Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 78 of 228
Found at i:23191360 original size:11 final size:11
Alignment explanation
Indices: 23191346--23191379 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
23191336 CTTCCCCCTC
23191346 CCTTCTCTCTT
1 CCTTCTCTCTT
23191357 CCTTCTCTCTT
1 CCTTCTCTCTT
*
23191368 CCCTCTCTCTT
1 CCTTCTCTCTT
23191379 C
1 C
23191380 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:23191864 original size:6 final size:6
Alignment explanation
Indices: 23191864--23191897 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
23191854 TTATTAGTAT
23191864 TATTAG TATTAG TATTAG TATTATG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
23191898 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:23192356 original size:19 final size:18
Alignment explanation
Indices: 23192312--23192370 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
23192302 ATTATCATTG
23192312 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
23192330 TAGTTATATTTTACACTATTA-
1 TA--TATATTTTA-A-TATTAT
23192351 TATATATTTTCTAATATTAT
1 TATATA-TTT-TAATATTAT
23192371 ATTGTATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
18 2 0.06
19 9 0.26
20 13 0.38
21 5 0.15
22 5 0.15
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:23192371 original size:19 final size:19
Alignment explanation
Indices: 23192312--23192372 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
23192302 ATTATCATTG
23192312 TATATA-TTT-TAATATTA
1 TATATATTTTCTAATATTA
*
23192329 TTAGTTATATTTTAC-ACTATTA
1 -TA--TATATTTT-CTAATATTA
23192351 TATATATTTTCTAATATTA
1 TATATATTTTCTAATATTA
23192370 TAT
1 TAT
23192373 TGTATATACT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
18 3 0.09
19 17 0.49
20 4 0.11
21 5 0.14
22 6 0.17
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATATTTTCTAATATTA
Found at i:23192814 original size:38 final size:37
Alignment explanation
Indices: 23192730--23192824 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
23192720 TATACGTACT
*
23192730 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
23192768 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
23192804 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
23192825 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:23202179 original size:18 final size:18
Alignment explanation
Indices: 23202156--23202190 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23202146 TAAGGCTAAT
23202156 AAAAGAATCTAATCCTGC
1 AAAAGAATCTAATCCTGC
23202174 AAAAGAATCTAATCCTG
1 AAAAGAATCTAATCCTG
23202191 GATTTAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAAGAATCTAATCCTGC
Found at i:23208229 original size:21 final size:21
Alignment explanation
Indices: 23208203--23208243 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23208193 AGACGAGCAA
* *
23208203 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
23208224 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
23208244 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:23210182 original size:16 final size:16
Alignment explanation
Indices: 23210149--23210182 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23210139 GGAGATTGTT
* *
23210149 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
23210165 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
23210181 AA
1 AA
23210183 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:23215726 original size:21 final size:21
Alignment explanation
Indices: 23215700--23215773 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
23215690 GGTTTTAGAG
23215700 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
** *** ***
23215721 TTAGGGTTAGGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
23215742 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
*
23215763 TTTGGGTTTTG
1 TTAGGGTTTTG
23215774 GGTTTTAAGA
Statistics
Matches: 36, Mismatches: 17, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:23215912 original size:35 final size:33
Alignment explanation
Indices: 23215795--23215924 Score: 138
Period size: 34 Copynumber: 3.8 Consensus size: 33
23215785 TTTTAAAAAA
* *
23215795 TAAATTAGGATTTAGTGTTCTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAGTG---TTTTTAAAAAATTAAT
* *
23215831 TAAATTAGGGTTTAAG-GGTTTTAAATAAATAAAT
1 TAAATTAGGGTTT-AGTGTTTTTAAA-AAATTAAT
*
23215865 AAAATTAGGGTTTAGTGTTTTTAAGAAAATTTAAT
1 TAAATTAGGGTTTAGTGTTTTTAA-AAAA-TTAAT
23215900 TAAATTAGGGTTTAGT-TTTTTAAAA
1 TAAATTAGGGTTTAGTGTTTTTAAAA
23215925 TAATATTGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
33 10 0.12
34 36 0.44
35 20 0.25
36 13 0.16
37 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (33 bp):
TAAATTAGGGTTTAGTGTTTTTAAAAAATTAAT
Found at i:23216129 original size:125 final size:126
Alignment explanation
Indices: 23215985--23216248 Score: 347
Period size: 125 Copynumber: 2.1 Consensus size: 126
23215975 GATTTTATTT
* * *
23215985 TTTTTTCTACAGTAATTCCT-AAAATATAATTTTGAGAATACGGCTCTGAACAAATAGTGTGAAA
1 TTTTTTCTACAGTAATTCCTGAAAA-ATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAA
* * *
23216049 AACACTTCAAACAGGATGCACTGTCAGCAAAATT-ATTGAAAAAAGCTCCCACATTGACTCTC
65 AACACTTCAAACAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACATCGACGCTC
** **
23216111 TTTTTT-TACAGTTGTTCCTGAAAAATAATTTTGAGAAGACGTTTCCGAACAAATAGTGTCAAAA
1 TTTTTTCTACAGTAATTCCTGAAAAATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAA
** * *
23216175 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTCGACGCTC
66 ACACTTCAAACAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACATCGACGCTC
*
23216236 -TTTTTCTATAGTA
1 TTTTTTCTACAGTA
23216249 GTTCATGTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
124 5 0.04
125 103 0.87
126 11 0.09
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (126 bp):
TTTTTTCTACAGTAATTCCTGAAAAATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAA
ACACTTCAAACAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACATCGACGCTC
Found at i:23219366 original size:24 final size:23
Alignment explanation
Indices: 23219310--23219366 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
23219300 AAGAACTTCT
*
23219310 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
23219333 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
23219358 ATCTTTATT
1 AT-TTTATT
23219367 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 13 0.45
26 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:23220387 original size:7 final size:7
Alignment explanation
Indices: 23220377--23220408 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
23220367 TTATATACAT
23220377 AATACTA
1 AATACTA
23220384 AATACTA
1 AATACTA
23220391 AATACTA
1 AATACTA
23220398 AATACTA
1 AATACTA
23220405 AATA
1 AATA
23220409 TGAAACGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:23223565 original size:43 final size:43
Alignment explanation
Indices: 23223518--23223669 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 43
23223508 TCCCAAACGT
*
23223518 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAG
* * * * *
23223561 GGTCTTACA-CAAATCAAATA-CGATGCCAATGTCCTAGACAT
1 GGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAG
* *
23223602 GGTCTTACACG-TATACACA-ATTCGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACATGAAAT-CACATA-TCGATGCC-ACTGTCCCAGACAG
23223644 TGGTCTTACATGAAAAT-ACATATCGA
1 -GGTCTTACATG-AAATCACATATCGA
23223670 AATTGTAACA
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
41 30 0.35
42 11 0.13
43 41 0.48
44 2 0.02
45 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:23223600 original size:41 final size:41
Alignment explanation
Indices: 23223499--23223653 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 41
23223489 GGCTCGTACA
* * ** *
23223499 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACA-CAAATCAAATA-CG
*
23223542 ATGCCACTGTCCCAGACAGGGTCTTACACAAATCAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATACG
* * ** *
23223583 ATGCCAATGTCCTAGACATGGTCTTACACGTATACACAATTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAAT-CA-AATACG
*
23223626 ATGCCAACGTCCCAGAC-GTGGTCTTACA
1 ATGCCAATGTCCCAGACAG-GGTCTTACA
23223654 TGAAAATACA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 30 0.32
42 10 0.11
43 52 0.56
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATACG
Found at i:23223640 original size:84 final size:84
Alignment explanation
Indices: 23223499--23223653 Score: 201
Period size: 84 Copynumber: 1.8 Consensus size: 84
23223489 GGCTCGTACA
* *
23223499 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGAC-GTGG
23223563 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
* * *
23223583 ATGCCAATGTCCTAGACATGGTCTTACACGT-ATACACA-ATTCGATGCCAAC-GTCCCAGACGT
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAT-CACATA-TCGATGCC-ACTGTCCCAGACGT
23223645 GGTCTTACA
63 GGTCTTACA
23223654 TGAAAATACA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
83 4 0.06
84 56 0.90
85 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACAAATCAAATACG
Found at i:23225058 original size:40 final size:40
Alignment explanation
Indices: 23225021--23225205 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
23225011 GCTACTCGTT
*
23225021 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
23225061 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
23225101 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23225140 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23225181 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23225206 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23225165 original size:79 final size:81
Alignment explanation
Indices: 23225021--23225203 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
23225011 GCTACTCGTT
* ** *
23225021 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
23225086 ATTTAGTAAC-TCGCG
66 ATATAGTAACTTAGCA
* **
23225101 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
23225163 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
23225181 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
23225204 GACATCATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 53 0.61
80 31 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:23228545 original size:21 final size:21
Alignment explanation
Indices: 23228519--23228562 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
23228509 AAATAATTAA
* *
23228519 TTAAAGAGAACTTTGAGATAT
1 TTAAAGAGAAATTTGAGAGAT
23228540 TTAAAGAGAAATTTGAGAGAT
1 TTAAAGAGAAATTTGAGAGAT
23228561 TT
1 TT
23228563 GATAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAGAT
Found at i:23228564 original size:30 final size:30
Alignment explanation
Indices: 23228530--23228588 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
23228520 TAAAGAGAAC
*
23228530 TTTGAGATATTTAAAGAGAAATTTGAGAGA
1 TTTGAGAAATTTAAAGAGAAATTTGAGAGA
* *
23228560 TTTGATAAATTTAAGGAGAAATTTGAGAG
1 TTTGAGAAATTTAAAGAGAAATTTGAGAG
23228589 TTTTTTGGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (30 bp):
TTTGAGAAATTTAAAGAGAAATTTGAGAGA
Found at i:23229455 original size:20 final size:19
Alignment explanation
Indices: 23229432--23229490 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
23229422 ACTAAAATTG
23229432 ATTAAAGTTAGATTAAGTTA
1 ATTAAA-TTAGATTAAGTTA
* *
23229452 ATTAAATCATGATTATGTTA
1 ATTAAATTA-GATTAAGTTA
*
23229472 ATTAAATTAGTTTAA-TTA
1 ATTAAATTAGATTAAGTTA
23229490 A
1 A
23229491 ACTTTAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 23 0.70
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTAAATTAGATTAAGTTA
Found at i:23230160 original size:17 final size:17
Alignment explanation
Indices: 23230138--23230170 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23230128 AATTAATCGG
23230138 GAAAAAACTAAAATTGC
1 GAAAAAACTAAAATTGC
23230155 GAAAAAACTAAAATTG
1 GAAAAAACTAAAATTG
23230171 TGAATTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
GAAAAAACTAAAATTGC
Found at i:23234097 original size:12 final size:13
Alignment explanation
Indices: 23234052--23234098 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
23234042 GAATTTCAAA
23234052 TAATATTATTAATT
1 TAATATTA-TAATT
*
23234066 TAATATATACAATCT
1 TAATAT-TATAAT-T
23234081 TAATATTA-AATT
1 TAATATTATAATT
23234093 TAATAT
1 TAATAT
23234099 GTATTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 11 0.37
15 9 0.30
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATATTATAATT
Found at i:23235122 original size:5 final size:5
Alignment explanation
Indices: 23235112--23235145 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
23235102 ACAATTTCAC
* *
23235112 TCGAT TCGAT TCGAT TCGAT TCGAC TCGAC TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
23235146 ATTTCATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (5 bp):
TCGAT
Found at i:23235398 original size:28 final size:28
Alignment explanation
Indices: 23235367--23235436 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
23235357 AAAAATAAAA
23235367 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
* *
23235395 ATTTACGAAAATATTACAATTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
23235423 ATTTACCAAAATAT
1 ATTTACCAAAATAT
23235437 ATCAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:23235546 original size:27 final size:28
Alignment explanation
Indices: 23235507--23235582 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
23235497 TACTAGTCAC
*
23235507 GCCAATGGAATTGGCGGCACCAAAT-GT
1 GCCAATGCAATTGGCGGCACCAAATGGT
*
23235534 GCCAATGCCATTGGCGGCACC-AATGGT
1 GCCAATGCAATTGGCGGCACCAAATGGT
*
23235561 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
23235583 CTCGTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.14
27 36 0.86
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (28 bp):
GCCAATGCAATTGGCGGCACCAAATGGT
Found at i:23235751 original size:19 final size:21
Alignment explanation
Indices: 23235713--23235751 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
23235703 AATAATTGAT
*
23235713 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
23235734 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
23235752 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:23235805 original size:3 final size:3
Alignment explanation
Indices: 23235797--23235821 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23235787 AAAATAAAAG
23235797 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
23235822 GTTGTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23235826 original size:3 final size:3
Alignment explanation
Indices: 23235820--23235860 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
23235810 ATTATTATTA
23235820 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
23235861 AGTATGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:23236117 original size:12 final size:12
Alignment explanation
Indices: 23236100--23236130 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23236090 ATAATTTTAG
23236100 TGTGTATTATTT
1 TGTGTATTATTT
23236112 TGTGTATTATTT
1 TGTGTATTATTT
*
23236124 TGAGTAT
1 TGTGTAT
23236131 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:23236724 original size:18 final size:18
Alignment explanation
Indices: 23236681--23236725 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
23236671 TTGACATGGT
*
23236681 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
23236699 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
23236717 TGGTGGCGA
1 TGGTGGCGA
23236726 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:23242482 original size:34 final size:36
Alignment explanation
Indices: 23242444--23242578 Score: 116
Period size: 37 Copynumber: 3.6 Consensus size: 36
23242434 TTTTTTTTCC
23242444 TTCCTTCCCTCTTCTTC-TTCTTT-TTTTTTCTCTT
1 TTCCTTCCCTCTTCTTCTTTCTTTCTTTTTTCTCTT
23242478 TTCCTTTCCCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCT
1 TTCC-TTCCC--TC-TT-CTTCTTTCTTTCTTTTTTC-TCT-T
*
23242521 TCTCCTT--TTCTTCTTCTTTCTTTCCTTTTTTCTCTT
1 T-TCCTTCCCTCTTCTTCTTTCTTT-CTTTTTTCTCTT
* * *
23242557 CTCCTTTCCTTTTCTTTCTTTC
1 TTCCTTCCCTCTTC-TTCTTTC
23242579 CTCTCCTTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
34 4 0.05
35 10 0.12
36 1 0.01
37 20 0.24
38 19 0.23
39 6 0.07
40 6 0.07
41 7 0.08
42 3 0.04
43 4 0.05
44 3 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (36 bp):
TTCCTTCCCTCTTCTTCTTTCTTTCTTTTTTCTCTT
Found at i:23242498 original size:49 final size:44
Alignment explanation
Indices: 23242444--23242617 Score: 128
Period size: 44 Copynumber: 3.9 Consensus size: 44
23242434 TTTTTTTTCC
* * *
23242444 TTCCTTCCCTC-TTCTTCTTCTTTTTTTTTCTCTTTTCCTTTCCCT
1 TTCCTTCCTTCTTTC-T-TTCTTTTTTCTTCTCTTCTCCTTTCCCT
* *
23242489 TTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-TC-
1 TTCCTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTCCCT
* * * *
23242531 TT-CTTCTTTCTTTCCTT-TTTTCTCTTCTCCTT-TCCTTTTCTTTCT
1 TTCCTTCCTTCTTTCTTTCTTTTTTCTTCT-CTTCTCC-TTTC--CCT
*
23242576 TTCCTCTCCTTTCTTTCTTTCTTTCTTTCTT-TCCTCTCCTTT
1 TTCCT-TCC-TTCTTTCTTTCTTT-TTTCTTCTCTTCTCCTTT
23242618 GTTTCTTTCT
Statistics
Matches: 103, Mismatches: 13, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
40 13 0.13
41 18 0.17
42 2 0.02
43 1 0.01
44 24 0.23
45 12 0.12
46 5 0.05
47 2 0.02
48 14 0.14
49 7 0.07
50 5 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (44 bp):
TTCCTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTCCCT
Found at i:23242504 original size:4 final size:4
Alignment explanation
Indices: 23242487--23242630 Score: 100
Period size: 4 Copynumber: 34.2 Consensus size: 4
23242477 TTTCCTTTCC
*
23242487 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
*
23242533 C-TT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTTT CTTT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT
* * *
23242578 CCTCTC CTTT CTTT CTTT CTTT CTTT CTTT CCTCTC CTTT GTTT CTTT
1 -CT-TT CTTT CTTT CTTT CTTT CTTT CTTT -CT-TT CTTT CTTT CTTT
23242626 CTTT C
1 CTTT C
23242631 CCTCCTTCTG
Statistics
Matches: 114, Mismatches: 10, Indels: 32
0.73 0.06 0.21
Matches are distributed among these distances:
3 12 0.11
4 70 0.61
5 24 0.21
6 8 0.07
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:23242510 original size:26 final size:26
Alignment explanation
Indices: 23242481--23242627 Score: 95
Period size: 30 Copynumber: 5.2 Consensus size: 26
23242471 TTCTCTTTTC
*
23242481 CTTTCCCTTTCTTTCCTTCTTTCTTT
1 CTTTCTCTTTCTTTCCTTCTTTCTTT
*
23242507 CTTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTT
1 C-TTTCTCTT-TCTT-TCC--TTC-T-TTCTTT
*
23242540 CTTTC-CTTT-TTTCTCTTC-TCCTTT
1 CTTTCTCTTTCTTTC-CTTCTTTCTTT
23242564 CCTTT-TCTTTCTTTCCTCTCCTTTCTTT
1 -CTTTCTCTTTCTTTCCT-T-CTTTCTTT
*
23242592 CTTTCTTTCTTTCTTTCCTCTCCTTTGTTT
1 CTTTC--TCTTTCTTTCCT-T-CTTTCTTT
23242622 CTTTCT
1 CTTTCT
23242628 TTCCCTCCTT
Statistics
Matches: 98, Mismatches: 6, Indels: 32
0.72 0.04 0.24
Matches are distributed among these distances:
24 5 0.05
25 10 0.10
26 6 0.06
27 14 0.14
28 12 0.12
29 6 0.06
30 28 0.29
31 6 0.06
32 4 0.04
33 7 0.07
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.67
Consensus pattern (26 bp):
CTTTCTCTTTCTTTCCTTCTTTCTTT
Found at i:23242554 original size:30 final size:30
Alignment explanation
Indices: 23242501--23242630 Score: 121
Period size: 30 Copynumber: 4.4 Consensus size: 30
23242491 CTTTCCTTCT
*
23242501 TTCTTTCTTT-TTTCTTCTCTTCTCCTTTTC
1 TTCTTTCTTTCTTTCTT-TCCTCTCCTTTTC
* *
23242531 TTC-TTCTTTCTTTCCTTT--T-TTCTCTTC
1 TTCTTTCTTTCTTT-CTTTCCTCTCCTTTTC
*
23242558 TCCTTTCCTTTTCTTTCTTTCCTCTCC-TTTC
1 TTCTTT-C-TTTCTTTCTTTCCTCTCCTTTTC
23242589 TTTCTTTCTTTCTTTCTTTCCTCTCCTTTGT-
1 -TTCTTTCTTTCTTTCTTTCCTCTCCTTT-TC
23242620 TTCTTTCTTTC
1 TTCTTTCTTTC
23242631 CCTCCTTCTG
Statistics
Matches: 83, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
27 8 0.10
28 3 0.04
29 11 0.13
30 43 0.52
31 10 0.12
32 8 0.10
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.68
Consensus pattern (30 bp):
TTCTTTCTTTCTTTCTTTCCTCTCCTTTTC
Found at i:23242562 original size:79 final size:78
Alignment explanation
Indices: 23242453--23242610 Score: 207
Period size: 79 Copynumber: 2.0 Consensus size: 78
23242443 CTTCCTTCCC
*
23242453 TCTTCTTCTTCTTTTTTTTTCTCTTTTCCTTTCC-CTTTCTTTCCT-T-CTTTCTTTCTTT-TTT
1 TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTCTTTCTTTCCTCTCCTTTCTTTCTTTCTTT
23242514 CTTCTCTTCTCCTTT
66 CTT-TCTT-TCCTTT
23242529 TCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCCTCTCCTTTCTTTCT
1 TCTTCTTC-TTCTTT--TTTTTTCTCTTCTCCTTTCC---TCTTTCTTTCCTCTCCTTTCTTTCT
23242594 TTCTTTCTTTCTTTCCT
60 TTCTTTCTTTCTTTCCT
23242611 CTCCTTTGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
76 8 0.11
77 6 0.08
79 19 0.27
83 11 0.15
84 5 0.07
85 16 0.23
86 6 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (78 bp):
TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTCTTTCTTTCCTCTCCTTTCTTTCTTTCTTT
CTTTCTTTCCTTT
Found at i:23242579 original size:34 final size:36
Alignment explanation
Indices: 23242486--23242610 Score: 131
Period size: 35 Copynumber: 3.6 Consensus size: 36
23242476 TTTTCCTTTC
* *
23242486 CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCT
1 CCTTTCCTT-CTTCTTTCTTTC-CTTTTCTTCTCTTCT
*
23242524 CCTTTTCTTCTTCTTTCTTTCCTTTT-TTCTCTTCT
1 CCTTTCCTTCTTCTTTCTTTCCTTTTCTTCTCTTCT
* *
23242559 CCTTTCCTT-TTCTTTCTTTCCTCTCCTT-TCTT-T
1 CCTTTCCTTCTTCTTTCTTTCCTTTTCTTCTCTTCT
23242592 -CTTT-C-T-TTCTTTCTTTCCT
1 CCTTTCCTTCTTCTTTCTTTCCT
23242611 CTCCTTTGTT
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
30 14 0.17
31 1 0.01
32 4 0.05
33 1 0.01
34 18 0.22
35 19 0.24
36 4 0.05
37 12 0.15
38 7 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (36 bp):
CCTTTCCTTCTTCTTTCTTTCCTTTTCTTCTCTTCT
Found at i:23242628 original size:26 final size:25
Alignment explanation
Indices: 23242486--23242638 Score: 111
Period size: 26 Copynumber: 6.0 Consensus size: 25
23242476 TTTTCCTTTC
* *
23242486 CCTTTCTTTCCTTCTTTCT-TTCTT
1 CCTTTCTTTCTTTCTTTCTCTCCTT
* *
23242510 -TTTTCTTCTCTTCTCCTTT-TCTTCTT
1 CCTTTCTT-TCTT-T-CTTTCTCTCCTT
*
23242536 -CTTTCTTTCCTTT-TTTCTCTTC-T
1 CCTTTCTTT-CTTTCTTTCTCTCCTT
23242559 CCTTTCCTTTTCTTTCTTTCCTCTCCTT
1 CCTTT-C-TTTCTTTCTTT-CTCTCCTT
* *
23242587 TCTTTCTTTCTTTCTTTCTTTCCTCT
1 CCTTTCTTTCTTTCTTTCTCTCCT-T
* *
23242613 CCTTTGTTTCTTTCTTTCCCTCCTT
1 CCTTTCTTTCTTTCTTTCTCTCCTT
23242638 C
1 C
23242639 TGCCCCCACC
Statistics
Matches: 106, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
23 10 0.09
24 12 0.11
25 17 0.16
26 56 0.53
27 6 0.06
28 5 0.05
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (25 bp):
CCTTTCTTTCTTTCTTTCTCTCCTT
Found at i:23242710 original size:27 final size:27
Alignment explanation
Indices: 23242672--23242747 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
23242662 TAATACTAAC
23242672 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
23242699 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
23242726 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
23242748 GTGACCAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:23242845 original size:27 final size:28
Alignment explanation
Indices: 23242814--23242888 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
23242804 TTTTGGTTTT
23242814 TTTATATATTTTGGTAAAT-AAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
23242841 TTTATATATTTTGGTAAATAAAAAAAAAG
1 TTTATATATTTTGGTAAAT-AAAAAAAAG
*
23242870 TTGTA-ATATTTTGATAAAT
1 TT-TATATATTTTGGTAAAT
23242889 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 19 0.43
29 23 0.52
30 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:23244819 original size:10 final size:11
Alignment explanation
Indices: 23244793--23244818 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23244783 TTTAAAAATA
23244793 AAAAATATTTT
1 AAAAATATTTT
23244804 AAAAATATTTT
1 AAAAATATTTT
23244815 AAAA
1 AAAA
23244819 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:23250864 original size:18 final size:20
Alignment explanation
Indices: 23250827--23250869 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
23250817 ACTACTTCCA
*
23250827 ATTAATTAGTTCATTCTTCT
1 ATTAGTTAGTTCATTCTTCT
23250847 ATTAGTTAGTT-A-TCTTCT
1 ATTAGTTAGTTCATTCTTCT
23250865 ATTAG
1 ATTAG
23250870 GTAGCTACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 1 0.05
20 10 0.45
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTAGTTAGTTCATTCTTCT
Found at i:23257500 original size:20 final size:20
Alignment explanation
Indices: 23257463--23257502 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23257453 CGTAAAATGA
* *
23257463 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAACGATTTACT
*
23257483 TTTCTGTAAAACGATTTACT
1 TTTCTGGAAAACGATTTACT
23257503 GGAAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAACGATTTACT
Found at i:23258157 original size:18 final size:18
Alignment explanation
Indices: 23258136--23258174 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
23258126 GTTGTATCTT
23258136 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
23258154 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
23258172 TAA
1 TAA
23258175 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:23258838 original size:14 final size:13
Alignment explanation
Indices: 23258809--23258835 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23258799 AGAAGGTAAG
23258809 ACAGATACTTAAA
1 ACAGATACTTAAA
23258822 ACAGATACTTAAA
1 ACAGATACTTAAA
23258835 A
1 A
23258836 ACATGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:23259855 original size:12 final size:12
Alignment explanation
Indices: 23259838--23259894 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
23259828 AAACCAAATC
23259838 AAGGGAGAACGA
1 AAGGGAGAACGA
23259850 AAGGGAGAACGA
1 AAGGGAGAACGA
*
23259862 AA--AAG-A-G-
1 AAGGGAGAACGA
23259869 AAGGGAGAACGA
1 AAGGGAGAACGA
*
23259881 ACGGGAGAACGA
1 AAGGGAGAACGA
23259893 AA
1 AA
23259895 CCAGATCGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.06
8 1 0.03
9 3 0.08
10 3 0.08
11 1 0.03
12 26 0.72
ACGTcount: A:0.53, C:0.09, G:0.39, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:23260578 original size:59 final size:61
Alignment explanation
Indices: 23260507--23260623 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 61
23260497 ATCAATTTAA
* *
23260507 TATTAAATTAATATAATATTTA-T-CAAGATAAATATT-AGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAATATTGA-ATTAAATTTAATATTAAATCT
23260566 TATTAAAATAATAGAATATTTATCTACAAGATAAATATTGAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAATATTGAATTAAATTTAATATTAA
23260624 GAAAATTACT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
59 20 0.38
61 1 0.02
62 30 0.58
63 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAATATTGAATTAAATTTAATATTAAATCT
Found at i:23273340 original size:17 final size:17
Alignment explanation
Indices: 23273314--23273457 Score: 123
Period size: 17 Copynumber: 8.4 Consensus size: 17
23273304 CGATATTTTT
23273314 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
23273332 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
23273349 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
23273367 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
23273385 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
23273402 TTTTTGAAACAC-AGAAA
1 TTTTTAAAACACGA-AAA
*
23273419 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
23273435 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
23273452 TTTTTA
1 TTTTTA
23273458 GAAGACACTA
Statistics
Matches: 102, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
16 15 0.15
17 57 0.56
18 30 0.29
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:23273360 original size:35 final size:35
Alignment explanation
Indices: 23273314--23273476 Score: 179
Period size: 35 Copynumber: 4.7 Consensus size: 35
23273304 CGATATTTTT
** *
23273314 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
* ** *
23273349 TTTTTGAAAACAAGAGGATTTTTGAAATAC-GAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAG-AAA
*
23273384 ATTTTGAAAACACGAAAATTTTTGAAACACAGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
*
23273419 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
* * *
23273452 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
23273477 GAAAATGGAT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
33 28 0.26
34 5 0.05
35 62 0.58
36 12 0.11
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
Found at i:23273693 original size:20 final size:19
Alignment explanation
Indices: 23273655--23273701 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
23273645 AATATATTTT
23273655 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
23273675 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
23273694 -TTTTGAAA
1 TTTTTGAAA
23273702 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:23274078 original size:10 final size:9
Alignment explanation
Indices: 23274063--23274133 Score: 69
Period size: 10 Copynumber: 8.0 Consensus size: 9
23274053 AATTGAACCC
23274063 CCTTTTTCTT
1 CCTTTTT-TT
23274073 CCTTTTTTT
1 CCTTTTTTT
*
23274082 CTTTTTTTT
1 CCTTTTTTT
23274091 CC-TTTTTT
1 CCTTTTTTT
23274099 -C-TTTTTT
1 CCTTTTTTT
23274106 -CTTTTTTCT
1 CCTTTTTT-T
*
23274115 TCTTTTTCTT
1 CCTTTTT-TT
23274125 CCTTTTTTT
1 CCTTTTTTT
23274134 TCTGCTGGGC
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
7 8 0.15
8 11 0.20
9 14 0.26
10 20 0.37
11 1 0.02
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
CCTTTTTTT
Found at i:23274087 original size:9 final size:9
Alignment explanation
Indices: 23274064--23274136 Score: 71
Period size: 9 Copynumber: 8.2 Consensus size: 9
23274054 ATTGAACCCC
*
23274064 CTTTTTCTT
1 CTTTTTTTT
*
23274073 CCTTTTTTT
1 CTTTTTTTT
23274082 CTTTTTTTT
1 CTTTTTTTT
*
23274091 C-CTTTTTT
1 CTTTTTTTT
23274099 C--TTTTTT
1 CTTTTTTTT
23274106 CTTTTTTCTT
1 CTTTTTT-TT
*
23274116 CTTTTTCTTC
1 CTTTTT-TTT
23274126 CTTTTTTTT
1 CTTTTTTTT
23274135 CT
1 CT
23274137 GCTGGGCTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 7 0.13
8 7 0.13
9 24 0.44
10 15 0.28
11 1 0.02
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:23274088 original size:7 final size:7
Alignment explanation
Indices: 23274085--23274120 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
23274075 TTTTTTTCTT
23274085 TTTTTTCC
1 TTTTTT-C
23274093 TTTTTTC
1 TTTTTTC
23274100 TTTTTTC
1 TTTTTTC
23274107 TTTTTTC
1 TTTTTTC
23274114 TTCTTTT
1 TT-TTTT
23274121 TCTTCCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 17 0.63
8 10 0.37
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:23274109 original size:14 final size:15
Alignment explanation
Indices: 23274066--23274120 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 15
23274056 TGAACCCCCT
23274066 TTTTCTTCCTTTTTTTC
1 TTTT-TTCC-TTTTTTC
23274083 TTTTTTTTCCTTTTTTC
1 --TTTTTTCCTTTTTTC
23274100 TTTTTT-CTTTTTTC
1 TTTTTTCCTTTTTTC
23274114 TTCTTTT
1 TT-TTTT
23274121 TCTTCCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.29
15 10 0.29
17 7 0.20
18 4 0.11
19 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCCTTTTTTC
Found at i:23274414 original size:3 final size:3
Alignment explanation
Indices: 23274408--23274466 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
23274398 TTCTTTTTTT
23274408 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
23274455 TTC TTC TTC TTC
1 TTC TTC TTC TTC
23274467 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:23274423 original size:10 final size:10
Alignment explanation
Indices: 23274398--23274466 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
23274388 AAAATTTTTT
* *
23274398 TTCTTTTTTT
1 TTCTTCTTTC
23274408 TTCTTCTTTC
1 TTCTTCTTTC
*
23274418 TTCTTCTCTC
1 TTCTTCTTTC
23274428 -T-TTCTTTC
1 TTCTTCTTTC
23274436 TTCTTC-TTC
1 TTCTTCTTTC
*
23274445 TTCTTCCTTC
1 TTCTTCTTTC
23274455 TTCTTC-TTC
1 TTCTTCTTTC
23274464 TTC
1 TTC
23274467 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.12
9 17 0.33
10 29 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:23274454 original size:13 final size:13
Alignment explanation
Indices: 23274408--23274463 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
23274398 TTCTTTTTTT
*
23274408 TTCTTCTTTCTTC
1 TTCTTCCTTCTTC
*
23274421 TTCTCTCTTTC-T-
1 TTCT-TCCTTCTTC
23274433 TTCTT-CTTCTTC
1 TTCTTCCTTCTTC
23274445 TTCTTCCTTCTTC
1 TTCTTCCTTCTTC
23274458 TTCTTC
1 TTCTTC
23274464 TTCAAAACCG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 9 0.24
13 18 0.47
14 6 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCCTTCTTC
Found at i:23274873 original size:30 final size:30
Alignment explanation
Indices: 23274818--23274934 Score: 139
Period size: 30 Copynumber: 3.9 Consensus size: 30
23274808 TGTAATTTTT
* *
23274818 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
23274847 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
23274877 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
23274906 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
23274935 TTATTTTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.14
30 64 0.86
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:23274934 original size:60 final size:59
Alignment explanation
Indices: 23274818--23274934 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 59
23274808 TGTAATTTTT
* * * *
23274818 AGAAAATTTAGGGTTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
23274877 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
23274935 TTATTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 10 0.20
60 40 0.80
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:23274955 original size:14 final size:15
Alignment explanation
Indices: 23274930--23274964 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
23274920 GTCAAAATGC
*
23274930 AATTTTTATTTTTTA
1 AATTTTTATTTTTGA
23274945 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
23274959 AATTTT
1 AATTTT
23274965 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:23277072 original size:2 final size:2
Alignment explanation
Indices: 23277065--23277089 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23277055 TTAGTGAGTA
23277065 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23277090 AAATAAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23278745 original size:16 final size:16
Alignment explanation
Indices: 23278708--23278749 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23278698 TTAATCATAT
*
23278708 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23278724 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23278739 TTAAAATATAT
1 TTAAAATATAT
23278750 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23278756 original size:14 final size:15
Alignment explanation
Indices: 23278717--23278758 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23278707 TTTAAACATA
*
23278717 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23278732 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23278746 A-TATAATTTAATA
1 ATTATAATTAAATA
23278759 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23278808 original size:61 final size:60
Alignment explanation
Indices: 23278743--23279169 Score: 201
Period size: 59 Copynumber: 7.1 Consensus size: 60
23278733 TTATAATTAA
*
23278743 AATATATAATTTAATAAAATTCTTAATAGTCTATATTGTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATA-TCTATATTATTATATGAATTTACTCAAATCAT
* * * * * * * * * *
23278804 AATATATGATACT-ATAAAA-TATAAATTAAC-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TATCTAT-ATTATTATATGAATTTACTCA-AATCAT
* * *
23278863 AATCTATAATTTAATAAAATTCTTAATAGTCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATA-TCTATATTATTATATGAATTTACTCAAATCAT
* * * * * * *
23278924 AATATATGATACTATAA-AAGATAAT-TTAACA--TA-ATTATTAT-TAAATATA-TTATAATTA
1 AATATAT-A-A-TTTAATAA-A-ATTCTTAATATCTATATTATTATATGAATTTACTCA-AATCA
*
23278982 A
60 T
*
23278983 AATATATAATTTAATAAAATTCTTAATAAT-TAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATCT-ATATTATTATATGAATTTACTCAAATCAT
* * * * * * ** * *
23279044 AATATATGATACTATAA-AAGATAAT-TTAACA--TA-ATTATTAT-TAAATATATTTTAATTAA
1 AATATAT-A-A-TTTAATAA-A-ATTCTTAATATCTATATTATTATATGAATTTACTCAAATCAT
* * * *
23279103 AATATATAATTTAATAAATTTC-TAATAATCAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATCTATATTATTATATGAATTTACTCAAATCAT
23279163 AATATAT
1 AATATAT
23279170 GATACTATAA
Statistics
Matches: 263, Mismatches: 67, Indels: 73
0.65 0.17 0.18
Matches are distributed among these distances:
55 6 0.02
56 15 0.06
57 7 0.03
58 9 0.03
59 71 0.27
60 63 0.24
61 54 0.21
62 8 0.03
63 7 0.03
64 19 0.07
65 4 0.02
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATCTATATTATTATATGAATTTACTCAAATCAT
Found at i:23278849 original size:120 final size:120
Alignment explanation
Indices: 23278706--23279242 Score: 907
Period size: 120 Copynumber: 4.5 Consensus size: 120
23278696 ATTTAATCAT
23278706 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * *
23278771 GTCTATATTGTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
23278827 AATTAACATAATTATTATTAAATATATTATAATTAAAATCTATAATTTAATAAAATTCTTAATAG
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
23278892 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
23278947 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
23279012 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
23279067 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAATTTC-TAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
23279131 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
23279186 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
23279243 TAAAATAATT
Statistics
Matches: 398, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 109 0.27
120 286 0.72
121 3 0.01
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:23278987 original size:16 final size:16
Alignment explanation
Indices: 23278944--23278989 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
23278934 ACTATAAAAG
*
23278944 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
23278960 ATTATT-AAATATATT
1 ATAATTAAAATATATT
23278975 ATAATTAAAATATAT
1 ATAATTAAAATATAT
23278990 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:23278996 original size:14 final size:15
Alignment explanation
Indices: 23278944--23278998 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
23278934 ACTATAAAAG
23278944 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
23278960 ATTATTAAATATATT
1 ATAATTAAATATATT
23278975 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
23278988 ATAATTTAATA
1 ATAATTAAATA
23278999 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:23281649 original size:38 final size:38
Alignment explanation
Indices: 23281606--23281680 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
23281596 GGCAGAAACT
*
23281606 GAGCAAATCGACAGAAAAGAAAGGAAAAGAAACAGAGG
1 GAGCAAATCGACAGAAAAGAAAAGAAAAGAAACAGAGG
* *
23281644 GAGCAAATCGGCAGAAAAGAAAAGAAAATAAACAGAG
1 GAGCAAATCGACAGAAAAGAAAAGAAAAGAAACAGAG
23281681 TAACAAAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.59, C:0.11, G:0.27, T:0.04
Consensus pattern (38 bp):
GAGCAAATCGACAGAAAAGAAAAGAAAAGAAACAGAGG
Found at i:23285605 original size:36 final size:36
Alignment explanation
Indices: 23285557--23285664 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
23285547 TTGCTATTAT
* * *
23285557 AACATTCAATAAATCCGGAGTTTGAATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
23285593 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
*
23285629 AACATTCCATAAATCTGGCGTTTGCATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
23285665 TACAATCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32
Consensus pattern (36 bp):
AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
Found at i:23288187 original size:3 final size:3
Alignment explanation
Indices: 23288179--23288208 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23288169 TTTAAAAATA
23288179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23288209 GGGAAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23288495 original size:3 final size:3
Alignment explanation
Indices: 23288487--23288521 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23288477 GAACGATGAC
23288487 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23288522 CTCCATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23304896 original size:18 final size:17
Alignment explanation
Indices: 23304868--23304915 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
23304858 TTACCAACTT
*
23304868 TTTATATATTTTTTATTA
1 TTTA-ATATTTTTTATAA
23304886 TTTGAATA-TTTTTATAA
1 TTT-AATATTTTTTATAA
*
23304903 TTTAAAATTTTTT
1 TTTAATATTTTTT
23304916 GTTGAGGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.12
17 16 0.62
18 6 0.23
19 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTAATATTTTTTATAA
Found at i:23310136 original size:22 final size:20
Alignment explanation
Indices: 23310090--23310139 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
23310080 CATGTTACTT
*
23310090 ATAATATTTATTATTTTATA
1 ATAATATTTATTATTTTAAA
23310110 A-AATATTTATTATCTTGTAAA
1 ATAATATTTATTAT-TT-TAAA
23310131 ATAATATTT
1 ATAATATTT
23310140 TTGATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 12 0.46
20 3 0.12
21 4 0.15
22 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATAATATTTATTATTTTAAA
Found at i:23319286 original size:16 final size:16
Alignment explanation
Indices: 23319261--23319291 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23319251 GGTAGGAAAT
*
23319261 TTGTATTATGTATCTG
1 TTGTAATATGTATCTG
23319277 TTGTAATATGTATCT
1 TTGTAATATGTATCT
23319292 ATAACTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (16 bp):
TTGTAATATGTATCTG
Found at i:23322832 original size:56 final size:58
Alignment explanation
Indices: 23322743--23322869 Score: 149
Period size: 56 Copynumber: 2.2 Consensus size: 58
23322733 TTTTATAATC
* *
23322743 ATAT-TTTAATAA-TATTATGTAAGAATGTTATT-AATTCATATA-TTATTTTA-TAAA
1 ATATATTTAATAATTATTATGTAAGAATATGATTAAATT-ATATATTTATTTTATTAAA
* *
23322797 TTGTATTTAATAATTATTATGTTAA-AATATGATTAAATTATATATTTTATTTTATTAAA
1 ATATATTTAATAATTATTATG-TAAGAATATGATTAAATTATATA-TTTATTTTATTAAA
23322856 ATATATTTAATAAT
1 ATATATTTAATAAT
23322870 AATCTTATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
54 2 0.03
55 8 0.13
56 19 0.32
57 7 0.12
58 8 0.13
59 16 0.27
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (58 bp):
ATATATTTAATAATTATTATGTAAGAATATGATTAAATTATATATTTATTTTATTAAA
Found at i:23325930 original size:3 final size:3
Alignment explanation
Indices: 23325919--23325949 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
23325909 CTCTATAATA
23325919 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
23325950 TTGATCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23344315 original size:20 final size:21
Alignment explanation
Indices: 23344284--23344332 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
23344274 CATGTTACTT
*
23344284 ATAATA-TTATTATTTTATAA
1 ATAATATTTATTATCTTATAA
*
23344304 A-AATATTTATTATCTTGTAA
1 ATAATATTTATTATCTTATAA
23344324 ATAATATTT
1 ATAATATTT
23344333 TTTGATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 14 0.56
21 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATATTTATTATCTTATAA
Found at i:23345333 original size:14 final size:15
Alignment explanation
Indices: 23345309--23345337 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23345299 CATTCTTTCC
23345309 TTTCTTTTTTTTTTT
1 TTTCTTTTTTTTTTT
23345324 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
23345338 CCTTCTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTCTTTTTTTTTTT
Found at i:23345343 original size:15 final size:15
Alignment explanation
Indices: 23345304--23345345 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
23345294 TCTTCCATTC
23345304 TTTCCTTTCTTTTTTT
1 TTTCC-TTCTTTTTTT
**
23345320 TTTTTTTCTTTTTTT
1 TTTCCTTCTTTTTTT
23345335 TTTCCTTCTTT
1 TTTCCTTCTTT
23345346 CGTTTGATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCCTTCTTTTTTT
Found at i:23353434 original size:16 final size:16
Alignment explanation
Indices: 23353409--23353439 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23353399 GGTAGGAAAT
*
23353409 TTGTATTATGTATCTG
1 TTGTAATATGTATCTG
23353425 TTGTAATATGTATCT
1 TTGTAATATGTATCT
23353440 ATAACTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (16 bp):
TTGTAATATGTATCTG
Found at i:23356995 original size:58 final size:59
Alignment explanation
Indices: 23356898--23357059 Score: 161
Period size: 61 Copynumber: 2.7 Consensus size: 59
23356888 TTTTTATAAT
* * * *
23356898 ATTATATATTATGACTTTTATT-AATTCATATTTTAATAATAATTATGTTAAGAATGTTATT-A
1 ATTATATATT-T-ATTTTTATTAAAAT-ATA-TTTAATAATAATTATGTTAA-AATATGATTAA
* * *
23356960 ATTCATATA-TTA-TTTTATTAAATTGTATTTAATAATTATTATGTTAAAATATGATTAA
1 ATT-ATATATTTATTTTTATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
23357018 ATTATATATTTTTATTTTTATTAAAATATATTTAATAATAAT
1 ATTATATA--TTTATTTTTATTAAAATATATTTAATAATAAT
23357060 CTTATTAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
57 12 0.14
58 23 0.27
59 9 0.10
60 8 0.09
61 25 0.29
62 4 0.05
63 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTATATATTTATTTTTATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
Found at i:23360490 original size:3 final size:3
Alignment explanation
Indices: 23360479--23360509 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
23360469 CTCTATAATA
23360479 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
23360510 TTGATCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23377507 original size:22 final size:21
Alignment explanation
Indices: 23377457--23377507 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
23377447 CATGTTACTT
23377457 ATAATATTTATTATTTTATAA
1 ATAATATTTATTATTTTATAA
23377478 A-AATATTTATTATCTTGTA-AA
1 ATAATATTTATTAT-TT-TATAA
23377499 ATAATATTT
1 ATAATATTT
23377508 TTTGATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 12 0.44
21 6 0.22
22 9 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATATTTATTATTTTATAA
Found at i:23386680 original size:16 final size:16
Alignment explanation
Indices: 23386655--23386685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23386645 GGTAGGAAAT
*
23386655 TTGTATTATGTATCTG
1 TTGTAATATGTATCTG
23386671 TTGTAATATGTATCT
1 TTGTAATATGTATCT
23386686 ATAACTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (16 bp):
TTGTAATATGTATCTG
Found at i:23390233 original size:58 final size:59
Alignment explanation
Indices: 23390136--23390297 Score: 161
Period size: 61 Copynumber: 2.7 Consensus size: 59
23390126 TTTTTATAAT
* * * *
23390136 ATTATATATTATGACTTTTATT-AATTCATATTTTAATAATAATTATGTTAAGAATGTTATT-A
1 ATTATATATT-T-ATTTTTATTAAAAT-ATA-TTTAATAATAATTATGTTAA-AATATGATTAA
* * *
23390198 ATTCATATA-TTA-TTTTATTAAATTGTATTTAATAATTATTATGTTAAAATATGATTAA
1 ATT-ATATATTTATTTTTATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
23390256 ATTATATATTTTTATTTTTATTAAAATATATTTAATAATAAT
1 ATTATATA--TTTATTTTTATTAAAATATATTTAATAATAAT
23390298 CTTATTAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
57 12 0.14
58 23 0.27
59 9 0.10
60 8 0.09
61 25 0.29
62 4 0.05
63 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTATATATTTATTTTTATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
Found at i:23393729 original size:3 final size:3
Alignment explanation
Indices: 23393718--23393748 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
23393708 CTCTATAATA
23393718 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
23393749 TTGATCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23399139 original size:19 final size:20
Alignment explanation
Indices: 23399095--23399140 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
23399085 GTGTTTATCT
23399095 ATTT-AAAATATAAATATAG
1 ATTTAAAAATATAAATATAG
*
23399114 GTTTAAAAATA-AAATATA-
1 ATTTAAAAATATAAATATAG
23399132 ATTATAAAA
1 ATT-TAAAA
23399141 TAACTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 15 0.65
20 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTTAAAAATATAAATATAG
Found at i:23401600 original size:17 final size:17
Alignment explanation
Indices: 23401578--23401627 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
23401568 CCCAAAGTAA
23401578 TAATAATGTAATATTAG
1 TAATAATGTAATATTAG
*
23401595 TAATAATATAATATTAG
1 TAATAATGTAATATTAG
*
23401612 TAATAACGTAATATTA
1 TAATAATGTAATATTA
23401628 ATAGAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (17 bp):
TAATAATGTAATATTAG
Found at i:23402179 original size:95 final size:90
Alignment explanation
Indices: 23401933--23402328 Score: 595
Period size: 90 Copynumber: 4.4 Consensus size: 90
23401923 CTTCAATTAA
*
23401933 TTAATTTATGCTGTTGTA-TCATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA
1 TTAATTTATGCTATTGTACT-ATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA
23401997 CTGT-GATTTAACAGACTTTTTTTTGT
65 CTGTAG-TTTAACAGACTTTTTTTTGT
23402023 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
* *
23402088 TGCAGTTTAACATAC-TTTTTTTGT
66 TGTAGTTTAACAGACTTTTTTTTGT
23402112 TTAATTTATGCTGTTGTACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
1 TTAATTTATGC-----TA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
* *
23402177 TTAAAC-GATAGCTCAACAGACTTTTTTTTGT
60 TTAAACTG-TAGTTTAACAGACTTTTTTTTGT
*
23402208 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
*
23402273 TGTAG-TTAACATACTTTTTTTTGT
66 TGTAGTTTAACAGACTTTTTTTTGT
**
23402297 TTAATTTATGCTGCTGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
23402329 AATTTTTAAT
Statistics
Matches: 283, Mismatches: 12, Indels: 23
0.89 0.04 0.07
Matches are distributed among these distances:
89 67 0.24
90 127 0.45
91 5 0.02
94 3 0.01
95 61 0.22
96 20 0.07
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (90 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
TGTAGTTTAACAGACTTTTTTTTGT
Found at i:23402239 original size:185 final size:184
Alignment explanation
Indices: 23401953--23402333 Score: 637
Period size: 185 Copynumber: 2.1 Consensus size: 184
23401943 CTGTTGTATC
* *
23401953 ATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGATTTAACAGACTTTTT
1 ATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGACTCAACAGACTTTTT
23402018 TTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTT
66 TTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTT
* *
23402083 TAAACTGCAGTTTAACATAC-TTTTTTTGTTTAATTTATGCTGTTGTACT-TGTACT
131 TAAAATGCAG-TTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTACTAT-TA-T
23402138 ATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC-GAT-AGCTCAACAGACTTT
1 ATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTG-TGA-CTCAACAGACTTT
23402201 TTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAG
64 TTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAG
*
23402266 TTTAAAATGTAGTTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTACTATTAT
129 TTTAAAATGCAGTTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTACTATTAT
23402322 ATTA-ATTAATTT
1 ATTATATTAATTT
23402334 TTAATTTATT
Statistics
Matches: 187, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
183 8 0.04
184 16 0.09
185 162 0.87
186 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (184 bp):
ATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGACTCAACAGACTTTTT
TTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTT
TAAAATGCAGTTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTACTATTAT
Found at i:23416148 original size:63 final size:64
Alignment explanation
Indices: 23416054--23416178 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 64
23416044 CAGAAATGGT
* * * * *
23416054 GAAATGGAGTAATATGGAACATTTGAGAATGATTAAGGTTTTCTCCAAAATGAAAATGAAAATG
1 GAAATGGAGTAATATGAAACATTTGAGAATGAATAAGATTTTCTCCAAAAAGAAAAAGAAAATG
**
23416118 GAAATGGAG-AA-ATGAAATCATTTG-GAAATGAATGTGATTTTCTCCAAAAAGAAAAAGAAAA
1 GAAATGGAGTAATATGAAA-CATTTGAG-AATGAATAAGATTTTCTCCAAAAAGAAAAAGAAAA
23416179 ATAAAAATGA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
62 6 0.12
63 37 0.71
64 9 0.17
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (64 bp):
GAAATGGAGTAATATGAAACATTTGAGAATGAATAAGATTTTCTCCAAAAAGAAAAAGAAAATG
Found at i:23417518 original size:21 final size:20
Alignment explanation
Indices: 23417493--23417536 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
23417483 CCAACGGTGG
23417493 CCAACAGT-GTCTGATGACGGT
1 CCAACAGTGGT-TGATGA-GGT
*
23417514 CCAACATTGGTTGATGAGGT
1 CCAACAGTGGTTGATGAGGT
23417534 CCA
1 CCA
23417537 GTGGCAGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 13 0.62
22 2 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (20 bp):
CCAACAGTGGTTGATGAGGT
Found at i:23418680 original size:38 final size:38
Alignment explanation
Indices: 23418629--23418704 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23418619 AGATTCAAAA
23418629 TATACCTTCACCGATTTGAGTAGAAAATAATCTTTGGC
1 TATACCTTCACCGATTTGAGTAGAAAATAATCTTTGGC
23418667 TATACCTTCACCGATTTGAGTAGAAAATAATCTTTGGC
1 TATACCTTCACCGATTTGAGTAGAAAATAATCTTTGGC
23418705 AATAAGCCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (38 bp):
TATACCTTCACCGATTTGAGTAGAAAATAATCTTTGGC
Found at i:23419965 original size:46 final size:46
Alignment explanation
Indices: 23419907--23420005 Score: 153
Period size: 46 Copynumber: 2.2 Consensus size: 46
23419897 ATAATATCCT
* * *
23419907 ATAATATCCTATTAAGAATAAAATTGCTAAAATATAATATCTAATA
1 ATAATATACTATTAAGAATAAAATTGCTAAAAAATAAAATCTAATA
* *
23419953 ATAATATACTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
1 ATAATATACTATTAAGAATAAAATTGCTAAAAAATAAAATCTAATA
23419999 ATAATAT
1 ATAATAT
23420006 CCTAACACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (46 bp):
ATAATATACTATTAAGAATAAAATTGCTAAAAAATAAAATCTAATA
Found at i:23422673 original size:45 final size:45
Alignment explanation
Indices: 23422624--23422798 Score: 273
Period size: 45 Copynumber: 3.9 Consensus size: 45
23422614 AATCCTGAAG
* *
23422624 TAATGCCAT-AGTATCTTTCAA-CTATGGTCCTTTCCTTTTTGATTA
1 TAATGCCATGA-TATCTTTCAATC-ATGGTCTTTTCCTTTTCGATTA
*
23422669 TAATGCCATGATATCTTTTAATCATGGTCTTTTCCTTTTCGATTA
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
* *
23422714 TAATGTCATGATATCTTTCAATCATGGTATTTTCCTTTTCGATTA
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
23422759 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTC
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTC
23422799 TTAAACAATG
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 118 0.98
46 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (45 bp):
TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
Found at i:23426744 original size:46 final size:46
Alignment explanation
Indices: 23426685--23426787 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
23426675 ATAATATCCT
* * * *
23426685 ATAATATCGTATTATGAATCAAATTGCTAAAAGATAATATCTAATA
1 ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
23426731 ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
1 ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
23426777 ATAATATCCTA
1 ATAATATCCTA
23426788 ACAAAACTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (46 bp):
ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
Found at i:23431490 original size:21 final size:21
Alignment explanation
Indices: 23431429--23431491 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
23431419 AGGAAATGAT
23431429 TAAGACCATAGTTGAAAGACAC
1 TAAGACCATAGTTGAAA-ACAC
* * * * *
23431451 TATGACACCATACTAGAAAAGAG
1 TA--AGACCATAGTTGAAAACAC
23431474 TAAGACCATAGTTGAAAA
1 TAAGACCATAGTTGAAAA
23431492 ATGCTATGGC
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
21 13 0.42
22 2 0.06
23 4 0.13
24 12 0.39
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (21 bp):
TAAGACCATAGTTGAAAACAC
Found at i:23431579 original size:46 final size:46
Alignment explanation
Indices: 23431422--23431639 Score: 194
Period size: 46 Copynumber: 4.8 Consensus size: 46
23431412 GGCTTGAAGG
* * * * *
23431422 AAATGATTAAGACCATAGTTGAAAGACACTATGACACCA-TACTAGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGA-A
* * ** * * *
23431468 AAA-GAGTAAGACCATAGTTGAAAAATGCTATGGCATCTCGA--ATC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGA-A
* * * * *
23431512 AAACGAATAAGACCATAGTTGAAATACACTACT-GCAATACGATGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTA-TGGCAACACGACGAA
*
23431558 AAATGAATACGACCATAGTTGAAAGACACTATGGCAACACGACGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
* *
23431604 AAATGAATAAGACCATGGTTGAAAGATACTATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
23431640 TCAATTCGAG
Statistics
Matches: 138, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
44 4 0.03
45 58 0.42
46 76 0.55
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
Found at i:23431670 original size:137 final size:135
Alignment explanation
Indices: 23431422--23431672 Score: 310
Period size: 137 Copynumber: 1.8 Consensus size: 135
23431412 GGCTTGAAGG
* * * * *
23431422 AAATGATTAAGACCATAGTTGAAAGACACTATGACACCATACTAGAAAAGAGTAAGACCATAGTT
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACAACAGACGAGAAAAGAATAAGACCATAGTT
* *
23431487 GAAAAATGCTATGGCATCTCGAATCAAACGAATAAGACCATAGTTGAAATACACTACTGCAATAC
66 GAAAAATACTATGGCA-CTCGAATCAAACAAATAAGACCATAGTTGAAATACACTACTGCAATAC
23431552 GATGGA
130 GATGGA
* * *
23431558 AAATGAATACGACCATAGTTGAAAGACACTATGGCAACACGACGA-AAAATGAATAAGACCATGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACAACA-GACGAGAAAA-GAATAAGACCATAG
* * *
23431622 TTGAAAGATACTATGGCA-TC-AATTCGAGAATAAATAAGACCATGGTTGAAA
64 TTGAAAAATACTATGGCACTCGAA-TC-A-AACAAATAAGACCATAGTTGAAA
23431673 GGCACCATGG
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
134 2 0.02
135 4 0.04
136 40 0.41
137 51 0.53
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.21
Consensus pattern (135 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGACAACAGACGAGAAAAGAATAAGACCATAGTT
GAAAAATACTATGGCACTCGAATCAAACAAATAAGACCATAGTTGAAATACACTACTGCAATACG
ATGGA
Found at i:23431671 original size:45 final size:46
Alignment explanation
Indices: 23431517--23431682 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 46
23431507 GAATCAAACG
* * * * * * *
23431517 AATAAGACCATAGTTGAAATACACTACT-GCAATACGATGGAAAATG
1 AATAAGACCATGGTTGAAAGACACTA-TGGCAACAAGACGAAAAATA
* * * *
23431563 AATACGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAATA
* * ** *
23431609 AATAAGACCATGGTTGAAAGATACTATGGCATCAATTCG-AGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAATA
* *
23431654 AATAAGACCATGGTTGAAAGGCACCATGG
1 AATAAGACCATGGTTGAAAGACACTATGG
23431683 AACCCTCCAA
Statistics
Matches: 102, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
45 31 0.30
46 71 0.70
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAATA
Found at i:23447613 original size:12 final size:12
Alignment explanation
Indices: 23447596--23447625 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23447586 AGATCAATGT
23447596 TTTGGAGACTGA
1 TTTGGAGACTGA
*
23447608 TTTGGAGATTGA
1 TTTGGAGACTGA
23447620 TTTGGA
1 TTTGGA
23447626 AATCAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.40
Consensus pattern (12 bp):
TTTGGAGACTGA
Found at i:23452373 original size:47 final size:47
Alignment explanation
Indices: 23452320--23452464 Score: 149
Period size: 47 Copynumber: 3.1 Consensus size: 47
23452310 TCATATAAGA
*
23452320 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
23452367 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * * *
23452411 AAATTTATTATCAAGAATTTTATGAAATTATATATTATAATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
23452458 ATATTTA
1 ATATTTA
23452465 ATAATAATTA
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.42
48 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:23452408 original size:91 final size:91
Alignment explanation
Indices: 23452305--23452520 Score: 360
Period size: 91 Copynumber: 2.4 Consensus size: 91
23452295 ATGATTTTAG
* *
23452305 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATAATTAAATTATA
*
23452370 TTTAATATTAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* *
23452396 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATAATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATAATTAAATTATA
23452461 TTTAATAATAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* * *
23452487 AAAATTCATATAAGAAAATTTATTAGTAATAATT
1 TAAATTCATATAAGAAAATTTATTATTAAGAATT
23452521 ATTTTAAATT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATAATTAAATTATA
TTTAATAATAATTATTTTAAATTATA
Found at i:23452462 original size:16 final size:17
Alignment explanation
Indices: 23452441--23452487 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
23452431 TATGAAATTA
23452441 TATATTATAATTA-AAT
1 TATATTATAATTATAAT
*
23452457 TATATT-TAATAATAAT
1 TATATTATAATTATAAT
*
23452473 TATTTTA-AATTATAA
1 TATATTATAATTATAA
23452488 AAATTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATTATAATTATAAT
Found at i:23452468 original size:18 final size:17
Alignment explanation
Indices: 23452435--23452480 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
23452425 GAATTTTATG
23452435 AAATTATATATT-ATAATT
1 AAATTATAT-TTAATAA-T
23452453 AAATTATATTTAATAAT
1 AAATTATATTTAATAAT
23452470 -AATTAT-TTTAA
1 AAATTATATTTAA
23452481 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 6 0.22
17 3 0.11
18 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATATTTAATAAT
Found at i:23452478 original size:47 final size:46
Alignment explanation
Indices: 23452336--23452479 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 46
23452326 ATTATTAAGA
* *
23452336 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATTA-TATTAAATTATATTTAATAATAATT
* * **
23452383 A-TTT-T-AAATTATATAAATTCATA-TAAGA--AAATTT-ATTATCAAGA
1 ATTTTATGAAATTATAT--ATT-ATATTAA-ATTATATTTAATAAT-AATT
23452427 ATTTTATGAAATTATATATTATAATTAAATTATATTTAATAATAATT
1 ATTTTATGAAATTATATATTAT-ATTAAATTATATTTAATAATAATT
23452474 ATTTTA
1 ATTTTA
23452480 AATTATAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
43 3 0.04
44 19 0.26
45 12 0.16
46 12 0.16
47 24 0.32
48 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (46 bp):
ATTTTATGAAATTATATATTATATTAAATTATATTTAATAATAATT
Found at i:23452606 original size:59 final size:58
Alignment explanation
Indices: 23452538--23452822 Score: 188
Period size: 61 Copynumber: 4.8 Consensus size: 58
23452528 ATTTTATTAA
23452538 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTTATAGT
* * **** * * * * * * *
23452597 ATCATATATTATGATTTTTGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTA-AATT-A-TATTTTA-TAGT
23452658 ATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTTATAGT
* * * * *
23452717 ATCATATATTATTATTATATGAAAT-TCATATAAGAAT-ATTGATTATTAA-GA-ATTTTATTA-
1 ATCATATATT-TTA--AT-TAAAATAT-ATTTAATAATAATT-ATT-TAAATTATATTTTA-TAG
*
23452777 A
58 T
* *
23452778 ATTATATATTTTAATTAAATTATATTTAATAATAATTATGTTAAA
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
23452823 ATAAGATTAA
Statistics
Matches: 169, Mismatches: 38, Indels: 40
0.68 0.15 0.16
Matches are distributed among these distances:
57 17 0.10
58 10 0.06
59 43 0.25
60 20 0.12
61 47 0.28
62 14 0.08
63 18 0.11
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTATAGT
Found at i:23452657 original size:120 final size:120
Alignment explanation
Indices: 23452527--23452822 Score: 524
Period size: 120 Copynumber: 2.5 Consensus size: 120
23452517 AATTATTTTA
23452527 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
23452591 TATAGTATCATATATTATGATT-TTTGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTATATG-AAATTCATATAAGAATATTGATTATTAAG
23452647 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
23452712 ATAGTATCATATATTATTATTATATGAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTATATGAAATTCATATAAGAATATTGATTATTAAG
* *
23452767 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
23452823 ATAAGATTAA
Statistics
Matches: 170, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
120 165 0.97
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTATATGAAATTCATATAAGAATATTGATTATTAAG
Found at i:23452796 original size:18 final size:17
Alignment explanation
Indices: 23452768--23452802 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
23452758 ATTATTAAGA
23452768 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
23452785 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
23452803 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:23453022 original size:44 final size:45
Alignment explanation
Indices: 23452959--23453055 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
23452949 CTATTACGCC
* *
23452959 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTTTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
23453003 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
23453048 TCCATTAC
1 TCCATTAC
23453056 GCCTTTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:23453056 original size:16 final size:16
Alignment explanation
Indices: 23453035--23453071 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
23453025 TTGATTTGCT
23453035 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
23453051 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
23453067 ATTAC
1 ATTAC
23453072 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23459752 original size:17 final size:17
Alignment explanation
Indices: 23459732--23459789 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
23459722 TGTTTGTGAA
23459732 TTCATAATTTTTGTCTG
1 TTCATAATTTTTGTCTG
* *
23459749 TTCATATATGTTTGTGC-A
1 TTCATA-ATTTTTGT-CTG
*
23459767 TTAATAATTTTTGTCTG
1 TTCATAATTTTTGTCTG
23459784 TTCATA
1 TTCATA
23459790 CATTGACGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
18 12 0.38
19 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.55
Consensus pattern (17 bp):
TTCATAATTTTTGTCTG
Found at i:23459757 original size:35 final size:35
Alignment explanation
Indices: 23459717--23459789 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
23459707 TTTTTTCCAT
*
23459717 ATATATGTTTGTGAATTCATAATTTTTGTCTGTTC
1 ATATATGTTTGTGAATTAATAATTTTTGTCTGTTC
*
23459752 ATATATGTTTGTGCATTAATAATTTTTGTCTGTTC
1 ATATATGTTTGTGAATTAATAATTTTTGTCTGTTC
23459787 ATA
1 ATA
23459790 CATTGACGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (35 bp):
ATATATGTTTGTGAATTAATAATTTTTGTCTGTTC
Found at i:23466236 original size:13 final size:14
Alignment explanation
Indices: 23466198--23466239 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
23466188 TATGTGAAGA
23466198 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
23466213 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
23466228 -TATTATTAAAAT
1 ATATTATTAAAAT
23466240 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:23466295 original size:16 final size:16
Alignment explanation
Indices: 23466249--23466298 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
23466239 TAAAATTGAA
23466249 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
23466266 A-A--AATAATAAATT
1 ATATTAATAATTTATT
23466279 ATATTAATAATTTATT
1 ATATTAATAATTTATT
23466295 ATAT
1 ATAT
23466299 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:23473195 original size:43 final size:42
Alignment explanation
Indices: 23473134--23473266 Score: 169
Period size: 42 Copynumber: 3.1 Consensus size: 42
23473124 TTCCACGTTG
*
23473134 CTTCCTTTTTTGTCTGAACCTGGATGTTGCTTTCCCAAGTTA
1 CTTCCTTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTA
* * * * *
23473176 CTTCCTTTTTTTGTTTGAACTTGGTTGTTGTTTTCCCAAGTTG
1 CTTCC-TTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTA
* *
23473219 CTTCCTTTTTTGTCT-AGACATGGATGTTGCTTTCCCATGTTC
1 CTTCCTTTTTTGTCTGA-ACATGGATGTTGCTTTCCCAAGTTA
23473261 CTTCCT
1 CTTCCT
23473267 GAATATTATC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 40 0.51
43 37 0.47
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.50
Consensus pattern (42 bp):
CTTCCTTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTA
Found at i:23475776 original size:17 final size:17
Alignment explanation
Indices: 23475754--23475786 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23475744 ATAAAAATAT
23475754 CACATATTTTCTCATAC
1 CACATATTTTCTCATAC
23475771 CACATATTTTCTCATA
1 CACATATTTTCTCATA
23475787 TTCGACATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (17 bp):
CACATATTTTCTCATAC
Found at i:23489602 original size:102 final size:102
Alignment explanation
Indices: 23489367--23489603 Score: 304
Period size: 103 Copynumber: 2.3 Consensus size: 102
23489357 TGTGTTTTTT
*
23489367 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCATGTAGAATGACACCTCCAATATACTGTGTA
1 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCATGTAGAATGACACCACCAATATACTGTGTA
23489432 TGTTTTTTTCTTAATGTGTTGTTTTTTTTTAATTTAAA
66 TGTTTTTTTCTTAATGTGTTG-TTTTTTTTAATTTAAA
* * ** *
23489470 ATTTTTAAAAAATAATATTTTATTTAGTGGAGCCA-GATAGAATGGCGTCACCAATGTA-T-TGT
1 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCATG-TAGAATGACACCACCAATATACTGTGT
*
23489532 ATGGTTTTTTTTTTTAAATGTGTTG-TTTTTTTAATTTAAA
65 AT-G-TTTTTTTCTT-AATGTGTTGTTTTTTTTAATTTAAA
* *
23489572 ATTTTTAAAAAA-GATACTTTATTTTGGTGGAG
1 ATTTTTAAAAAATAATATTTTA-TTTGGTGGAG
23489604 GCATTCTTTA
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
101 12 0.10
102 39 0.33
103 59 0.50
104 9 0.08
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (102 bp):
ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCATGTAGAATGACACCACCAATATACTGTGTA
TGTTTTTTTCTTAATGTGTTGTTTTTTTTAATTTAAA
Found at i:23493641 original size:26 final size:26
Alignment explanation
Indices: 23493600--23493661 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
23493590 ATAAGAGCCA
* * *
23493600 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAGGCTCACAAAGAACCTT
* * *
23493626 TAATTAGGAGGCTCACGAAGAGCCTT
1 TAATCAGGAGGCTCACAAAGAACCTT
23493652 TAATCAGGAG
1 TAATCAGGAG
23493662 CTCCGGATAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (26 bp):
TAATCAGGAGGCTCACAAAGAACCTT
Done.