Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 99 of 318
Found at i:30133251 original size:30 final size:30
Alignment explanation
Indices: 30133217--30133286 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
30133207 AGCTAACTTG
** *
30133217 TTTCATAATTCGATAGTTGAAGCTATCCCT
1 TTTCATAATTCGATAACTGAAGCTATCACT
*
30133247 TTTCATAATTTGATAACTGAAGCTATCACT
1 TTTCATAATTCGATAACTGAAGCTATCACT
*
30133277 TTTAATAATT
1 TTTCATAATT
30133287 TGATGGTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (30 bp):
TTTCATAATTCGATAACTGAAGCTATCACT
Found at i:30133287 original size:30 final size:30
Alignment explanation
Indices: 30133234--30133290 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
30133224 ATTCGATAGT
* *
30133234 TGAAGCTATCCCTTTTCATAATTTGATAAC
1 TGAAGCTATCACTTTTAATAATTTGATAAC
30133264 TGAAGCTATCACTTTTAATAATTTGAT
1 TGAAGCTATCACTTTTAATAATTTGAT
30133291 GGTCTTCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (30 bp):
TGAAGCTATCACTTTTAATAATTTGATAAC
Found at i:30133320 original size:29 final size:29
Alignment explanation
Indices: 30133286--30133341 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
30133276 TTTTAATAAT
30133286 TTGATGGTCT-TCACCATCCCTTTTCATTG
1 TTGATGGT-TGTCACCATCCCTTTTCATTG
**
30133315 TTGATGGTTGTTTCCATCCCTTTTCAT
1 TTGATGGTTGTCACCATCCCTTTTCAT
30133342 AATTTAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.12, C:0.25, G:0.14, T:0.48
Consensus pattern (29 bp):
TTGATGGTTGTCACCATCCCTTTTCATTG
Found at i:30133443 original size:29 final size:30
Alignment explanation
Indices: 30133391--30133461 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 30
30133381 AGCCAAAGCT
*
30133391 ATCCCTTTTTATTGTTTGACGGTCATCACC
1 ATCCCTTTTCATTGTTTGACGGTCATCACC
*
30133421 ATCCCTTTTCATTG-TTGATGGTCATCACC
1 ATCCCTTTTCATTGTTTGACGGTCATCACC
30133450 ATCCCTTTTCAT
1 ATCCCTTTTCAT
30133462 AATTCGATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (30 bp):
ATCCCTTTTCATTGTTTGACGGTCATCACC
Found at i:30133478 original size:120 final size:119
Alignment explanation
Indices: 30133217--30133487 Score: 346
Period size: 120 Copynumber: 2.3 Consensus size: 119
30133207 AGCTAACTTG
* * **
30133217 TTTCATAATTCGATAGTTGAAGCTATCCCTTTTCATAATTTGATAACTGAAGCTATCACTTTTAA
1 TTTCATAATTCGATAGTCGAAGCTATCCCTTTTCAAAATTTGATAACCAAAGCTATCACTTTTAA
* * ** **
30133282 TAATTTGATGGTCTTCACCATCCCTTTTCATTGTTGATGGTTGTTTCCATCCCT
66 TAATTTGACGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACCATCCCT
** * * * *
30133336 TTTCATAATTTAATTG-CTGAAGCTACCCCTTTTCAAAATTTTGATAGCCAAAGCTATCCCTTTT
1 TTTCATAATTCGATAGTC-GAAGCTATCCCTTTTCAAAA-TTTGATAACCAAAGCTATCACTTTT
* **
30133400 TATTGTTTGACGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACCATCCCT
64 AATAATTTGACGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACCATCCCT
30133456 TTTCATAATTCGATAGTCGAAGCTATCCCTTT
1 TTTCATAATTCGATAGTCGAAGCTATCCCTTT
30133488 CCATTAGTCG
Statistics
Matches: 126, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
119 31 0.25
120 94 0.75
121 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.42
Consensus pattern (119 bp):
TTTCATAATTCGATAGTCGAAGCTATCCCTTTTCAAAATTTGATAACCAAAGCTATCACTTTTAA
TAATTTGACGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACCATCCCT
Found at i:30136822 original size:30 final size:29
Alignment explanation
Indices: 30136730--30136829 Score: 114
Period size: 28 Copynumber: 3.4 Consensus size: 29
30136720 TAGTGAATCT
* * *
30136730 GCACACTTAGTGCTATATATTTTCAGCTC
1 GCACACTTAGTGCTATAAATTTTAAACTC
*
30136759 GCACACTTAGTGCTATAGAA--TCAAACTC
1 GCACACTTAGTGCTATA-AATTTTAAACTC
* *
30136787 GCACACTTAGTGCTGTACAATTTTAAACCC
1 GCACACTTAGTGCTATA-AATTTTAAACTC
30136817 GCACACTTAGTGC
1 GCACACTTAGTGC
30136830 CAATCTTGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 17 0.28
30 20 0.33
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCTATAAATTTTAAACTC
Found at i:30141982 original size:13 final size:13
Alignment explanation
Indices: 30141964--30141989 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30141954 ATATTATAAT
30141964 TATTTTATGTTAA
1 TATTTTATGTTAA
30141977 TATTTTATGTTAA
1 TATTTTATGTTAA
30141990 AAATAAAAAT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:30143443 original size:22 final size:22
Alignment explanation
Indices: 30143418--30143461 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30143408 AAGGCATTTG
30143418 TGCTAGTTACTATATCCGGGCT
1 TGCTAGTTACTATATCCGGGCT
30143440 TGCTAGTTACTATATCCGGGCT
1 TGCTAGTTACTATATCCGGGCT
30143462 AAGTCCCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (22 bp):
TGCTAGTTACTATATCCGGGCT
Found at i:30143475 original size:62 final size:62
Alignment explanation
Indices: 30143378--30143499 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
30143368 AAGGCATTTG
*
30143378 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCT
1 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCT
*
30143440 TGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
1 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
30143500 ATAAGTCCGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (62 bp):
TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCT
Found at i:30143521 original size:39 final size:40
Alignment explanation
Indices: 30143440--30143590 Score: 220
Period size: 39 Copynumber: 3.9 Consensus size: 40
30143430 TATCCGGGCT
*
30143440 TGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
30143480 TGCTAGTGACTATATCCGGGATAAGT-CCGAAGGCATTTG
1 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
30143519 TGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
30143559 T-CGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 TGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
30143591 TACTTGGGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
38 15 0.15
39 47 0.46
40 40 0.39
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
Found at i:30146909 original size:40 final size:39
Alignment explanation
Indices: 30146864--30147071 Score: 177
Period size: 40 Copynumber: 5.2 Consensus size: 39
30146854 CGGAATACAA
30146864 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
30146904 CCGGATAGAACGACTTGAAC-AATTGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACGAA-TGCCTTCGGGTCTTAGC
* *
30146944 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * ** * *
30146984 CCAGATTTAGTCACTAGCA-TAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
* * ** * *
30147024 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACGAATGCCTTCGGGTCTTAGC
30147064 CCGGATAT
1 CCGGATAT
30147072 CATTTAATTG
Statistics
Matches: 138, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 5 0.04
40 129 0.93
41 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:30147008 original size:80 final size:80
Alignment explanation
Indices: 30146864--30147070 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
30146854 CGGAATACAA
* * * * *
30146864 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGAACAATTG
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGAACAATTG
*
30146929 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
30146944 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGA--TAGAACGACTAGAACAAT
*
30147007 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
* * ** * * *
30147024 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATA
30147071 TCATTTAATT
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.02
80 102 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGAACAATTG
CCTTCGGGTATTAAC
Found at i:30150854 original size:19 final size:18
Alignment explanation
Indices: 30150817--30150860 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
30150807 ATACATACAG
30150817 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
30150834 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
30150853 TACTAATT
1 TAATAATT
30150861 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:30155069 original size:19 final size:17
Alignment explanation
Indices: 30155035--30155077 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
30155025 ATACATACAG
30155035 TAAT-ATTTTTCTATAA
1 TAATAATTTTTCTATAA
30155051 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCT-ATAA
*
30155070 TACTAATT
1 TAATAATT
30155078 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 3 0.13
19 11 0.48
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATAATTTTTCTATAA
Found at i:30161523 original size:40 final size:39
Alignment explanation
Indices: 30161478--30161685 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
30161468 CGGAATACAA
*
30161478 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
30161518 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
30161558 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
30161598 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
30161638 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
30161678 CCGGATAT
1 CCGGATAT
30161686 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30161625 original size:80 final size:81
Alignment explanation
Indices: 30161478--30161683 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
30161468 CGGAATACAA
* * * *
30161478 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
30161542 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
30161558 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
30161621 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
30161638 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
30161684 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:30169302 original size:40 final size:40
Alignment explanation
Indices: 30169254--30169459 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
30169244 GGACTAAGAT
30169254 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
30169294 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
30169334 CCGAAGGCATTTTTGCTAGTGACTATATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
30169374 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
30169414 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
30169453 CCGAAGG
1 CCGAAGG
30169460 TACTTGGGTT
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.10
40 136 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:30178209 original size:99 final size:99
Alignment explanation
Indices: 30178083--30178283 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 99
30178073 CACATCCATG
30178083 TCACTACAGCTGTCAGCATCTGTCTTTAAGGTAGGCTTTACCTATTTCATAGTTTCCATGATTCA
1 TCACTACAGCTGTCAGCATCTGTCTTTAAGGTAGGCTTTACCTATTTCATAGTTTCCATGATTCA
30178148 ACTAGCCCTTTAACATAAATAGCACAAAATATGA
66 ACTAGCCCTTTAACATAAATAGCACAAAATATGA
*
30178182 TCACTGCAGCTGTCAGCATCTGTCTTTAAGGTAGGCTTTACCTATTTCATAGTTTCCATGATTCA
1 TCACTACAGCTGTCAGCATCTGTCTTTAAGGTAGGCTTTACCTATTTCATAGTTTCCATGATTCA
30178247 ACTAGCCCTTTAACATAAATAGCACAAAATATGA
66 ACTAGCCCTTTAACATAAATAGCACAAAATATGA
30178281 TCA
1 TCA
30178284 TGATTAACCA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (99 bp):
TCACTACAGCTGTCAGCATCTGTCTTTAAGGTAGGCTTTACCTATTTCATAGTTTCCATGATTCA
ACTAGCCCTTTAACATAAATAGCACAAAATATGA
Found at i:30179684 original size:23 final size:23
Alignment explanation
Indices: 30179658--30179702 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
30179648 AGATCATCAG
30179658 TGGTAAGCCTCATCTCTCAGCAT
1 TGGTAAGCCTCATCTCTCAGCAT
30179681 TGGTAAGCCTCATCTCTCAGCA
1 TGGTAAGCCTCATCTCTCAGCA
30179703 GTGACACTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (23 bp):
TGGTAAGCCTCATCTCTCAGCAT
Found at i:30180821 original size:8 final size:7
Alignment explanation
Indices: 30180801--30180831 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
30180791 AAACACAAAC
30180801 TTAAAAA
1 TTAAAAA
30180808 TTAAAAA
1 TTAAAAA
30180815 TTAAAAA
1 TTAAAAA
*
30180822 CTAAAAA
1 TTAAAAA
30180829 TTA
1 TTA
30180832 TAGTGGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:30181488 original size:27 final size:27
Alignment explanation
Indices: 30181431--30181490 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
30181421 ATACATCTCA
**
30181431 TAGGGGCATGTCAGTCATTTTACCCTG
1 TAGGGGCATGTCAGTCATTTTACAATG
* *
30181458 TAGGGGCATTTTAGTCATTTTATCAAT-
1 TAGGGGCATGTCAGTCATTTTA-CAATG
30181485 TAGGGG
1 TAGGGG
30181491 GTCTAGGTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (27 bp):
TAGGGGCATGTCAGTCATTTTACAATG
Found at i:30181628 original size:17 final size:18
Alignment explanation
Indices: 30181596--30181629 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30181586 CCATATTGCG
30181596 GCCCATGTAGGCCCACAC
1 GCCCATGTAGGCCCACAC
30181614 GCCCATGTA-GCCCACA
1 GCCCATGTAGGCCCACA
30181630 TAGTCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.24, C:0.44, G:0.21, T:0.12
Consensus pattern (18 bp):
GCCCATGTAGGCCCACAC
Found at i:30183838 original size:25 final size:26
Alignment explanation
Indices: 30183796--30183846 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
30183786 CCCTTTATCC
*
30183796 ATTTTAAAATTATTTATA-ACTTATTT
1 ATTTTAAAATTATATATATA-TTATTT
*
30183822 ATTTT-AAATTGTATATATATTATTT
1 ATTTTAAAATTATATATATATTATTT
30183847 TATATATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTTAAAATTATATATATATTATTT
Found at i:30183874 original size:5 final size:5
Alignment explanation
Indices: 30183833--30183904 Score: 51
Period size: 5 Copynumber: 14.4 Consensus size: 5
30183823 TTTTAAATTG
* * * *
30183833 TATA- TATAT TATTT TATAT ATGTAT TGTA- TATTT TATAT TATTAT T-TACT
1 TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT TA-TAT TATA-T
*
30183883 TATAT TTTAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TA
30183905 CTTCATATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
4 8 0.15
5 36 0.67
6 10 0.19
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:30183886 original size:23 final size:24
Alignment explanation
Indices: 30183860--30183979 Score: 88
Period size: 24 Copynumber: 4.9 Consensus size: 24
30183850 ATATGTATTG
30183860 TATATTTTA-TATTATTAT-TTACT
1 TATATTTTATTA-TATTATATTACT
30183883 TATATTTTATTATATTATATTACT
1 TATATTTTATTATATTATATTACT
* * *
30183907 TCATATTTT-TCTATTATCAAATTAAT
1 T-ATATTTTAT-TA-TATTATATTACT
** *
30183933 ATATATTTTAACATA-TACCATTACT
1 -TATATTTTATTATATTA-TATTACT
30183958 TAT-TATTTATTATATTATATTA
1 TATAT-TTTATTATATTATATTA
30183980 TTTTTATCAC
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
23 16 0.21
24 24 0.32
25 18 0.24
26 17 0.22
27 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATTTTATTATATTATATTACT
Found at i:30183900 original size:8 final size:8
Alignment explanation
Indices: 30183833--30184024 Score: 66
Period size: 8 Copynumber: 24.1 Consensus size: 8
30183823 TTTTAAATTG
30183833 TATATATAT
1 TATAT-TAT
*
30183842 TATTTTA-
1 TATATTAT
30183849 TATATGTATT
1 TATAT-TA-T
30183859 GTATATT-T
1 -TATATTAT
30183867 TATATTAT
1 TATATTAT
30183875 TAT-TTACT
1 TATATTA-T
30183883 TATATT-T
1 TATATTAT
30183890 TAT-TATAT
1 TATAT-TAT
30183898 TATATTACT
1 TATATTA-T
*
30183907 TCATATTTT
1 T-ATATTAT
*
30183916 TCTATTAT
1 TATATTAT
* * *
30183924 CAAATTAA
1 TATATTAT
30183932 TATA-TAT
1 TATATTAT
* **
30183939 TTTAACA-
1 TATATTAT
**
30183946 TATACCAT
1 TATATTAT
*
30183954 TA-CTTAT
1 TATATTAT
30183961 TAT-TTAT
1 TATATTAT
30183968 TATATTA-
1 TATATTAT
*
30183975 TATTATTTT
1 TA-TATTAT
*
30183984 TATCA-CAT
1 TAT-ATTAT
*
30183992 AATATT-T
1 TATATTAT
30183999 ATATATTAT
1 -TATATTAT
30184008 TATATTAT
1 TATATTAT
30184016 TATATTAT
1 TATATTAT
30184024 T
1 T
30184025 TTACATTTTA
Statistics
Matches: 136, Mismatches: 25, Indels: 45
0.66 0.12 0.22
Matches are distributed among these distances:
6 1 0.01
7 43 0.32
8 66 0.49
9 15 0.11
10 6 0.04
11 5 0.04
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (8 bp):
TATATTAT
Found at i:30184060 original size:16 final size:16
Alignment explanation
Indices: 30184041--30184115 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
30184031 TTTAACAATA
30184041 TATTATTTCATATTAT
1 TATTATTTCATATTAT
30184057 TATTA--TC-TATTA-
1 TATTATTTCATATTAT
*
30184069 TATATATTTTCATGTATAT
1 TAT-TA-TTTCATAT-TAT
*
30184088 TATTA-TTCACATTAT
1 TATTATTTCATATTAT
30184103 TA-T-TTTCATATTA
1 TATTATTTCATATTA
30184116 AATTGATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
12 3 0.06
13 7 0.15
14 11 0.23
15 5 0.11
16 12 0.26
17 2 0.04
18 4 0.09
19 3 0.06
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (16 bp):
TATTATTTCATATTAT
Found at i:30184263 original size:21 final size:22
Alignment explanation
Indices: 30184229--30184272 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30184219 TATTTCAAAA
*
30184229 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
30184250 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
30184272 T
1 T
30184273 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:30184538 original size:2 final size:2
Alignment explanation
Indices: 30184531--30184563 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30184521 CATATTATTT
30184531 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30184564 GTGTCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30192749 original size:22 final size:21
Alignment explanation
Indices: 30192724--30192766 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
30192714 TTAGAAAAGA
30192724 TCATTCTCCTAGCC-TAAAACAT
1 TCATT-TCCTA-CCATAAAACAT
*
30192746 TCATTTTCTACCATAAAACAT
1 TCATTTCCTACCATAAAACAT
30192767 CAAAATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (21 bp):
TCATTTCCTACCATAAAACAT
Found at i:30198028 original size:7 final size:7
Alignment explanation
Indices: 30198018--30198107 Score: 69
Period size: 7 Copynumber: 12.7 Consensus size: 7
30198008 TCGAAAATCA
30198018 AAAAAAG
1 AAAAAAG
30198025 AAAAAA-
1 AAAAAAG
*
30198031 AAACAAAC
1 AAA-AAAG
30198039 AAAAAA-
1 AAAAAAG
30198045 AACAAAA-
1 AA-AAAAG
*
30198052 AAAAAAA
1 AAAAAAG
*
30198059 AAAACAAA
1 AAAA-AAG
30198067 AAAAAAG
1 AAAAAAG
30198074 AAAAAAG
1 AAAAAAG
30198081 AAAAAGAG
1 AAAAA-AG
* *
30198089 AGAAGAG
1 AAAAAAG
*
30198096 GAAAAAG
1 AAAAAAG
30198103 AAAAA
1 AAAAA
30198108 TGGAGAGGCC
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
6 9 0.13
7 46 0.66
8 15 0.21
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:30198051 original size:29 final size:27
Alignment explanation
Indices: 30198017--30198085 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 27
30198007 TTCGAAAATC
30198017 AAAAAAAGAAAAAAAAACAAACAAAAAA
1 AAAAAAAGAAAAAAAAACAAA-AAAAAA
*
30198045 AACAAAAAAAAAAAAAAACAAAAAAAAA
1 AA-AAAAAGAAAAAAAAACAAAAAAAAA
*
30198073 GAAAAAAGAAAAA
1 AAAAAAAGAAAAA
30198086 GAGAGAAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.27
28 9 0.24
29 18 0.49
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (27 bp):
AAAAAAAGAAAAAAAAACAAAAAAAAA
Found at i:30198053 original size:25 final size:25
Alignment explanation
Indices: 30198017--30198085 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
30198007 TTCGAAAATC
* *
30198017 AAAAAAAGAAAAAAAAACAAACAAA
1 AAAAAAAAAAAAAAAAAAAAACAAA
*
30198042 AAAAACAAAAAAAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAACAAA
* *
30198067 AAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAA
30198086 GAGAGAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAAAAAAAAACAAA
Found at i:30198092 original size:17 final size:17
Alignment explanation
Indices: 30198017--30198085 Score: 90
Period size: 16 Copynumber: 4.2 Consensus size: 17
30198007 TTCGAAAATC
30198017 AAAAAAAGAAAAAA-AA
1 AAAAAAAGAAAAAACAA
*
30198033 ACAAACAA-AAAAAACAA
1 A-AAAAAAGAAAAAACAA
30198050 AAAAAAA-AAAAAACAA
1 AAAAAAAGAAAAAACAA
*
30198066 AAAAAAAGAAAAAAGAA
1 AAAAAAAGAAAAAACAA
30198083 AAA
1 AAA
30198086 GAGAGAAGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
16 28 0.60
17 19 0.40
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAACAA
Found at i:30198101 original size:1 final size:1
Alignment explanation
Indices: 30198017--30198085 Score: 75
Period size: 1 Copynumber: 69.0 Consensus size: 1
30198007 TTCGAAAATC
* * * * * * *
30198017 AAAAAAAGAAAAAAAAACAAACAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAAAGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30198082 AAAA
1 AAAA
30198086 GAGAGAAGAG
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:30199300 original size:206 final size:206
Alignment explanation
Indices: 30198973--30199428 Score: 671
Period size: 206 Copynumber: 2.2 Consensus size: 206
30198963 GTAGATCTGG
* * *
30198973 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
30199038 GATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* ** * * * * **
30199103 AGAACAAATTGAAGTTTGGCATCTCCATATTCAACGGAGAGCAGATACATAATAGATTTGGCCTT
130 AGAAAAAATCAAAGTTTGGCATCTCCATATTCAAAGGAGAGCAGACACATAACAGATCTAACCTT
* **
30199168 CAGGTTTTTATA
195 CAGATGATTATA
*
30199180 CTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCT
* *
30199244 GATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * **
30199309 AGAAAAAATCAAAGTTTGGCGTCTCCATATTCAAAGGAGGGCAGACACATGGCAGATCTAACCTT
130 AGAAAAAATCAAAGTTTGGCATCTCCATATTCAAAGGAGAGCAGACACATAACAGATCTAACCTT
30199374 CAGATGATTATA
195 CAGATGATTATA
30199386 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAG
30199429 TAATGTAATA
Statistics
Matches: 223, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
205 1 0.00
206 216 0.97
207 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
ATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAAAAAATCAAAGTTTGGCATCTCCATATTCAAAGGAGAGCAGACACATAACAGATCTAACCTTC
AGATGATTATA
Found at i:30200785 original size:46 final size:45
Alignment explanation
Indices: 30200729--30200904 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
30200719 TGGTTGAGCA
30200729 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
30200775 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
30200822 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
30200868 CCCGACCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30200905 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:30200885 original size:93 final size:93
Alignment explanation
Indices: 30200726--30200896 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
30200716 GGATGGTTGA
* *
30200726 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30200791 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
30200819 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGACCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30200884 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30200897 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:30204093 original size:40 final size:40
Alignment explanation
Indices: 30204048--30204214 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
30204038 CGGAATATAA
30204048 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30204088 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
30204128 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30204168 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
30204207 CCGGATAT
1 CCGGATAT
30204215 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30204198 original size:80 final size:79
Alignment explanation
Indices: 30204048--30204214 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
30204038 CGGAATATAA
* *
30204048 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
30204113 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
30204128 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
30204190 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
30204207 CCGGATAT
1 CCGGATAT
30204215 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:30205063 original size:17 final size:19
Alignment explanation
Indices: 30205040--30205085 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30205030 AAGAAGCATG
30205040 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
30205058 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
30205076 AATCATGCTC
1 AATCATGCTC
30205086 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:30212092 original size:40 final size:40
Alignment explanation
Indices: 30212047--30212213 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
30212037 CGGAATATAA
30212047 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30212087 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
30212127 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30212167 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
30212206 CCGGATAT
1 CCGGATAT
30212214 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30212197 original size:80 final size:79
Alignment explanation
Indices: 30212063--30212213 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
30212053 ATAATCACGT
*
30212063 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
30212128 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
30212143 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
30212206 CCGGATAT
64 CCGGATAT
30212214 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:30213061 original size:17 final size:19
Alignment explanation
Indices: 30213038--30213083 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30213028 AAGAAGCATG
30213038 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
30213056 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
30213074 AATCATGCTC
1 AATCATGCTC
30213084 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:30215631 original size:39 final size:38
Alignment explanation
Indices: 30215588--30215695 Score: 155
Period size: 38 Copynumber: 2.8 Consensus size: 38
30215578 CTGAAATTAT
* *
30215588 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGCTAA
*
30215627 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAGTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAGTGCTAA
*
30215665 ATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCA
30215696 AATCGTGATA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
38 36 0.57
39 27 0.43
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGCTAA
Found at i:30223739 original size:37 final size:37
Alignment explanation
Indices: 30223651--30223756 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 37
30223641 GAAATTATAA
*
30223651 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTGGCTA-AT
**
30223691 CCGGGCTAAGACCCGAAGGCATTCGTGCAGTTTCT-AT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCAGTGGCTAAT
30223728 CCGGGCTAAGACCCGAAGGCATTTGTGCA
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCA
30223757 AATCGTGATA
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
37 28 0.46
38 2 0.03
39 8 0.13
40 23 0.38
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (37 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCAGTGGCTAAT
Found at i:30231868 original size:40 final size:39
Alignment explanation
Indices: 30231703--30231886 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
30231693 AAATTGAATG
* * *
30231703 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
30231743 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
30231783 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
30231823 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
30231862 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
30231887 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:30231911 original size:80 final size:81
Alignment explanation
Indices: 30231743--30231931 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
30231733 GCTGGAAATT
* * * *
30231743 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
30231808 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
30231824 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
30231887 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
30231903 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
30231932 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:30233400 original size:48 final size:48
Alignment explanation
Indices: 30233329--30233968 Score: 1091
Period size: 48 Copynumber: 13.3 Consensus size: 48
30233319 GGGGTGTTAC
30233329 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
*
30233377 ATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
30233425 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
30233473 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
*
30233521 ATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
*
30233569 ATGGCTAATGTGAAATATATCTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
*
30233617 ATGGCTAATGTGAAATATATCTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
* *
30233665 ATGGCGAATGTGAAATATATCTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
*
30233713 ATGGCTAATGTGAAATATATGCGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
* * * *
30233761 ATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
30233809 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
* * *
30233857 ATGGCTAATGTGAAATATATATATGAGATATGTATATGTCGTAAAGCCGA
1 ATGGCTAATGTG-AA-ATATATGTGTGATATGTATATGTGGTAAAGCCGA
* * * * *
30233907 ATGGCGAATGTGAAATATGTATGAGATATGAATATGTGGTAAAGCCGA
1 ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
30233955 ATGGCTAATGTGAA
1 ATGGCTAATGTGAA
30233969 TGTTGTAACA
Statistics
Matches: 564, Mismatches: 26, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 518 0.92
49 4 0.01
50 42 0.07
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (48 bp):
ATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
Found at i:30234073 original size:37 final size:37
Alignment explanation
Indices: 30234023--30234120 Score: 169
Period size: 37 Copynumber: 2.6 Consensus size: 37
30234013 TCCGGGTGAA
30234023 ACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAG
1 ACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAG
*
30234060 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAG
* *
30234097 ACCCGATGACTTCGTGTGGCGATT
1 ACCCGATGACTACGTGTGGAGATT
30234121 TCGTCTGAGC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
ACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAG
Found at i:30244455 original size:47 final size:46
Alignment explanation
Indices: 30244392--30244697 Score: 194
Period size: 47 Copynumber: 6.5 Consensus size: 46
30244382 TGAGACAAGG
* * *
30244392 GCTAGTGTAAGGCATGTCTGGGACATGCATCAGCCACATTAAGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAAGATA
* * ** * *
30244438 GCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGTGTAGA-GATGAGT-
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CCACATGAAGA-TA
* * * * *
30244486 GCCAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGACGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGAAGATA
* * * * ***
30244533 GCCAGTGTAAGACATGTCTAGGACATGCATCGACTA-AGTTTCG-T-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TGAAGATA
* *
30244577 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTAT-ACACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--ATGA-A-GATA
* *
30244625 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGAGATA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATGAAGATA
* *
30244674 GCCAGTGTAAGACCATGTTTGGGA
1 GCTAGTGTAAGA-CATGTCTGGGA
30244698 TATGGTAGCA
Statistics
Matches: 200, Mismatches: 41, Indels: 35
0.72 0.15 0.13
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 3 0.01
46 21 0.10
47 62 0.31
48 31 0.16
49 42 0.21
50 9 0.05
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAAGATA
Found at i:30244512 original size:94 final size:93
Alignment explanation
Indices: 30244351--30244697 Score: 310
Period size: 94 Copynumber: 3.7 Consensus size: 93
30244341 AGAGCCAGTA
* * ** * * *
30244351 TAAGACCATGTCTAAGACATGGCATC-GACATTGAGACAAGGGCTAGTGTAAGGCATGTCTGGGA
1 TAAGACCATGTCTAGGACATGGCATCGGAC--TAAGATGAGTGCCAGTGTAAGACATGTCTGGGA
30244415 CATGCATCAGCCACATTAAGATAGCTAGTG
64 CATGCATCAGCCACATTAAGATAGCTAGTG
* **
30244445 TAAGACCATGTCTAGGACATGGCGTCGGTGTAGAGATGAGTGCCAGTGTAAGACATGTCTGGGAC
1 TAAGACCATGTCTAGGACATGGCATCGGACTA-AGATGAGTGCCAGTGTAAGACATGTCTGGGAC
* * * ** * *
30244510 ATGTATCGGCCTCGACGATGATAGCCAGTG
65 ATGCATCAGCCAC-ATTAAGATAGCTAGTG
* ** *
30244540 TAAGA-CATGTCTAGGACAT-GCATC-GACTAAGTTTCGTGCTAGTGTAAGACATGTCTGGGACA
1 TAAGACCATGTCTAGGACATGGCATCGGACTAAGATGAGTGCCAGTGTAAGACATGTCTGGGACA
* *
30244602 TGCATCAG-CACGTATACACGAGAGCTAGTG
66 TGCATCAGCCACAT-TA-A-GATAGCTAGTG
* * * *
30244632 TAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGGAGATAGCCAGTGTAAGACCATGTTTGG
1 TAAGACCATGTCTAGGACATGGCATCGGACTAAGAT-GAG-T-GCCAGTGTAAGA-CATGTCTGG
30244696 GA
62 GA
30244698 TATGGTAGCA
Statistics
Matches: 199, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
90 3 0.02
91 35 0.18
92 17 0.09
93 18 0.09
94 82 0.41
95 22 0.11
96 1 0.01
97 11 0.06
98 10 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
TAAGACCATGTCTAGGACATGGCATCGGACTAAGATGAGTGCCAGTGTAAGACATGTCTGGGACA
TGCATCAGCCACATTAAGATAGCTAGTG
Found at i:30244681 original size:49 final size:50
Alignment explanation
Indices: 30244340--30244702 Score: 144
Period size: 47 Copynumber: 7.7 Consensus size: 50
30244330 TGGGTTATGT
* ** * *
30244340 GAGAGCCAGTATAAGACCATGTCTAAGACATGGCATC-G-ACAT-TGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTAT-ACAC
* * * * *
30244388 AAGGGCTAGTGTAAG-GCATGTCTGGGACAT-GCATCAGCCACAT-TA-A-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGTATACAC
* * * * ** * * *
30244434 GATAGCTAGTGTAAGACCATGTCTAGGACATGGCGTC-G-GTGTAGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATACAC
* * * ** *
30244482 GAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GTATCGGC-C-TCGACGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAC-AC
* * ***
30244529 GATAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATC-G-AC-TA-AGTT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATACAC
** * *
30244573 TCGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTATACAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATACAC
* * * **
30244621 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-ATGGA-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGTATACAC
* * *
30244670 GATAGCCAGTGTAAGACCATGTTTGGGATATGG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGG
30244703 TAGCAGAAAC
Statistics
Matches: 243, Mismatches: 53, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
44 30 0.12
45 3 0.01
46 29 0.12
47 78 0.32
48 43 0.18
49 48 0.20
50 9 0.04
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (50 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATACAC
Found at i:30249511 original size:80 final size:80
Alignment explanation
Indices: 30249427--30249575 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
30249417 TATGGTAACC
* * * *
30249427 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
30249491 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
30249507 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
30249572 CCGG
66 CCGG
30249576 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:30249517 original size:40 final size:38
Alignment explanation
Indices: 30249468--30249575 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
30249458 ATCACGATTT
*
30249468 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
30249508 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
30249548 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
30249576 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:30254009 original size:40 final size:39
Alignment explanation
Indices: 30253964--30254093 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
30253954 CGGAATATAA
30253964 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
30254004 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30254044 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
30254084 CCGGATATAA
1 CCGGATATAA
30254094 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30254108 original size:40 final size:40
Alignment explanation
Indices: 30253980--30254131 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
30253970 ATAACCATGT
* * *
30253980 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
30254020 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
30254060 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
30254100 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
30254132 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:30254114 original size:80 final size:80
Alignment explanation
Indices: 30253980--30254129 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
30253970 ATAACCATGT
*
30253980 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
30254044 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
30254060 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
30254123 CCCGGAT
64 CCCGGAT
30254130 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:30265917 original size:42 final size:43
Alignment explanation
Indices: 30265857--30265972 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
30265847 ACATGTGTTA
30265857 TCGTGTAAGACCACGTCTGGGACGTTGGCATC-ATACTTGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATACTTGATT
* ** * *
30265899 TCGTGTAAAACCTTGTCTGGGATAG-TGGCATCGATATTTGATT
1 TCGTGTAAGACCACGTCTGGGA-CGTTGGCATCGATACTTGATT
* *
30265942 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCAT
30265973 TGTACAAACT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATACTTGATT
Found at i:30275283 original size:29 final size:29
Alignment explanation
Indices: 30275221--30275323 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
30275211 GTGACGAGAT
* * *
30275221 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
30275250 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
30275279 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
30275308 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30275324 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:30283298 original size:29 final size:29
Alignment explanation
Indices: 30283236--30283338 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
30283226 GTGACGAGAT
* * *
30283236 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
30283265 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
30283294 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
30283323 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30283339 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:30293378 original size:23 final size:24
Alignment explanation
Indices: 30293348--30293392 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30293338 TGATTGTTAC
30293348 CTCTTACCGT-CTTATTTCTCCTT
1 CTCTTACCGTCCTTATTTCTCCTT
*
30293371 CTCTTACCTTCCTTATTTCTCC
1 CTCTTACCGTCCTTATTTCTCC
30293393 AACAATACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.09, C:0.38, G:0.02, T:0.51
Consensus pattern (24 bp):
CTCTTACCGTCCTTATTTCTCCTT
Found at i:30300715 original size:17 final size:18
Alignment explanation
Indices: 30300673--30300721 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
30300663 AGTTGAAAAG
30300673 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
30300692 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
30300709 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
30300722 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:30301610 original size:40 final size:40
Alignment explanation
Indices: 30301544--30301694 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
30301534 AAATTGAATG
* * *
30301544 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
30301583 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
30301623 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
30301663 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
30301695 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:30301708 original size:40 final size:40
Alignment explanation
Indices: 30301580--30301710 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
30301570 TATGCTGGAA
* * * *
30301580 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
30301620 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
30301660 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
30301700 ATTATATCCGG
1 ATTATATCCGG
30301711 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:30306169 original size:30 final size:30
Alignment explanation
Indices: 30306128--30306189 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
30306118 TTTTCGGAGC
* *
30306128 TAGGGGTAAAATGGTCACTTTGCAAAAATA
1 TAGGGGAAAAATGGCCACTTTGCAAAAATA
* * *
30306158 TAGGGGAAAAATGGCCATTTTGCTAAATTA
1 TAGGGGAAAAATGGCCACTTTGCAAAAATA
30306188 TA
1 TA
30306190 AATTGTTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (30 bp):
TAGGGGAAAAATGGCCACTTTGCAAAAATA
Found at i:30311434 original size:18 final size:19
Alignment explanation
Indices: 30311392--30311440 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
30311382 TTATTTTCTC
*
30311392 AAAAATTTAA-AAATTATT
1 AAAAATTTAATAAATTATA
*
30311410 AATAATTTAATAAATTA-A
1 AAAAATTTAATAAATTATA
*
30311428 AAAAATTAAATAA
1 AAAAATTTAATAA
30311441 TAAAATTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTTAATAAATTATA
Found at i:30312092 original size:22 final size:24
Alignment explanation
Indices: 30312067--30312114 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
30312057 AATTCTATGC
30312067 TAAATTGATAA-AGAT-TAA-TATA
1 TAAATT-ATAATAGATATAATTATA
30312089 TAAATTATAATAGATATAATTATA
1 TAAATTATAATAGATATAATTATA
30312113 TA
1 TA
30312115 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTATAATAGATATAATTATA
Found at i:30326606 original size:46 final size:45
Alignment explanation
Indices: 30326554--30326822 Score: 190
Period size: 46 Copynumber: 5.8 Consensus size: 45
30326544 TATTTGGGCA
30326554 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
** * * *
30326600 TCCGAACTCGTTGAGTTGAGTCTAAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * *
30326645 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
30326693 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * **
30326738 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
30326786 CCCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30326823 GCGGGTTACA
Statistics
Matches: 174, Mismatches: 31, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
42 4 0.02
43 9 0.05
45 6 0.03
46 86 0.49
47 52 0.30
48 5 0.03
50 8 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:30326667 original size:47 final size:47
Alignment explanation
Indices: 30326550--30326768 Score: 197
Period size: 46 Copynumber: 4.7 Consensus size: 47
30326540 CGGATATTTG
* * *
30326550 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTA
**
30326599 -G--TCCGAACTCGTTGAGTTGAGTCTAAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
30326643 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAAC--
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTT--CGT-GAGATGT-AACTA
*
30326692 -G--TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
* *
30326736 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
30326769 ACTTATGGAT
Statistics
Matches: 139, Mismatches: 17, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
42 5 0.04
43 11 0.08
44 2 0.01
45 4 0.03
46 53 0.38
47 51 0.37
48 2 0.01
49 2 0.01
50 6 0.04
51 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30326709 original size:93 final size:93
Alignment explanation
Indices: 30326550--30326815 Score: 433
Period size: 93 Copynumber: 2.9 Consensus size: 93
30326540 CGGATATTTG
* * *
30326550 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
*
30326615 TTGAGTCTAAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
* *
30326643 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAACGTCCGAACTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
*
30326708 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
* ** *
30326736 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
30326801 TTGAGTCTGAGTTCG
66 TTGAGTCTGAGTTCG
30326816 CTTATGGGCG
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
TTGAGTCTGAGTTCGTGAGATGTAACTA
Found at i:30329660 original size:30 final size:30
Alignment explanation
Indices: 30329626--30329687 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
30329616 TTTTCAAAGC
*
30329626 TAGGGATAAAATGGTCACTTTGCAAAAATA
1 TAGGGACAAAATGGTCACTTTGCAAAAATA
* * * *
30329656 TAGGGGCAAAATGGTCATTTTGCCAAATTA
1 TAGGGACAAAATGGTCACTTTGCAAAAATA
30329686 TA
1 TA
30329688 AATTGTTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (30 bp):
TAGGGACAAAATGGTCACTTTGCAAAAATA
Found at i:30330178 original size:46 final size:44
Alignment explanation
Indices: 30330101--30330211 Score: 116
Period size: 46 Copynumber: 2.5 Consensus size: 44
30330091 GAGACGAGAG
* * * *
30330101 CATGTCTGGGACATGCGTCGGCCTCGTGATGTAAGCCAATGTAAGA
1 CATGTCTGGGACATGCATCAGCCTCGAGATGT--GCCAATATAAGA
* *
30330147 CATGTCTGGGACATGCATCAG-CTACGAGATGTGTCAGTATAAGA
1 CATGTCTGGGACATGCATCAGCCT-CGAGATGTGCCAATATAAGA
*
30330191 CATGTCTAGGACATGGCATCA
1 CATGTCTGGGACAT-GCATCA
30330212 ACTTTACACC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
44 22 0.39
45 8 0.14
46 26 0.46
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (44 bp):
CATGTCTGGGACATGCATCAGCCTCGAGATGTGCCAATATAAGA
Found at i:30330959 original size:42 final size:42
Alignment explanation
Indices: 30330899--30330980 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
30330889 CTATGTTGCC
* *
30330899 CACACGGGTAGACACATGGGCGTG-TGTCTAGGCCATGTGTGG
1 CACACGGCTAGACACATGGGCGTGTTGTCCA-GCCATGTGTGG
* * *
30330941 CACACGGCTAGTCCCATGGGGGTGTTGTCCAGCCATGTGT
1 CACACGGCTAGACACATGGGCGTGTTGTCCAGCCATGTGT
30330981 CCCCTGCACG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 29 0.85
43 5 0.15
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.23
Consensus pattern (42 bp):
CACACGGCTAGACACATGGGCGTGTTGTCCAGCCATGTGTGG
Found at i:30334426 original size:40 final size:39
Alignment explanation
Indices: 30334335--30334485 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 39
30334325 TGGATGAAAA
* * ** * *
30334335 CCGGGCTAAGTCCCAAAGGCATCTGCACTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
30334374 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
30334414 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* *
30334454 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
30334486 AGTTATATCC
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.30
40 65 0.66
41 2 0.02
42 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:30342032 original size:40 final size:40
Alignment explanation
Indices: 30341987--30342194 Score: 201
Period size: 40 Copynumber: 5.2 Consensus size: 40
30341977 CGGAATATAA
30341987 CCGGATATAATCA-CGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAT-ATC-TCGCACAAATGCCTTCGGGTCTTAGC
* *
30342027 CCGGATAGAATATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATATCTCGCACAAATGCCTTCGGGTCTTAGC
* *
30342067 CCGGATAGAATATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATATCTCGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
30342107 CCGGATGTAGCCA-CTAGAACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ATATCTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
30342147 CCGGATATAATTTC-CAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATATCTC-GCACAAATGCCTTCGGG-TCTTAGC
30342187 CCGGATAT
1 CCGGATAT
30342195 CATTCAATTT
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATATCTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:30349193 original size:40 final size:39
Alignment explanation
Indices: 30349148--30349277 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
30349138 CGGAATACAA
30349148 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
30349188 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
30349228 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
30349268 CCGGATATAA
1 CCGGATATAA
30349278 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:30355856 original size:29 final size:29
Alignment explanation
Indices: 30355762--30355834 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
30355752 GTGACGAGAT
30355762 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
30355791 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
30355820 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
30355835 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:30355930 original size:2 final size:2
Alignment explanation
Indices: 30355925--30355967 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
30355915 GTGTGCGTAC
30355925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30355967 T
1 T
30355968 CTCCAATCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30358373 original size:40 final size:40
Alignment explanation
Indices: 30358284--30358472 Score: 265
Period size: 40 Copynumber: 4.8 Consensus size: 40
30358274 GATGAAAACT
* ** * *
30358284 GGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
30358323 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
30358363 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
30358403 GGACTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCC
* *
30358443 GGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
30358473 AGTTATATCC
Statistics
Matches: 136, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.21
40 105 0.77
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:30366097 original size:40 final size:40
Alignment explanation
Indices: 30366006--30366196 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
30365996 TGGATGAAAA
* ** * *
30366006 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
30366045 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
30366085 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
30366125 CCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
30366165 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
30366197 AGTTATATCC
Statistics
Matches: 136, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 31 0.23
40 103 0.76
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:30372767 original size:40 final size:40
Alignment explanation
Indices: 30372661--30372868 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
30372651 GGATTTAACT
* * * * *
30372661 GGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCC
1 GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
* * * * * *
30372701 GGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGCCC
1 GGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
30372741 GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
30372781 GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
30372821 GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
30372861 GGATATAT
1 GGATATAT
30372869 TTTCAATGTT
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 150 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCC
Found at i:30376345 original size:15 final size:15
Alignment explanation
Indices: 30376322--30376379 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
30376312 GTATCGTATC
*
30376322 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
30376337 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * *
30376352 TTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
30376367 TTGGATTTCTTTA
1 TTGGATTTCTTTA
30376380 CCCGGTTATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:30376356 original size:30 final size:30
Alignment explanation
Indices: 30376322--30376379 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
30376312 GTATCGTATC
* *
30376322 TTGGGTTTCTTTATTTTGGATTTCTTTATT
1 TTGGGTTTCTCTATCTTGGATTTCTTTATT
30376352 TTGGGTTTCTCTATCTTGGATTTCTTTA
1 TTGGGTTTCTCTATCTTGGATTTCTTTA
30376380 CCCGGTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.62
Consensus pattern (30 bp):
TTGGGTTTCTCTATCTTGGATTTCTTTATT
Found at i:30380085 original size:41 final size:41
Alignment explanation
Indices: 30380040--30380157 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30380030 TGAAAGATAA
30380040 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30380081 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30380111 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30380152 ATGTAG
1 ATGTAG
30380158 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30380096 original size:71 final size:71
Alignment explanation
Indices: 30380008--30380171 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30379998 GAGATGTATC
30380008 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30380073 AGGACA
66 AGGACA
30380079 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30380144 AGGACA
66 AGGACA
30380150 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30380172 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30387194 original size:41 final size:41
Alignment explanation
Indices: 30387149--30387266 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30387139 TGAAAGATAA
30387149 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30387190 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30387220 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30387261 ATGTAG
1 ATGTAG
30387267 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30387205 original size:71 final size:71
Alignment explanation
Indices: 30387117--30387280 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30387107 GAGATGTATC
30387117 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30387182 AGGACA
66 AGGACA
30387188 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30387253 AGGACA
66 AGGACA
30387259 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30387281 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30392640 original size:40 final size:40
Alignment explanation
Indices: 30392570--30392738 Score: 254
Period size: 40 Copynumber: 4.3 Consensus size: 40
30392560 GAACTTTAGG
*
30392570 CCCGGATATA-GTT-CCAGCACT-AAGCCTGCGGGATTTAA
1 CCCGGATATACTTTACCAGCA-TGAAGCCTGCGGGATTTAA
*
30392608 CCCGGATATACTTTACCAGTATGAAGCCTGCGGGATTTAA
1 CCCGGATATACTTTACCAGCATGAAGCCTGCGGGATTTAA
30392648 CCCGGATATACTTTACCAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATACTTTACCAGCATGAAGCCTGCGGGATTTAA
* * * *
30392688 CCCAGATATACATTACCAGCACGATGCCTGCGGGATTTAA
1 CCCGGATATACTTTACCAGCATGAAGCCTGCGGGATTTAA
30392728 CCCGGATATAC
1 CCCGGATATAC
30392739 AATATATCGA
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 10 0.08
39 3 0.03
40 107 0.89
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCCGGATATACTTTACCAGCATGAAGCCTGCGGGATTTAA
Found at i:30396113 original size:54 final size:54
Alignment explanation
Indices: 30396028--30396593 Score: 749
Period size: 54 Copynumber: 10.5 Consensus size: 54
30396018 TAGTATTATT
* * *
30396028 GAAATACCCCTTTAAGGTAGAATTACTAAAATACCCTTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* * * * * *
30396082 AAAATACCACTTTAGGGTAGAATTACGAAAATACCCCTATAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* * * * *
30396136 AAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGCAAAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* * * * *
30396190 GACATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAAGGTAAAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* *
30396244 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
30396298 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* * * * *
30396352 GAAATACCCTTTTAGGGTAGAATTACTTAAATACCCCTGTAAGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* * *
30396406 GAAATACCCCTATAGGGTA-AATTACTGAAATACCCCTATAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* * * * *
30396459 GAAATACCCATGTAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
* * *
30396513 GAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGGTAGAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG-AATTACC
* *
30396568 GAGATA-CCCTCGTAGGGTAAAATTAC
1 GAAATACCCCT-GTAGGGTAGAATTAC
30396594 CATTTTGCCT
Statistics
Matches: 452, Mismatches: 57, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
53 46 0.10
54 382 0.85
55 24 0.05
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
Found at i:30396594 original size:27 final size:27
Alignment explanation
Indices: 30396010--30396593 Score: 649
Period size: 27 Copynumber: 21.6 Consensus size: 27
30396000 AATCTCGTAT
* * *
30396010 CTGTAGGCTAGTATTATTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
30396037 CTTTAAGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * ** *
30396064 TTGTAAGGTAGAATTACCAAAATACCA
1 CTGTAGGGTAGAATTACTGAAATACCC
*
30396091 CTTTAGGGTAGAATTAC-GAAAATACCC
1 CTGTAGGGTAGAATTACTG-AAATACCC
* * *
30396118 CTATAAGGTAGAATTA-TCAAAATACCC
1 CTGTAGGGTAGAATTACT-GAAATACCC
*
30396145 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
30396172 CTGTAGGGCAAAATTACTGACATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
30396199 CTGTAAGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
30396226 CTGTAAGGTAAAATTA-TCGAAATACCC
1 CTGTAGGGTAGAATTACT-GAAATACCC
30396253 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
30396280 CTATAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
30396307 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
30396334 CTGTAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
30396361 TTTTAGGGTAGAATTACTTAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
30396388 CTGTAAGATAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
30396415 CTATAGGGTA-AATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
30396441 CTATAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
30396468 ATGTAGGATAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
30396495 CTATAGGGTAGAATTA-TCGAAATACCC
1 CTGTAGGGTAGAATTACT-GAAATACCC
* * *
30396522 TTGTAGGGTAGAAATACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
30396549 CTGTAGGGTAGAAATTACCGAGATA-CC
1 CTGTAGGGTAG-AATTACTGAAATACCC
*
30396576 CTCGTAGGGTAAAATTAC
1 CT-GTAGGGTAGAATTAC
30396594 CATTTTGCCT
Statistics
Matches: 470, Mismatches: 76, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
26 27 0.06
27 423 0.90
28 20 0.04
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:30396955 original size:22 final size:22
Alignment explanation
Indices: 30396927--30396977 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
30396917 TCGATGGCTC
30396927 TGTGCCAACCTAAATATGACTT
1 TGTGCCAACCTAAATATGACTT
*
30396949 TGTGCCAACCTAAATATGGCTT
1 TGTGCCAACCTAAATATGACTT
30396971 TGTGCCA
1 TGTGCCA
30396978 TCTTGACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (22 bp):
TGTGCCAACCTAAATATGACTT
Found at i:30397188 original size:27 final size:27
Alignment explanation
Indices: 30397162--30397265 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
30397152 TGTTAAGTGG
* *
30397162 CTTTGCCACATTATCTGTTTCTGGTGG
1 CTTTGCCACAATATCTGTTTCTGGTGA
*
30397189 CTATGCCACAAATATCTGTTT-TGGTGA
1 CTTTGCCAC-AATATCTGTTTCTGGTGA
* *
30397216 CTCTGCCACAATATCTGTATCTGGTGA
1 CTTTGCCACAATATCTGTTTCTGGTGA
*
30397243 CTTTGTCACAATATCTG-TTCTGG
1 CTTTGCCACAATATCTGTTTCTGG
30397266 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.22
27 42 0.63
28 10 0.15
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (27 bp):
CTTTGCCACAATATCTGTTTCTGGTGA
Found at i:30397392 original size:6 final size:6
Alignment explanation
Indices: 30397383--30397529 Score: 115
Period size: 6 Copynumber: 24.0 Consensus size: 6
30397373 TTGCATTCAC
*
30397383 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTGCCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
30397433 ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TTACCTA ATACTG ATTCTT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
30397482 ATTTTG -TCACAT- ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
30397530 TCACCTAATT
Statistics
Matches: 112, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
5 9 0.08
6 89 0.79
7 9 0.08
8 5 0.04
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:30397414 original size:25 final size:25
Alignment explanation
Indices: 30397386--30397447 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
30397376 CATTCACATT
30397386 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTGATA
* * *
30397411 CTGATTCTGATTCTGTTGCCTGATT
1 CTGATTCTGATTCTATTACCTGATA
30397436 CTGATTCTGATT
1 CTGATTCTGATT
30397448 TTGATTCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTGATA
Found at i:30397433 original size:19 final size:18
Alignment explanation
Indices: 30397411--30397480 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 18
30397401 TTACCTGATA
30397411 CTGATTCTGATTCTGTTGC
1 CTGATTCTGATTCTGTT-C
30397430 CTGATTCTGATTCTGATT-
1 CTGATTCTGATTCTG-TTC
*
30397448 TTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTT-C
* *
30397467 CTAATACTGATTCT
1 CTGATTCTGATTCT
30397481 TATTTTGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.05
18 14 0.32
19 26 0.59
20 2 0.05
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.49
Consensus pattern (18 bp):
CTGATTCTGATTCTGTTC
Found at i:30397446 original size:37 final size:37
Alignment explanation
Indices: 30397392--30397480 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
30397382 CATTCTGATT
*
30397392 CTGATTCT-ATTACCTGATACTGATTCTGATTCTGTTGC
1 CTGATTCTGATT--CTGATACTGATTCTGATTCTGTTAC
**
30397430 CTGATTCTGATTCTGATTTTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATACTGATTCTGATTCTGTTAC
* *
30397467 CTAATACTGATTCT
1 CTGATTCTGATTCT
30397481 TATTTTGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 34 0.76
38 8 0.18
39 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATACTGATTCTGATTCTGTTAC
Found at i:30397486 original size:37 final size:37
Alignment explanation
Indices: 30397412--30397565 Score: 119
Period size: 37 Copynumber: 4.4 Consensus size: 37
30397402 TACCTGATAC
* * *
30397412 TGATTCTGATTCTGTTGCCTGATTCTGATTCTGATTT
1 TGATTCTGATTCTGTTACCTAATACTGATTCTGATTT
*
30397449 TGATTCTGATTCTGTTACCTAATACTGATTCTTATTT
1 TGATTCTGATTCTGTTACCTAATACTGATTCTGATTT
*
30397486 TG-TCACAT-ATTCTG--A--T--T-CTGATTCTGATTT
1 TGAT-TC-TGATTCTGTTACCTAATACTGATTCTGATTT
* ** * *
30397516 TGATTCTGATTCTGTCACCTAATTTTGATTTTGATTC
1 TGATTCTGATTCTGTTACCTAATACTGATTCTGATTT
* *
30397553 TCATTTTGATTCT
1 TGATTCTGATTCT
30397566 AGTTCTGATA
Statistics
Matches: 94, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
29 1 0.01
30 21 0.22
31 2 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 2 0.02
37 63 0.67
38 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (37 bp):
TGATTCTGATTCTGTTACCTAATACTGATTCTGATTT
Found at i:30401852 original size:48 final size:48
Alignment explanation
Indices: 30401781--30402360 Score: 928
Period size: 48 Copynumber: 12.0 Consensus size: 48
30401771 CAAGATAAAT
30401781 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGG-TGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG
* * * * *
30401829 AAATATGTATGAGATATGTATATGTGGTAAAGCCTAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30401877 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30401925 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30401973 AAATGTATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
30402021 AAATGTATGTGTGATATGTATATGTGGTAAAGCCGAATAGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30402069 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30402117 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
30402165 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30402213 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
30402261 AAATATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTG
1 -AA-ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
30402311 AAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30402359 AA
1 AA
30402361 TGTTGTTGTG
Statistics
Matches: 495, Mismatches: 34, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
48 449 0.91
49 4 0.01
50 42 0.08
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:30404182 original size:40 final size:40
Alignment explanation
Indices: 30404043--30404226 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
30404033 TCGAATGATG
* *
30404043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * * *
30404083 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAG-TAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
30404122 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * * *
30404161 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
**
30404202 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30404227 AGCGAGTCGT
Statistics
Matches: 117, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 17 0.15
39 28 0.24
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:30404182 original size:78 final size:82
Alignment explanation
Indices: 30404043--30404226 Score: 229
Period size: 78 Copynumber: 2.3 Consensus size: 82
30404033 TCGAATGATG
* * *
30404043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
30404107 CGTGCGAGT-AATA-AA
66 CGTGCGAGTCAATATAA
* **
30404122 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
30404184 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
30404202 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30404227 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 45 0.49
79 29 0.32
80 16 0.18
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:30412204 original size:79 final size:82
Alignment explanation
Indices: 30412064--30412248 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
30412054 TCGAATGATG
* * *
30412064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
30412128 CGTGCGAGAT-AATA-AA
66 CGTGCGAG-TCAATATAA
* **
30412144 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
30412206 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
30412224 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30412249 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:30412228 original size:40 final size:40
Alignment explanation
Indices: 30412065--30412256 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
30412055 CGAATGATGT
* * * *
30412065 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
* * * * *
30412105 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGAT-AATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TCACTAAAC
* *
30412145 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
* *
30412184 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
** *
30412224 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTC
30412257 GTTATATCCG
Statistics
Matches: 124, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.25
40 82 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:30412279 original size:79 final size:79
Alignment explanation
Indices: 30412064--30412281 Score: 176
Period size: 79 Copynumber: 2.7 Consensus size: 79
30412054 TCGAATGATG
* * * * ** *
30412064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
30412127 TCGTGCGAGATAATAAA
63 TCGTGCGAGATAATAAA
* * * *
30412144 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
30412209 TGCGAG-TCACTATAA
66 TGCGAGAT-AATA-AA
** * ** * *
30412224 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
30412282 TACGTGATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.60
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGATAATAAA
Found at i:30413711 original size:37 final size:37
Alignment explanation
Indices: 30413661--30413768 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
30413651 GGAAATATAT
*
30413661 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
30413698 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
30413735 TCCGGGTAAGACCCGATGACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
30413769 TCGTCTGAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30415046 original size:40 final size:40
Alignment explanation
Indices: 30415002--30415124 Score: 201
Period size: 40 Copynumber: 3.1 Consensus size: 40
30414992 GAGAATTGAG
30415002 AGTGATGTATCCAGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCAGGCTAAATCCCGAAGAGCATTCGTGCT
* *
30415042 AGTGATGTATCCGGGCTAAATCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCAGGCTAAATCCCGAAGAGCATTCGTGCT
* * *
30415082 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCAGGCTAAATCCCGAAGAGCATTCGTGCT
30415122 AGT
1 AGT
30415125 CCCGAAGAGC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCAGGCTAAATCCCGAAGAGCATTCGTGCT
Found at i:30415128 original size:22 final size:22
Alignment explanation
Indices: 30415100--30415146 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
30415090 ATCCAGACTA
30415100 AGTCCCGAAGAGCATTTGTGCT
1 AGTCCCGAAGAGCATTTGTGCT
30415122 AGTCCCGAAGAGCATTTGTGCT
1 AGTCCCGAAGAGCATTTGTGCT
30415144 AGT
1 AGT
30415147 GATGTATCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (22 bp):
AGTCCCGAAGAGCATTTGTGCT
Found at i:30419068 original size:48 final size:48
Alignment explanation
Indices: 30418997--30419133 Score: 202
Period size: 48 Copynumber: 2.9 Consensus size: 48
30418987 TAAGATAAAT
* * *
30418997 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCGAATGTG
* *
30419045 AAATATGTATGAGATATGTATATGTGGTAAAGCCTAATGGCGAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCGAATGTG
* * *
30419093 AAATATATGTGTGATATGTATATGTGGTCAAGCCAAATGGC
1 AAATATATATGAGATATGTATATGTGGTAAAGCCAAATGGC
30419134 TTGTGACAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
AAATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCGAATGTG
Found at i:30420964 original size:40 final size:39
Alignment explanation
Indices: 30420799--30420982 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
30420789 AAATTGAATG
* * *
30420799 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
30420839 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
30420879 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
30420919 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
30420958 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
30420983 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:30421007 original size:80 final size:81
Alignment explanation
Indices: 30420839--30421027 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
30420829 GCTGGAAATT
* * * *
30420839 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
30420904 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
30420920 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
30420983 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
30420999 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
30421028 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:30428541 original size:40 final size:40
Alignment explanation
Indices: 30428477--30428667 Score: 199
Period size: 39 Copynumber: 4.8 Consensus size: 40
30428467 GCTACTCGTT
* * * ***
30428477 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
30428517 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
30428557 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
30428596 CCATTGCCTTTGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
30428635 CAATTGCCTTCGGG-CTTAGCTCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
30428668 TTCGCACATT
Statistics
Matches: 132, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 87 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:30428594 original size:39 final size:39
Alignment explanation
Indices: 30428513--30428675 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
30428503 TATGGTAACC
* *
30428513 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
30428553 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
30428592 CGCACCATTGCCTTTGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
30428631 CGCACAATTGCCTTCGGGCTTAGCTCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
30428670 CGCACA
1 CGCACA
30428676 TTCATACACA
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 94 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:30430719 original size:35 final size:35
Alignment explanation
Indices: 30430680--30430749 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
30430670 TTCGATAGGT
30430680 ACACTTGCCTACATCGCTATAATAGTTAGTTTCAA
1 ACACTTGCCTACATCGCTATAATAGTTAGTTTCAA
30430715 ACACTTGCCTACATCGCTATAATAGTTAGTTTCAA
1 ACACTTGCCTACATCGCTATAATAGTTAGTTTCAA
30430750 GAACGATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (35 bp):
ACACTTGCCTACATCGCTATAATAGTTAGTTTCAA
Found at i:30436363 original size:29 final size:28
Alignment explanation
Indices: 30436306--30436391 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
30436296 TACCTATAAC
*
30436306 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCATATTCATA
30436334 TGGCCCATTAGGCCCAAATCACT-TGT-ATA
1 TGGCCCATTAGGCCC-AATCA-TAT-TCATA
* * * *
30436363 TGGCCCGTTAGGCCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCATATTCATA
30436391 T
1 T
30436392 TCATGCTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
27 1 0.02
28 23 0.48
29 22 0.46
30 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCATATTCATA
Found at i:30436481 original size:18 final size:19
Alignment explanation
Indices: 30436458--30436499 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
30436448 ATGGGCCCAA
*
30436458 TAGCCTA-TCGGGCCCATT
1 TAGCCTACTCGAGCCCATT
*
30436476 TAGCCTACTCTAGCCCATT
1 TAGCCTACTCGAGCCCATT
30436495 TAGCC
1 TAGCC
30436500 AAATCACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.29
Consensus pattern (19 bp):
TAGCCTACTCGAGCCCATT
Found at i:30440838 original size:17 final size:18
Alignment explanation
Indices: 30440816--30440874 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
30440806 TGCCTATTAT
30440816 GGGCCCA-ACAGCCCATC
1 GGGCCCATACAGCCCATC
**
30440833 GGGCCCATTTAGCCCATC
1 GGGCCCATACAGCCCATC
**
30440851 GGGCCCATTTAGCCCATCC
1 GGGCCCATACAGCCCAT-C
30440870 GGGCC
1 GGGCC
30440875 ATATGGCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.18
18 25 0.66
19 6 0.16
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (18 bp):
GGGCCCATACAGCCCATC
Found at i:30440876 original size:18 final size:18
Alignment explanation
Indices: 30440825--30440874 Score: 91
Period size: 18 Copynumber: 2.7 Consensus size: 18
30440815 TGGGCCCAAC
30440825 AGCCCATCGGGCCCATTT
1 AGCCCATCGGGCCCATTT
30440843 AGCCCATCGGGCCCATTT
1 AGCCCATCGGGCCCATTT
30440861 AGCCCATCCGGGCC
1 AGCCCAT-CGGGCC
30440875 ATATGGCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (18 bp):
AGCCCATCGGGCCCATTT
Found at i:30442148 original size:16 final size:16
Alignment explanation
Indices: 30442124--30442157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30442114 CTAAGAAAAC
*
30442124 TTAGATTTCGGGATTT
1 TTAGATTTCAGGATTT
*
30442140 TTAGGTTTCAGGATTT
1 TTAGATTTCAGGATTT
30442156 TT
1 TT
30442158 TTGGGGCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.53
Consensus pattern (16 bp):
TTAGATTTCAGGATTT
Found at i:30447215 original size:23 final size:23
Alignment explanation
Indices: 30447189--30447328 Score: 88
Period size: 23 Copynumber: 6.0 Consensus size: 23
30447179 TTTCTAGTCA
*
30447189 TGAT-CAGTAAGCTCCTCTTGAGC
1 TGATACAGTAAGCT-CTATTGAGC
30447212 TGATGAACAGTAAGCTCTATTGAGC
1 TGAT--ACAGTAAGCTCTATTGAGC
* * ** *
30447237 TAAAATGGTAAGCTCTATTTAGC
1 TGATACAGTAAGCTCTATTGAGC
* ** * *
30447260 TGAAATGGTAAGCGCTATCGAGC
1 TGATACAGTAAGCTCTATTGAGC
*
30447283 TGA-ACAGTAAGCTC-ATACGAGC
1 TGATACAGTAAGCTCTAT-TGAGC
* * *
30447305 TGAAACAGTAAGCTCCAATGAGC
1 TGATACAGTAAGCTCTATTGAGC
30447328 T
1 T
30447329 AAAAATAGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
21 2 0.02
22 16 0.17
23 58 0.60
24 1 0.01
25 10 0.10
26 9 0.09
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
TGATACAGTAAGCTCTATTGAGC
Found at i:30447350 original size:23 final size:24
Alignment explanation
Indices: 30447285--30447353 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
30447275 TATCGAGCTG
*
30447285 AACAGTAAGCTCATACGAGCT-GA
1 AACAGTAAGCTCATACGAGCTAAA
*
30447308 AACAGTAAGCTCCA-ATGAGCTAAA
1 AACAGTAAGCT-CATACGAGCTAAA
* *
30447332 AATAGTAAGCTCTTA-GAGCTAA
1 AACAGTAAGCTCATACGAGCTAA
30447354 TATATCGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 25 0.64
24 14 0.36
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (24 bp):
AACAGTAAGCTCATACGAGCTAAA
Done.