAGTAATTCTATCAAACAAGGGTATTTCGGTAATTCTAC
38990731 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* ** * ** * *
38990747 GGTCATTCTACCCTACAGGGGTATTTC-GCTAATTCTACCCTACAGGGGTATTTCGGTTATTCTA
1 GGTAATTCTACCAAACAGGGGTATTTCAG-TAATTCTATCAAACAAGGGTATTTCGGTAATTCTA
*
38990811 CCCTACAGGGGTATTTC
65 CCCTACAAGGGTATTTC
** **
38990828 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTATCCTACAAGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCAAACAGGGGTATTTCAGTAATTCTATCAAACAAGGGTATTTCGGTAATTCTAC
38990893 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* ** * * *
38990909 GGTAATT-T-CACAAAGTAGGGGTATTTTGGTAATTTTA-CAAACTAATGGTATTTTGGTAATT
1 GGTAATTCTAC-CAAA-CAGGGGTATTTCAGTAATTCTATCAAAC-AAGGGTATTTCGGTAATT
38990970 TTATTGATCG
Statistics
Matches: 194, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 7 0.04
81 185 0.95
82 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCAAACAGGGGTATTTCAGTAATTCTATCAAACAAGGGTATTTCGGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:38990971 original size:27 final size:27
Alignment explanation
Indices: 38990871--38991025 Score: 107
Period size: 27 Copynumber: 5.7 Consensus size: 27
38990861 TCTATCCTAC
* * **
38990871 AAGGGTATTTCGGTAATTCTACCCTAC-
1 AAGGGTATTTTGGTAATTTTA-CAAACT
* * *
38990898 AAGGGTATTTCGGTAATTTCACAAAGT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
38990925 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* ***
38990952 AATGGTATTTTGGTAATTTTATTGA-T
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** *
38990978 CGAGGGTATTTTGGTAATTTTGTAAACC
1 -AAGGGTATTTTGGTAATTTTACAAACT
* **
38991006 AATGGTATTTCAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
38991026 TTACATTGAG
Statistics
Matches: 101, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
26 3 0.03
27 98 0.97
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:38991037 original size:54 final size:54
Alignment explanation
Indices: 38990927--38991057 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
38990917 CACAAAGTAG
** * ** *
38990927 GGGTATTTTGGTAATTTTACAAACTAATGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCAGTAATTTTATTCATCGA
*
38990981 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCAGTAATTTT-TTACATTGA
1 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCAGTAATTTTATT-CATCGA
*** *
38991035 GGGTAAAATGGTAATTCTGTAAA
1 GGGTATTTTGGTAATTTTGTAAA
38991058 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.03
54 63 0.97
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.44
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCAGTAATTTTATTCATCGA
Found at i:38991048 original size:27 final size:27
Alignment explanation
Indices: 38991033--38991216 Score: 260
Period size: 27 Copynumber: 6.8 Consensus size: 27
38991023 TTTTTACATT
*
38991033 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
38991060 GAGGGTAAGACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
38991087 AAGGGTAAAATAGTAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
38991114 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
38991141 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
38991168 GAGGGTAAAACGATAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
38991195 GAGGGTAAAATGGTAATTCTAT
1 GAGGGTAAAATGGTAATTCTAT
38991217 CTTACAGGAG
Statistics
Matches: 136, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATC
Found at i:38991061 original size:81 final size:81
Alignment explanation
Indices: 38990990--38991214 Score: 256
Period size: 81 Copynumber: 2.8 Consensus size: 81
38990980 AGGGTATTTT
* * ** * * * *
38990990 GGTAATTTTGTAAACCAATGGT-ATTTCAGTAATTTTTTACATTGAGGGTAAAATGGTAATTCTG
1 GGTAATTCTGTAAACCAAGGGTAAAAT-AGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTG
38991054 TAAATCGAGGGTAAGAC
65 TAAATCGAGGGTAAGAC
*
38991071 GGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGT
1 GGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGT
* *
38991136 AAATCGAGGGTAAAAT
66 AAATCGAGGGTAAGAC
* * * * * * *
38991152 AGTAATTCTATAAATCGAGGGTAAAA-CGATAATTCTATAAATCGAGGGTAAAATGGTAATTCT
1 GGTAATTCTGTAAACCAAGGGTAAAATAG-TAATTCTATAAATTGAGGGTAAAACGGTAATTCT
38991215 ATCTTACAGG
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 122 0.98
82 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.32
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGT
AAATCGAGGGTAAGAC
Found at i:38991076 original size:54 final size:54
Alignment explanation
Indices: 38991033--38991216 Score: 296
Period size: 54 Copynumber: 3.4 Consensus size: 54
38991023 TTTTTACATT
* * *
38991033 GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
* *
38991087 AAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
* *
38991141 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
38991195 GAGGGTAAAATGGTAATTCTAT
1 GAGGGTAAAATAGTAATTCTAT
38991217 CTTACAGGAG
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
Found at i:38991256 original size:27 final size:27
Alignment explanation
Indices: 38991226--38991375 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
38991216 TCTTACAGGA
38991226 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
38991253 GTATTTCAGTAATTTTGCAAA-CTGAGG
1 GTATTTCAGTAATTTTACAAATC-GAGG
**
38991280 GTATTTTTGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* ** * *
38991307 ATATTTGTGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * *
38991334 GTACTTT-GGTAATTTTACAAGTTGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
38991361 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
38991376 GGTAAACTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.04
27 96 0.92
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:38991312 original size:81 final size:82
Alignment explanation
Indices: 38991222--38991375 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 82
38991212 TCTATCTTAC
*
38991222 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTGCAAACTGAGGGTATTT
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTACTTT-AGTAATTTTACAAACTGAGGGTATTT
**
38991286 TTGTAATTTTACAAATCG
65 CAGTAATTTTACAAATCG
** * * * **
38991304 AGGA-TATTTGTGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTC
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTC
38991368 AGTAATTT
66 AGTAATTT
38991376 GGTAAACTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 54 0.89
82 7 0.11
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (82 bp):
AGGAGTATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTC
AGTAATTTTACAAATCG
Found at i:38993121 original size:79 final size:81
Alignment explanation
Indices: 38992985--38993169 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
38992975 TTGAATGATG
*
38992985 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
38993049 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38993064 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38993126 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
38993144 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38993170 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:38993176 original size:40 final size:39
Alignment explanation
Indices: 38992986--38993169 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
38992976 TGAATGATGT
* * *
38992986 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38993025 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
38993066 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38993104 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38993145 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38993170 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38993191 original size:79 final size:79
Alignment explanation
Indices: 38992986--38993202 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
38992976 TGAATGATGT
** * * * ** *
38992986 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
38993049 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** *
38993066 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
38993131 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
38993145 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
38993203 TACGTGATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 72 0.62
80 42 0.36
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:38997972 original size:23 final size:23
Alignment explanation
Indices: 38997901--38997978 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
38997891 ACACGTAATG
38997901 TTTTGTAAAGCCTTTGTGGTGTA
1 TTTTGTAAAGCCTTTGTGGTGTA
*** **
38997924 TTCTATG-ATTTCCTTTGTGGCATA
1 TT-T-TGTAAAGCCTTTGTGGTGTA
38997948 TTTTGTAAAGCCTTTGTGGTGTA
1 TTTTGTAAAGCCTTTGTGGTGTA
*
38997971 TTCTGTAA
1 TTTTGTAA
38997979 TGCCCTTGAG
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
22 2 0.05
23 22 0.54
24 15 0.37
25 2 0.05
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.49
Consensus pattern (23 bp):
TTTTGTAAAGCCTTTGTGGTGTA
Found at i:38999696 original size:10 final size:10
Alignment explanation
Indices: 38999681--38999709 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
38999671 ATTACGTGTT
38999681 TGAATAGAAA
1 TGAATAGAAA
38999691 TGAATAG-AA
1 TGAATAGAAA
38999700 TGAATAGAAA
1 TGAATAGAAA
38999710 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:39000839 original size:49 final size:50
Alignment explanation
Indices: 39000711--39000856 Score: 197
Period size: 50 Copynumber: 2.9 Consensus size: 50
39000701 ATCTATTGTG
**
39000711 AGGTCGCATGTGTAGTACTAAGTGTAGGCTACTACGTGT-CTCAGATGGTT
1 AGGTCGCATGTGTAGTACTAAGTGTAGGCTACTACGTGTAC-CAGATAATT
* * **
39000761 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATT
1 AGGTCGCATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
* *
39000811 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCGCATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATA
39000857 GCTTTGGCTA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 40 0.48
50 42 0.51
51 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCGCATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
Found at i:39002801 original size:21 final size:21
Alignment explanation
Indices: 39002761--39002802 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
39002751 CCTAAGTGTC
*
39002761 TAACCATTCAAACATTAACAT
1 TAACCATTCAAACATAAACAT
39002782 TAACCATTCAAATCA-AAACAT
1 TAACCATTCAAA-CATAAACAT
39002803 AATTTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (21 bp):
TAACCATTCAAACATAAACAT
Found at i:39003555 original size:28 final size:29
Alignment explanation
Indices: 39003479--39003558 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 29
39003469 GGTATCCACA
*
39003479 ACCGGTACATAGTACCTGAAACTGTAAAC
1 ACCGGTACATAGTACCTGGAACTGTAAAC
* * * * * *
39003508 ATCAGCACAAAGTGCCTGGAAGTG-AAAC
1 ACCGGTACATAGTACCTGGAACTGTAAAC
*
39003536 ACCGGTACATAGTACTTGGAACT
1 ACCGGTACATAGTACCTGGAACT
39003559 ATAATCATAG
Statistics
Matches: 37, Mismatches: 14, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (29 bp):
ACCGGTACATAGTACCTGGAACTGTAAAC
Found at i:39018662 original size:47 final size:46
Alignment explanation
Indices: 39018557--39018686 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 46
39018547 GTGTGAAAAA
* * *
39018557 TACCTTGATTTGGCTACGAGCCATGATATAGGTACATTGAGAAAAGC
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTAC-TCGAGAAAAGC
* * * * * *
39018604 TACCCTAATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT-CGAGAAAAGC
*
39018651 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
39018687 TATCGATTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCGAGAAAAGC
Found at i:39020135 original size:51 final size:51
Alignment explanation
Indices: 39020054--39020157 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
39020044 CCTAATAGTC
* *
39020054 ATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGTAAAAATG
1 ATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATG
39020105 ATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATG
1 ATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATG
39020156 AT
1 AT
39020158 CAGCATGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (51 bp):
ATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATG
Found at i:39020798 original size:46 final size:46
Alignment explanation
Indices: 39020745--39020920 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
39020735 TATTTGGGCA
39020745 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
39020791 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
39020838 TCCGAGCCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
39020884 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39020921 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:39020900 original size:93 final size:93
Alignment explanation
Indices: 39020741--39020913 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
39020731 GGGATATTTG
* * *
39020741 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39020806 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
39020834 GGCATCCGAGCCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39020899 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
39020914 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:39021746 original size:127 final size:127
Alignment explanation
Indices: 39021520--39021772 Score: 479
Period size: 127 Copynumber: 2.0 Consensus size: 127
39021510 CAAATTACTA
*
39021520 GCTAATCCATGGAAACCATGAAATAGGTAAAATTTACCATAAAATAGATTCAGACAGCAGTAGTG
1 GCTAATCCATGGAAACCATGAAATAGGTAAAATTTACCATAAAATAGATTCAGACAGCAGCAGTG
39021585 ACGTAAGTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGGTGAATAAAATATGG
66 ACGTAAGTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGGTGAATAAAATATGG
39021647 GCTAATCCATGGAAACCATGAAATAGGTAAAATTTACCATAAAATAGATTCAGACAGCAGCAGTG
1 GCTAATCCATGGAAACCATGAAATAGGTAAAATTTACCATAAAATAGATTCAGACAGCAGCAGTG
* *
39021712 ATGTGAGTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGGTGAATAAAATATG
66 ACGTAAGTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGGTGAATAAAATATG
39021773 AAAGTGAATA
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.25
Consensus pattern (127 bp):
GCTAATCCATGGAAACCATGAAATAGGTAAAATTTACCATAAAATAGATTCAGACAGCAGCAGTG
ACGTAAGTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGGTGAATAAAATATGG
Found at i:39024006 original size:15 final size:15
Alignment explanation
Indices: 39023986--39024054 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
39023976 GTATCTTAGG
39023986 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
39024001 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
39024016 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
39024031 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
39024046 TTTCTTTAT
1 TTTCTTTAT
39024055 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:39024055 original size:30 final size:30
Alignment explanation
Indices: 39023977--39024064 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
39023967 CATAGTATCG
* * *
39023977 TATCTTAGG-TTTCTTTATCCTGGATCTCTT
1 TATCTT-GGATTTCTTTATTCTGGATTTCTC
*
39024007 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
39024037 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
39024065 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.20
30 39 0.78
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:39025928 original size:58 final size:58
Alignment explanation
Indices: 39025864--39025978 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
39025854 AATACCTAAT
39025864 AGTCATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATGATC
1 AGTCATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATGATC
*
39025922 AGTCATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGTAAAAATGAT
1 AGTCATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATGAT
39025979 AAGCATGTCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (58 bp):
AGTCATAAGTACATGTTAGAGTGAGAATTCGATGTTGCCATAGAAGGGAAAAATGATC
Found at i:39026566 original size:46 final size:46
Alignment explanation
Indices: 39026511--39026879 Score: 584
Period size: 46 Copynumber: 8.0 Consensus size: 46
39026501 GGTTGAGCAT
* * * *
39026511 CCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * *
39026557 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
39026602 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
39026650 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
39026696 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
39026742 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
39026788 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
39026834 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
39026880 ACAGGTATGT
Statistics
Matches: 303, Mismatches: 11, Indels: 18
0.91 0.03 0.05
Matches are distributed among these distances:
42 2 0.01
43 3 0.01
45 3 0.01
46 258 0.85
47 27 0.09
48 4 0.01
50 3 0.01
51 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:39030538 original size:39 final size:39
Alignment explanation
Indices: 39030418--39030543 Score: 173
Period size: 40 Copynumber: 3.2 Consensus size: 39
39030408 GCTACTTGCT
* *
39030418 CAAATGCCTTCGGCACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGTTATAGTAACTCGCA
39030458 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGTTATAGTAACTCGCA
* * *
39030498 CAAATGCCTTCGGGCTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTA-TAGTAACTCGCA
39030537 CAAATGC
1 CAAATGC
39030544 TAGCTTATTA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 27 0.34
40 51 0.65
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGTTATAGTAACTCGCA
Found at i:39034968 original size:44 final size:44
Alignment explanation
Indices: 39034907--39035798 Score: 1144
Period size: 44 Copynumber: 20.5 Consensus size: 44
39034897 AATCCAAGAT
* * *
39034907 GATTTAGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * ** *
39034951 GATTTGGCGTTTTTGTAGTGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
****
39034995 GATTTGGCGTCTCTGTAGCAATGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
39035035 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * *
39035079 AATTTGGCGTCTCTGTAGTGGCGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
39035123 GATTTGGCATCTCCGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
39035167 GATTTGGCGTCTCCGTAGTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
39035211 GATTTGGCGTCTCTGTAGCAGTAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * *
39035251 GATTTGGCATCTCTGTAGTGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
39035295 GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATAGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
39035339 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
39035383 GATTTGGCGTCTCCGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * *
39035427 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAAATTGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
39035471 AATTTGGCGTCTCTGTAGCGGCAGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
39035515 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
39035555 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * *
39035599 GATTTGGCGTATCTGTAGCGACAGAGAACAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
39035643 GATTTGGCGT-TCCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCT-CTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
39035687 GATTTTGTGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * * *
39035731 GATTTGGCGTCTCCGTAGCGGCGGGGAGCAGAACTAAGATAACAGA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAAC--A
39035777 GATTTGGCGTCTCTGTAGCGGC
1 GATTTGGCGTCTCTGTAGCGGC
39035799 GGNNNNNNNN
Statistics
Matches: 739, Mismatches: 93, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
40 108 0.15
43 1 0.00
44 607 0.82
45 1 0.00
46 22 0.03
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
Found at i:39035196 original size:216 final size:217
Alignment explanation
Indices: 39034907--39035798 Score: 1152
Period size: 216 Copynumber: 4.1 Consensus size: 217
39034897 AATCCAAGAT
* * * ** *
39034907 GATTTAGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTTTTTGTAGTGG
1 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
** * ***
39034972 TGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCAATGGAGAGCAGATCGAAGAT-G
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAG
* * *
39035036 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTAGTGGC
131 ATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
39035101 GGAGAGCAAATCGAAGATAACA
196 GGAGAGCAAATCGAAGATAACA
* * *
39035123 GATTTGGCATCTCCGTAGCGGTAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGTGG
1 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
* *
39035188 CAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCAGTAGAGAGCAGATCGAAGAT-G
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAG
* * * *
39035252 ATTTGGCATCTCTGTAGTGGCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGC
131 ATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
* *
39035317 GGAGAGCAGATAGAAGATAACA
196 GGAGAGCAAATCGAAGATAACA
* *
39035339 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
1 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
* ** * *
39035404 TAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAAATTGAAGATAA
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAG---A
* * * *
39035469 TAAATTTGGCGTCTCTGTAGCGGCAGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGT
128 TAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGC
* *
39035534 GGCAGAGAGCAGATCGAAGAT----
193 GGCGGAGAGCAAATCGAAGATAACA
* * *
39035555 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTATCTGTAGCGA
1 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
* * * *
39035620 CAGAGAACAGATTGAAGATAACAGATTTGGCGT-TCCTGTAGCGGCGGAGAGCAGATCGAAGATA
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCT-CTGTAGCAGCAGAGAGCAGATCGAAGAT-
* ** * *
39035684 ACAGATTTTGTGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAG
129 --AGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* *
39035749 CGGCGGGGAGCAGAA-CTAAGATAACAGA
192 CGGCGGAGAGCA-AATCGAAGATAAC--A
*
39035777 GATTTGGCGTCTCTGTAGCGGC
1 GATTTGGCATCTCTGTAGCGGC
39035799 GGNNNNNNNN
Statistics
Matches: 599, Mismatches: 62, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
213 2 0.00
215 1 0.00
216 496 0.83
217 1 0.00
219 2 0.00
220 76 0.13
222 21 0.04
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (217 bp):
GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAG
ATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
GGAGAGCAAATCGAAGATAACA
Found at i:39035217 original size:260 final size:260
Alignment explanation
Indices: 39034907--39035800 Score: 1240
Period size: 260 Copynumber: 3.4 Consensus size: 260
39034897 AATCCAAGAT
* * * * *
39034907 GATTTAGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTTTTTGTAGTGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGG
** * ***
39034972 TGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCAATGGAGAGCAGATCGAAGATGA
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGA
* * *
39035037 TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTAGTGGCG
131 TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCA
* *
39035102 GAGAGCAAATCGAAGATAACAGATTTGGCATCTCCGTAGCGGTAGAGAGCAGATCGAAGATAACA
196 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGGTAGAGAGCAGATCGAAGATAACA
* * *
39035167 GATTTGGCGTCTCCGTAGTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCAG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGG
* * * *
39035232 TAGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGTGGCGGAGAGTAGATCGAAGATAA
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT--
* * * *
39035293 CAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATAGAAGATAACAGATTTGGCGTCTCCGTAGC
129 --GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGC
39035358 GGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGGTAGAGAGCAGATCGAAGAT
192 GGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGGTAGAGAGCAGATCGAAGAT
39035423 AACA
257 AACA
* * * *
39035427 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAAATTGAAGATAATAAATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGG
* * *
39035492 CAGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATGA
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGA
* * *
39035557 TTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTATCTGTAGCGACA
131 TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCA
* * **
39035622 GAGAACAGATTGAAGATAACAGATTTGGCGT-TCCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
196 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCC-GTAGCGGTAGAGAGCAGATCGAAGATAAC
39035686 A
260 A
* * * * *
39035687 GATTTTGTGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGG
* * * *
39035752 CGGGGAGCAGAACTAAGATAACAGAGATTTGGCGTCTCTGTAGCGGCGG
66 CAGAGAGCAGATCGAAGATAAC--AGATTTGGCGTCTCTGTAGCGGCGG
39035801 NNNNNNNNNN
Statistics
Matches: 561, Mismatches: 62, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
256 34 0.06
259 3 0.01
260 464 0.83
262 23 0.04
264 37 0.07
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (260 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGG
CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGA
TTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCA
GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGGTAGAGAGCAGATCGAAGATAACA
Found at i:39036980 original size:44 final size:44
Alignment explanation
Indices: 39036912--39038131 Score: 1438
Period size: 44 Copynumber: 28.4 Consensus size: 44
39036902 NNNNNNNNNN
* * *
39036912 ATTTGGCATCTCTGTAGCGACGGAGAGCA-AGTCGAAGATAATAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TCGAAGATAACAG
* *
39036956 ATTTGGCGTCTCTGTAGCGGCGGAGAACAGGTCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* *
39037000 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATGACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
*
39037044 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * * *
39037084 ATTTGGCATTTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *** * *
39037128 ATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
** *
39037172 ATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
** *
39037216 ATTTGGCGTCTCTGTAGCGGCGGAGAATAGATCAAAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
39037256 GTTTGGCGTCTCCGTAGCGGCGGAGAGTAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
39037300 ATTTGGTGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
39037344 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* *
39037384 ATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
*
39037428 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
*
39037472 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * * *
39037512 ATTTGGCATTTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *** * *
39037556 ATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
** *
39037600 ATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
** *
39037644 ATTTGGCGTCTCTGTAGCGGCGGAGAATAGATCAAAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
39037684 ATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGTAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
39037724 ATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *** * *
39037768 ATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
** *
39037812 ATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* *
39037856 ATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
39037900 ATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGTAGAT----G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *
39037940 ATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * *** * *
39037984 ATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
** *
39038028 ATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
39038072 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
39038115 AATTTGGCGTCTCTGTA
1 -ATTTGGCGTCTCTGTA
39038132 TTAGACGGGG
Statistics
Matches: 1012, Mismatches: 138, Indels: 52
0.84 0.11 0.04
Matches are distributed among these distances:
40 258 0.25
43 1 0.00
44 753 0.74
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (44 bp):
ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
Found at i:39037198 original size:172 final size:171
Alignment explanation
Indices: 39036912--39038131 Score: 1390
Period size: 172 Copynumber: 7.1 Consensus size: 171
39036902 NNNNNNNNNN
* * *
39036912 ATTTGGCATCTCTGTAGCGACGGAGAGCA-AGTCGAAGATAATAGATTTGGCGTCTCTGTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * * *
39036976 CGGAGAACAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATGA
65 CGGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-A
*
39037041 CAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATG
129 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATG
* * * * * * **
39037084 ATTTGGCATTTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGAT
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
* * ** *
39037149 AGAGAGTAGATCGAAGATAACTGATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAAC
66 GGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-AC
** *
39037214 AGATTTGGCGTCTCTGTAGCGGCGGAGAATAGATCAAAGATG
130 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATG
* * * * *
39037256 GTTTGGCGTCTCCGTAGCGGCGGAGAGTAGATCGAAGATAACAGATTTGGTGTCTCTATAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
* *
39037321 GGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---
66 GGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATACA
* *
39037383 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAAGATAACAG
131 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----G
* *
39037428 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
* * *
39037493 GGAGAGCAGATCGAAG---A-TGATTTGGCATTTCTGTAGCGGCAGAGAGCAGATCGAAGATAGC
66 GGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA-C
* * *** *
39037554 AGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTG
130 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG---A-TG
** *
39037600 ATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
** * * * *
39037665 GGAGAATAGATC-AA-A-GA-TGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGTAGAT---
66 GGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATACA
* *
39037723 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAG
131 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----G
* * *** * * **
39037768 ATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTGATTTGGCGTCTCTGTAATGGC
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
* * * *
39037833 GGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATAAC
66 GGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-AC
* * *
39037898 AGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGTAGATG
130 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATG
* * * * * **
39037940 ATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGAT
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
* * ** *
39038005 AGAGAGTAGATCGAAGATAACTGATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAAC
66 GGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-AC
39038070 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
130 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---G
39038115 AATTTGGCGTCTCTGTA
1 -ATTTGGCGTCTCTGTA
39038132 TTAGACGGGG
Statistics
Matches: 887, Mismatches: 130, Indels: 58
0.83 0.12 0.05
Matches are distributed among these distances:
164 1 0.00
165 1 0.00
168 169 0.19
169 3 0.00
170 1 0.00
171 3 0.00
172 653 0.74
173 1 0.00
175 2 0.00
176 53 0.06
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (171 bp):
ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
GGAGAGCAGATCGAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATACA
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATG
Found at i:39037816 original size:428 final size:428
Alignment explanation
Indices: 39036912--39038097 Score: 1959
Period size: 428 Copynumber: 2.8 Consensus size: 428
39036902 NNNNNNNNNN
* * * *
39036912 ATTTGGCATCTCTGTAGCGACGGAGAGCA-AGTCGAAGATAATAGATTTGGCGTCTCTGTAGCGG
1 ATTTGGCGTATCTATAGCGACAGAGAGCAGA-TCGAAGATAAT-GATTTGGCGTCTCTGTAGCGG
* * *
39036976 CGGAGAACAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATGA
64 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAA
39037041 CAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATTTCTGTAGCGGCA
129 CAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATTTCTGTAGCGGCA
39037106 GAGAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACT
194 GAGAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACT
39037171 GATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
259 GATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * *
39037236 CGGAGAATAGATCAAAGATGGTTTGGCGTCTCCGTAGCGGCGGAGAGTAGATCGAAGATAACAGA
324 CGGAGAATAGATCAAAGATGATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGAAGAT---AGA
** *
39037301 TTTGGTGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAACAG
386 TTTGGCATCTCTATAGCGGCAGAGAGCAGATCAAAGATAACAG
* * * * * *
39037344 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG---ATGATTTGGCGTCTCCGTAGCGGCA
1 ATTTGGCGTATCTATAGCGACAGAGAGCAGATCGAAGATAATGATTTGGCGTCTCTGTAGCGGCG
39037406 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACA
66 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACA
39037471 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATTTCTGTAGCGGCAGA
131 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATTTCTGTAGCGGCAGA
39037536 GAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTGA
196 GAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTGA
39037601 TTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
261 TTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
* * *
39037666 GAGAATAGATCAAAGATGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGTAGAT-GATTTGG
326 GAGAATAGATCAAAGATGATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGG
* * *
39037730 CATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAG
391 CATCTCTATAGCGGCAGAGAGCAGATCAAAGATAACAG
* * **
39037768 ATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTGATTTGGCGTCTCTGTAATGGC
1 ATTTGGCGTATCTATAGCGACAGAGAGCAGATCGAAGATAA-TGATTTGGCGTCTCTGTAGCGGC
* * * *
39037833 GGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATAAC
65 GGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAAC
* * *
39037898 AGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGTAGATGATTTGGCATCTCTGTAGCGGCAG
130 AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATTTCTGTAGCGGCAG
39037963 AGAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTG
195 AGAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTG
39038028 ATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
260 ATTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC
39038093 GGAGA
325 GGAGA
39038098 GCAGATCGAA
Statistics
Matches: 713, Mismatches: 36, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
424 70 0.10
427 1 0.00
428 606 0.85
429 2 0.00
432 33 0.05
433 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (428 bp):
ATTTGGCGTATCTATAGCGACAGAGAGCAGATCGAAGATAATGATTTGGCGTCTCTGTAGCGGCG
GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACA
GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATTTCTGTAGCGGCAGA
GAGCAGATCGAAGATAGCAGATTTGGCGTATCTATAGCGATAGAGAGTAGATCGAAGATAACTGA
TTTGGCGTCTCTGTAATGGCGGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
GAGAATAGATCAAAGATGATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGG
CATCTCTATAGCGGCAGAGAGCAGATCAAAGATAACAG
Found at i:39040046 original size:89 final size:89
Alignment explanation
Indices: 39039895--39040072 Score: 338
Period size: 89 Copynumber: 2.0 Consensus size: 89
39039885 CAGGTAGAAT
*
39039895 CAAGAAGAACTCATGAACATCAAGATAGATGCAAACTACCATGAACTTACCTTCAATTTTCTTCC
1 CAAGAAGAACTCATGAACATCAAGATAGAAGCAAACTACCATGAACTTACCTTCAATTTTCTTCC
*
39039960 CCAAGTGACCGAACATTCAAGAGC
66 CCAAGTGACCGAACACTCAAGAGC
39039984 CAAGAAGAACTCATGAACATCAAGATAGAAGCAAACTACCATGAACTTACCTTCAATTTTCTTCC
1 CAAGAAGAACTCATGAACATCAAGATAGAAGCAAACTACCATGAACTTACCTTCAATTTTCTTCC
39040049 CCAAGTGACCGAACACTCAAGAGC
66 CCAAGTGACCGAACACTCAAGAGC
39040073 TTTCTCCTCT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (89 bp):
CAAGAAGAACTCATGAACATCAAGATAGAAGCAAACTACCATGAACTTACCTTCAATTTTCTTCC
CCAAGTGACCGAACACTCAAGAGC
Found at i:39040246 original size:26 final size:26
Alignment explanation
Indices: 39040215--39040508 Score: 174
Period size: 26 Copynumber: 11.2 Consensus size: 26
39040205 TGAAATTCCC
39040215 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
39040241 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
39040267 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
39040293 ATCATCGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
39040319 ATC----AA-TTTGTACCATGAATTACGGA-T
1 ATCATGGAACATT-TACC-T-AA--AC-CATT
* ** ** *
39040345 ATCAAGTGCTCATATTGTCTACAACAACATG
1 ATCATG-GAACAT-TTACCTA-AAC--CATT
* * * ** * *
39040376 ATGGATGG-CCACTTCATGTAAGCC--C
1 AT-CATGGAACA-TTTACCTAAACCATT
39040401 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
39040427 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
39040453 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
39040479 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
39040505 ATCA
1 ATCA
39040509 ATTTGTACCA
Statistics
Matches: 207, Mismatches: 40, Indels: 42
0.72 0.14 0.15
Matches are distributed among these distances:
21 2 0.01
22 6 0.03
23 1 0.00
24 14 0.07
25 4 0.02
26 154 0.74
27 2 0.01
29 4 0.02
30 8 0.04
31 6 0.03
32 5 0.02
33 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:39040533 original size:186 final size:186
Alignment explanation
Indices: 39040212--39040582 Score: 715
Period size: 186 Copynumber: 2.0 Consensus size: 186
39040202 ACATGAAATT
39040212 CCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGAAAT
1 CCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGAAAT
*
39040277 ATTTACCTAATCCATTATCATCGAACATTTACCTAACCCATTATCAATTTGTACCATGAATTACG
66 ATTTACCTAATCCATTATCATAGAACATTTACCTAACCCATTATCAATTTGTACCATGAATTACG
39040342 GATATCAAGTGCTCATATTGTCTACAACAACATGATGGATGGCCACTTCATGTAAG
131 GATATCAAGTGCTCATATTGTCTACAACAACATGATGGATGGCCACTTCATGTAAG
*
39040398 CCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGGAAT
1 CCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGAAAT
*
39040463 ATTTACCTAATCCATTATCATAGAACATTTACCTAACCCATTATCAATTTGTACCATGAATTATG
66 ATTTACCTAATCCATTATCATAGAACATTTACCTAACCCATTATCAATTTGTACCATGAATTACG
39040528 GATATCAAGTGCTCATATTGTCTACAACAACATGATGGATGGCCACTTCATGTAA
131 GATATCAAGTGCTCATATTGTCTACAACAACATGATGGATGGCCACTTCATGTAA
39040583 ACACGGGTAC
Statistics
Matches: 182, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 182 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (186 bp):
CCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGAAAT
ATTTACCTAATCCATTATCATAGAACATTTACCTAACCCATTATCAATTTGTACCATGAATTACG
GATATCAAGTGCTCATATTGTCTACAACAACATGATGGATGGCCACTTCATGTAAG
Found at i:39057582 original size:38 final size:38
Alignment explanation
Indices: 39057446--39057593 Score: 165
Period size: 38 Copynumber: 3.8 Consensus size: 38
39057436 TAAAGACATG
* *
39057446 TATTAAAGATGTCTAAACTAGGACACAATTAAAACAT-A
1 TATTAAAGATGTCTAAACTATGACATAATTAAAAC-TCA
* *
39057484 TATTTAAGATGTCCTAAACTATGACATAATTAAAATCTCT
1 TATTAAAGATGT-CTAAACTATGACATAATTAAAA-CTCA
* *
39057524 TATTAAAGATGT-TCAGATTATGACATAATTAAAACTCA
1 TATTAAAGATGTCT-AAACTATGACATAATTAAAACTCA
* * *
39057562 TATTAATGATGTTTAAATTATGACATAATTAA
1 TATTAAAGATGTCTAAACTATGACATAATTAA
39057594 TTACTTAAAC
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
38 43 0.45
39 40 0.42
40 12 0.13
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (38 bp):
TATTAAAGATGTCTAAACTATGACATAATTAAAACTCA
Found at i:39061988 original size:42 final size:41
Alignment explanation
Indices: 39061896--39062045 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 41
39061886 CTAAAATTAT
* * *
39061896 GTGTAAGACCATATCTAGGATATGCATCTATATGAGACTTT
1 GTGTAAGACCATATCTAGGATATGCATCGATAAGAGACTTC
*
39061937 GTGTAAGACCATATCTGGGATATGACATCGATAAGAGACTTC
1 GTGTAAGACCATATCTAGGATATG-CATCGATAAGAGACTTC
* * * *
39061979 GTGTAAGACCATAGCTAGGCTATTGCCATCGATACGAGA-TCCC
1 GTGTAAGACCATATCTAGGATA-TG-CATCGATAAGAGACT-TC
* *
39062022 ATGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATATCTAGGATATG
39062046 GCATTGGTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
41 23 0.25
42 36 0.39
43 33 0.36
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATATCTAGGATATGCATCGATAAGAGACTTC
Found at i:39064391 original size:37 final size:37
Alignment explanation
Indices: 39064328--39064473 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
39064318 AGCTCAGGCG
* * *
39064328 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
39064365 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
**
39064402 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATT
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
39064439 TAATCTGCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
39064474 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:39064677 original size:50 final size:50
Alignment explanation
Indices: 39064622--39064988 Score: 282
Period size: 50 Copynumber: 7.7 Consensus size: 50
39064612 CATCGCCTAC
*
39064622 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
39064672 ATATTTCACATTAGCCATTCGACTTTACCACATATATGCATGT-TCATAT-T
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATATAT
* * * * * * *
39064722 -CA--CCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTCACAT-T
1 ATATTTCACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATATAT
* * * * * *
39064769 -CA--TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TCACAT-T
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATATAT
* * *
39064816 -CA--TCACATTGGCCA------TTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
39064855 ATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
39064905 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
39064953 ATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATA
39064989 TGCATGTTCA
Statistics
Matches: 266, Mismatches: 28, Indels: 48
0.78 0.08 0.14
Matches are distributed among these distances:
38 2 0.01
39 4 0.02
40 3 0.01
41 11 0.04
42 10 0.04
45 7 0.03
47 74 0.28
48 58 0.22
49 10 0.04
50 77 0.29
51 6 0.02
52 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.35
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:39064756 original size:47 final size:47
Alignment explanation
Indices: 39064677--39065903 Score: 1938
Period size: 47 Copynumber: 26.1 Consensus size: 47
39064667 TATATATATT
* * * * *
39064677 TCACATTAGCCATTCGACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
39064724 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39064771 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*** * * * *
39064818 TCACATTGGCCATTTACCACATAT-ACATATCT-CA--TACATATT--
1 TCACATTGGCCATTCGGC-CTTATCACATATATGCATGTTCACATTCA
* * * * * *
39064860 TCACACTAGCCATTC-GCCTTTACCACATATA--CATATCTCATATATATA
1 TCACATTGGCCATTCGGCC-TTATCACATATATGCATGT-TCACAT-T-CA
* * * * *
39064908 TTTCACATTGACCATTCGGCTTTA-C-CACATATGCATATCTCATACATAT-T
1 --TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACAT-TCA
* * * *
39064958 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
39065005 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065052 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065099 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065146 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065193 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065240 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065287 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065334 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065381 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065428 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065475 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065522 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065569 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065616 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065663 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065710 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065757 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065804 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
39065851 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39065898 TCACAT
1 TCACAT
39065904 AAAAATCCTA
Statistics
Matches: 1107, Mismatches: 53, Indels: 40
0.92 0.04 0.03
Matches are distributed among these distances:
40 1 0.00
41 5 0.00
42 18 0.02
43 1 0.00
44 11 0.01
45 1 0.00
46 3 0.00
47 993 0.90
48 29 0.03
49 4 0.00
50 34 0.03
51 2 0.00
52 5 0.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:39064883 original size:48 final size:47
Alignment explanation
Indices: 39064821--39064988 Score: 228
Period size: 48 Copynumber: 3.4 Consensus size: 47
39064811 ACATTCATCA
*
39064821 CATTGGCCATTTACCACATATACATATCTCATACATATTTCACACTAGC
1 CATTCGCC-TTTACCACATATACATATCTCATACATATTTCACA-TAGC
* *
39064870 CATTCGCCTTTACCACATATACATATCTCATATATATATTTCACATTGAC
1 CATTCGCCTTTACCACATATACATATCTC--ATACATATTTCACATAG-C
* *
39064920 CATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGC
1 CATTCGCCTTTACCACATATACATATCTCATACATATTTCACA-TAGC
*
39064968 CATTCGGCTTTACCACATATA
1 CATTCGCCTTTACCACATATA
39064989 TGCATGTTCA
Statistics
Matches: 107, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
48 55 0.51
49 11 0.10
50 41 0.38
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (47 bp):
CATTCGCCTTTACCACATATACATATCTCATACATATTTCACATAGC
Found at i:39087516 original size:40 final size:40
Alignment explanation
Indices: 39087470--39087579 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
39087460 GCTCCTCGTT
* *
39087470 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
39087510 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39087550 CAAATGCCTTCGGGACTTAACCCGGATTTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA
39087580 CCTTCGGGAC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 65 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39087583 original size:24 final size:24
Alignment explanation
Indices: 39087556--39087603 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
39087546 CGCACAAATG
39087556 CCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTA
*
39087580 CCTTCGGGACTTAACTCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTA
39087604 GTATCTCGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (24 bp):
CCTTCGGGACTTAACCCGGATTTA
Found at i:39087617 original size:64 final size:64
Alignment explanation
Indices: 39087516--39087643 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
39087506 CGCACAAATG
39087516 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
* *
39087580 CCTTCGGGACTTAACTCGGATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
39087644 GTATCTCGCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (64 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
Found at i:39087680 original size:40 final size:40
Alignment explanation
Indices: 39087580--39087666 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
39087570 CCCGGATTTA
* *
39087580 CCTTCGGGACTTAACTCGGATTTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
39087620 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
39087660 CCTTCGG
1 CCTTCGG
39087667 ATCTTAGTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
Found at i:39087680 original size:104 final size:104
Alignment explanation
Indices: 39087476--39087666 Score: 312
Period size: 104 Copynumber: 1.8 Consensus size: 104
39087466 CGTTCAAATG
*
39087476 CCTTCGGGACATAGCCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACATAACCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
*
39087541 TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
66 TAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTA
* * *
39087580 CCTTCGGGACTTAACTCGGATT-TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACATAACCCGG-TTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
*
39087644 GTATCTCGCACAAAGGCCTTCGG
65 GTAACTCGCACAAAGGCCTTCGG
39087667 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
104 78 0.98
105 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (104 bp):
CCTTCGGGACATAACCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
TAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTA
Found at i:39091720 original size:46 final size:49
Alignment explanation
Indices: 39091637--39091732 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 49
39091627 TTCTTCTTCT
*
39091637 CAATATTTTGATAATGAATTTTAATTTTTTTATAATTTTTAGGACTTTTA
1 CAATATTTTGATAAT-AATTTTAATTTTTTTATAATTTTTAGGACCTTTA
* *
39091687 CAATATTTT-ATAAT-ATTTT-ATTTTTTTTTAATTTTTATGACCTTTA
1 CAATATTTTGATAATAATTTTAATTTTTTTATAATTTTTAGGACCTTTA
39091733 GCGGCGTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 24 0.56
47 5 0.12
49 5 0.12
50 9 0.21
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (49 bp):
CAATATTTTGATAATAATTTTAATTTTTTTATAATTTTTAGGACCTTTA
Found at i:39091792 original size:43 final size:43
Alignment explanation
Indices: 39091723--39091826 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
39091713 TTTAATTTTT
* *
39091723 ATGACCTTTAGCGGCGTTTTTTGGAAAAACGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTC
* * *
39091766 CTGACCTTTGGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTC
39091809 ATGACCTTTAGCGGCGTT
1 ATGACCTTTAGCGGCGTT
39091827 GTTTTTAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTC
Found at i:39095079 original size:18 final size:18
Alignment explanation
Indices: 39095056--39095092 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39095046 CGTCTTCTCG
39095056 AGCAAAAGAAACTCACCA
1 AGCAAAAGAAACTCACCA
39095074 AGCAAAAGAAACTCACCA
1 AGCAAAAGAAACTCACCA
39095092 A
1 A
39095093 ACATTTTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.27, G:0.11, T:0.05
Consensus pattern (18 bp):
AGCAAAAGAAACTCACCA
Found at i:39097605 original size:93 final size:93
Alignment explanation
Indices: 39097498--39097668 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
39097488 GCCCCTAAGT
* *
39097498 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39097563 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
39097591 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39097656 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39097669 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39097665 original size:46 final size:46
Alignment explanation
Indices: 39097493--39097665 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
39097483 AACCCGCCCC
* * *
39097493 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
39097539 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
39097587 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
39097632 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39097666 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:39098122 original size:30 final size:30
Alignment explanation
Indices: 39098088--39098147 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
39098078 ATTTAATACG
39098088 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
39098118 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
39098148 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:39103085 original size:21 final size:22
Alignment explanation
Indices: 39103059--39103100 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
39103049 AATGTAATCT
39103059 AGTTATTTAAATC-GA-GTTTTA
1 AGTTA-TTAAATCTGAGGTTTTA
39103080 AGTTATTAAATCTGAGGTTTT
1 AGTTATTAAATCTGAGGTTTT
39103101 GTGTAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (22 bp):
AGTTATTAAATCTGAGGTTTTA
Found at i:39105418 original size:24 final size:24
Alignment explanation
Indices: 39105391--39105461 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
39105381 CAGCTCGAAA
* *
39105391 GAGCATCCCGTTATTAGCTCTTAT
1 GAGCTTCCCGTTATTAGCTCTTAC
* * * *
39105415 GAGCTTCCTGTTATATGGTTCTTGC
1 GAGCTTCCCGTTAT-TAGCTCTTAC
*
39105440 GAGCTTCCCGTTAATAGCTCTT
1 GAGCTTCCCGTTATTAGCTCTT
39105462 TGGAGTATCT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCTTAC
Found at i:39105616 original size:23 final size:24
Alignment explanation
Indices: 39105571--39105622 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
39105561 CTTGCTTGAA
* **
39105571 CTTCCCAAGATTGGCTCGTATGAG
1 CTTCCCAACATTGGCTCACATGAG
39105595 CTTCCCAACA-TGGCTCACATGAG
1 CTTCCCAACATTGGCTCACATGAG
39105618 CTTCC
1 CTTCC
39105623 TGTTATATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (24 bp):
CTTCCCAACATTGGCTCACATGAG
Found at i:39107340 original size:39 final size:39
Alignment explanation
Indices: 39107297--39108139 Score: 1616
Period size: 39 Copynumber: 21.6 Consensus size: 39
39107287 CATATTCACT
* *
39107297 TTTAAGCA-AGTATCACATTACACATATAATCACATAACA
1 TTTAAGCATA-TATCACAATACTCATATAATCACATAACA
39107336 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107375 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107414 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107453 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107492 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107531 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107570 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107609 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107648 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107687 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107726 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107765 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107804 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107843 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107882 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107921 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107960 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39107999 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
39108038 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
39108077 TTTAAGCATATATCACAATGCTCATATAATAACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
39108116 TTCAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
39108140 AAAACATGTT
Statistics
Matches: 796, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
39 795 1.00
40 1 0.00
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:39109369 original size:24 final size:24
Alignment explanation
Indices: 39109337--39109383 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
39109327 CTGTCAGGAG
**
39109337 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
39109361 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
39109384 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:39110906 original size:54 final size:54
Alignment explanation
Indices: 39110802--39110913 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
39110792 AGGAAGCGTC
*
39110802 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
39110856 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTGACTCTGCCACATATATCTGTT
39110910 CTGG
1 CTGG
39110914 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
Done.