Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 414 of 770
Found at i:127409767 original size:48 final size:48
Alignment explanation
Indices: 127409687--127409782 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
127409677 GAAGTTTATC
* *
127409687 TGTGATTATTTGGTCGTTATTGGAAATTATGTGGTGGCTTGTCCACAA
1 TGTGATTATGTGGTCGTTATCGGAAATTATGTGGTGGCTTGTCCACAA
*
127409735 TGTG-TTATGTGGTCGTTTATCGGCAATTATGTGGTGGCTTGTCCACAA
1 TGTGATTATGTGGTCG-TTATCGGAAATTATGTGGTGGCTTGTCCACAA
127409783 ATGGTGTGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 10 0.23
48 34 0.77
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.41
Consensus pattern (48 bp):
TGTGATTATGTGGTCGTTATCGGAAATTATGTGGTGGCTTGTCCACAA
Found at i:127409963 original size:22 final size:22
Alignment explanation
Indices: 127409938--127409982 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
127409928 ATTATGAAGA
127409938 TTGATATGT-TGAGATTTATATT
1 TTGATATGTATGAGA-TTATATT
*
127409960 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
127409982 T
1 T
127409983 GTTATGGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.56
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:127415372 original size:42 final size:43
Alignment explanation
Indices: 127415317--127415505 Score: 127
Period size: 43 Copynumber: 4.4 Consensus size: 43
127415307 AATGCCATAT
* ** * *
127415317 CCCAGATATGGTCTTACA-GTTATCGCAT-ATCGATGCCACTGC
1 CCCAGACATGGTCTTACACGAAATCG-ATAAACGATGCCAATGC
* * *
127415359 CCCAGACAGGGTCTTGCACGAAATCGATAAACGATGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCGATAAACGATGCCAATGC
* ** * *
127415402 CCCAGACATGGTCTTACAC-ATAAT-TATATAATAATACCAATGT
1 CCCAGACATGGTCTTACACGA-AATCGATA-AACGATGCCAATGC
* * * * *
127415445 CCCAAACATGGTCTTACACAAAATC-ACAATACAATGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCGATAA-ACGATGCCAATGC
* *
127415488 TCGAGACATGGTCTTACA
1 CCCAGACATGGTCTTACA
127415506 TGTAATCTCA
Statistics
Matches: 119, Mismatches: 21, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
42 22 0.18
43 96 0.81
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGAAATCGATAAACGATGCCAATGC
Found at i:127415442 original size:43 final size:43
Alignment explanation
Indices: 127415359--127415505 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
127415349 ATGCCACTGC
* * * * * *
127415359 CCCAGACAGGGTCTTGCACGAAATCGATAA-ACGATGCCAATGT
1 CCCAGACATGGTCTTACACAAAATC-ACAATACAATACCAATGT
* * * *
127415402 CCCAGACATGGTCTTACACATAATTA-TATAATAATACCAATGT
1 CCCAGACATGGTCTTACACAAAATCACAAT-ACAATACCAATGT
* *
127415445 CCCAAACATGGTCTTACACAAAATCACAATACAATGCCAATGT
1 CCCAGACATGGTCTTACACAAAATCACAATACAATACCAATGT
* *
127415488 TCGAGACATGGTCTTACA
1 CCCAGACATGGTCTTACA
127415506 TGTAATCTCA
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 79 0.95
44 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACAAAATCACAATACAATACCAATGT
Found at i:127420059 original size:46 final size:45
Alignment explanation
Indices: 127419992--127420166 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
127419982 TGTAACCCGC
127419992 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGTAT
* *
127420038 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGTA--T
* *** * * *
127420084 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGTAT
* *
127420131 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
127420167 ATGCCCAAAC
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
44 5 0.05
45 2 0.02
46 65 0.61
47 31 0.29
49 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGTAT
Found at i:127420112 original size:93 final size:93
Alignment explanation
Indices: 127420000--127420171 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
127419990 GCCCATAAGT
* *
127420000 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
127420064 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
127420093 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
127420158 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
127420172 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:127420186 original size:46 final size:46
Alignment explanation
Indices: 127419997--127420186 Score: 131
Period size: 46 Copynumber: 4.1 Consensus size: 46
127419987 CCCGCCCATA
* * ** * *
127419997 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGTATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCT
* *
127420043 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
127420092 --CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
127420136 AGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
127420182 AGTGA
1 AGTGA
127420187 CATGTCACTT
Statistics
Matches: 113, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
44 13 0.12
45 2 0.02
46 64 0.57
47 30 0.27
49 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:127421453 original size:51 final size:50
Alignment explanation
Indices: 127421377--127421562 Score: 182
Period size: 51 Copynumber: 3.7 Consensus size: 50
127421367 TGTGAGGTCG
*
127421377 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTAATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-AAACTGTAGTCA
* * *** ***
127421428 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTG-AGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAACTGTA-GTCA
* * * * *
127421478 CGTGTGTAGTACTAAGTGCAGGCTACTA--CGTGCACC-AGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CCGAAACTG-TAGTCA
127421527 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
127421563 AGATAGCTTC
Statistics
Matches: 107, Mismatches: 22, Indels: 13
0.75 0.15 0.09
Matches are distributed among these distances:
48 5 0.05
49 31 0.29
50 34 0.32
51 37 0.35
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAACTGTAGTCA
Found at i:127421505 original size:50 final size:49
Alignment explanation
Indices: 127421371--127421554 Score: 203
Period size: 50 Copynumber: 3.7 Consensus size: 49
127421361 ATCTATTGTG
* * *
127421371 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CCGAAAACTGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA--CGTGCACC--AGACTGT
* * **
127421423 A-ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGACT-GT
*
127421471 GAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGACTGT
1 -AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGACTGT
* *
127421521 TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
127421555 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 35 0.31
50 40 0.36
51 31 0.28
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (49 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGACTGT
Found at i:127424597 original size:15 final size:15
Alignment explanation
Indices: 127424577--127424637 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
127424567 CTTGGGTTTT
127424577 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
127424592 TTTATTCTAGG-TTT-
1 TTTATTCT-GGATTTC
127424606 TTCTA-TCTTGGATTTC
1 TT-TATTC-TGGATTTC
*
127424622 TTTATTC-GGTTTTC
1 TTTATTCTGGATTTC
127424636 TT
1 TT
127424638 GTTATCTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
14 14 0.36
15 19 0.49
16 6 0.15
ACGTcount: A:0.11, C:0.13, G:0.13, T:0.62
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:127424605 original size:30 final size:30
Alignment explanation
Indices: 127424571--127424628 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
127424561 TCGTATCTTG
*
127424571 GGTTTTTTTAT-TCTGGATTTCTTTATTCTA
1 GGTTTTTCTATCT-TGGATTTCTTTATTCTA
127424601 GGTTTTTCTATCTTGGATTTCTTTATTC
1 GGTTTTTCTATCTTGGATTTCTTTATTC
127424629 GGTTTTCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.62
Consensus pattern (30 bp):
GGTTTTTCTATCTTGGATTTCTTTATTCTA
Found at i:127424637 original size:14 final size:15
Alignment explanation
Indices: 127424571--127424637 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 15
127424561 TCGTATCTTG
127424571 GGTTTT-TTTATTCT
1 GGTTTTCTTTATTCT
*
127424585 GGATTTCTTTATTCT
1 GGTTTTCTTTATTCT
*
127424600 AGGTTTT-TCTA-TCTT
1 -GGTTTTCTTTATTC-T
*
127424615 GGATTTCTTTATTC-
1 GGTTTTCTTTATTCT
127424629 GGTTTTCTT
1 GGTTTTCTT
127424638 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
14 20 0.48
15 15 0.36
16 7 0.17
ACGTcount: A:0.10, C:0.12, G:0.15, T:0.63
Consensus pattern (15 bp):
GGTTTTCTTTATTCT
Found at i:127426538 original size:20 final size:20
Alignment explanation
Indices: 127426522--127426567 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
127426512 AAGGGGCTCG
127426522 ATGGGCCAAAACTGGGCCCA
1 ATGGGCCAAAACTGGGCCCA
127426542 ATGGGCCAAAACTGGGCCCA
1 ATGGGCCAAAACTGGGCCCA
127426562 ATGGGC
1 ATGGGC
127426568 TTACGGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.11
Consensus pattern (20 bp):
ATGGGCCAAAACTGGGCCCA
Found at i:127426539 original size:11 final size:11
Alignment explanation
Indices: 127426523--127426559 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
127426513 AGGGGCTCGA
127426523 TGGGCCAAAAC
1 TGGGCCAAAAC
*
127426534 TGGGCC-CAA-
1 TGGGCCAAAAC
127426543 TGGGCCAAAAC
1 TGGGCCAAAAC
127426554 TGGGCC
1 TGGGCC
127426560 CAATGGGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.27
10 4 0.18
11 12 0.55
ACGTcount: A:0.27, C:0.30, G:0.32, T:0.11
Consensus pattern (11 bp):
TGGGCCAAAAC
Found at i:127426758 original size:28 final size:27
Alignment explanation
Indices: 127426686--127426777 Score: 134
Period size: 26 Copynumber: 3.4 Consensus size: 27
127426676 TAGAACACGA
*
127426686 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
127426713 AATTA-CCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
*
127426739 AAATTACCCCTAAGGAGCAAAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
127426766 AATATACCCCTA
1 AAT-TACCCCTA
127426778 GGGTTTAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
26 23 0.38
27 18 0.30
28 19 0.32
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.21
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:127431276 original size:40 final size:39
Alignment explanation
Indices: 127431150--127431294 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
127431140 TGCTGGAAAT
* * * * *
127431150 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
127431189 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
127431230 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
127431269 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
127431295 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:127431277 original size:80 final size:80
Alignment explanation
Indices: 127431155--127431303 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
127431145 GAAATTATAA
* * * *
127431155 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
127431220 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
127431235 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
127431299 GTGCG
65 GTGCG
127431304 GGTTACCATA
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:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:127431319 original size:80 final size:81
Alignment explanation
Indices: 127431151--127431322 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
127431141 GCTGGAAATT
* * * *
127431151 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
127431216 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
127431232 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
127431295 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
127431311 ATAACCGGGCTA
1 ATAACCGGGCTA
127431323 TGTCCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:127434957 original size:6 final size:6
Alignment explanation
Indices: 127434948--127435000 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
127434938 GACATAGTTA
* * *
127434948 TAGATG TAGATG TAGACG TAGATG TAGATG TAGACG TAGAAT- TAGAAG
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAG-ATG TAGATG
127434996 TAGAT
1 TAGAT
127435001 CCAAGCACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 1 0.03
6 37 0.95
7 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.30, T:0.28
Consensus pattern (6 bp):
TAGATG
Found at i:127434999 original size:18 final size:18
Alignment explanation
Indices: 127434948--127434987 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
127434938 GACATAGTTA
127434948 TAGATGTAGATGTAGACG
1 TAGATGTAGATGTAGACG
127434966 TAGATGTAGATGTAGACG
1 TAGATGTAGATGTAGACG
127434984 TAGA
1 TAGA
127434988 ATTAGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (18 bp):
TAGATGTAGATGTAGACG
Found at i:127436612 original size:46 final size:46
Alignment explanation
Indices: 127436456--127436631 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
127436446 TCACTTATGT
* * * * *
127436456 GAGCTAGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATGA
* * * * * *
127436502 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGATGA
* *
127436550 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATG-A
127436597 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
127436632 TAATAGTTGT
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 58 0.54
47 28 0.26
48 21 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATGA
Found at i:127440377 original size:49 final size:51
Alignment explanation
Indices: 127440323--127440458 Score: 186
Period size: 49 Copynumber: 2.7 Consensus size: 51
127440313 AAGGTGGAAG
127440323 CAGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAA-T-TTAT
1 CAGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * *
127440372 TAGTGGTAGTATATCTACATATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * ** *
127440423 CAGTGGCAATTTATCTGTAATTCAGTGGTGGCTTGT
1 CAGTGGCAGTATATCTACAAATCAGTGGTGGCTTGT
127440459 GGAGAGCAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 41 0.55
50 1 0.01
51 32 0.43
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (51 bp):
CAGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
Found at i:127449443 original size:28 final size:28
Alignment explanation
Indices: 127449401--127449457 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
127449391 ATCTTCGATG
* *
127449401 TCTCGTACACTAAGTGCCATACTCAATA
1 TCTCGCACACCAAGTGCCATACTCAATA
* * *
127449429 TCTCGCACACCAAGTTCCATTCTTAATA
1 TCTCGCACACCAAGTGCCATACTCAATA
127449457 T
1 T
127449458 TTTGAACACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (28 bp):
TCTCGCACACCAAGTGCCATACTCAATA
Found at i:127453882 original size:93 final size:93
Alignment explanation
Indices: 127453770--127453941 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
127453760 CGCCCATAAG
* *
127453770 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
127453835 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
127453863 TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
127453928 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
127453942 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:127453957 original size:46 final size:46
Alignment explanation
Indices: 127453763--127453943 Score: 242
Period size: 46 Copynumber: 3.9 Consensus size: 46
127453753 TGTAACCCGC
* * *
127453763 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
127453809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
127453859 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
127453902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
127453944 AACCATCCTA
Statistics
Matches: 118, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 73 0.62
47 33 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:127461460 original size:46 final size:43
Alignment explanation
Indices: 127461393--127461560 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 43
127461383 TATGTGTATG
127461393 AGTGTAAGACATGTCTGGGACATGCATCAGTCACAACATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GTCA-AACATGA-AGCC
* *
127461439 AGTGTAAGACATGTCTGGGACATGCATCGCCCTCGAAATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG---TC-AAACA-TGAAGCC
* * * * * *
127461487 AGAGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGTCA--AACATG-AAGCC
127461533 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
127461561 AGGCTCACGA
Statistics
Matches: 104, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 61 0.59
48 37 0.36
49 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGTCAAACATGAAGCC
Found at i:127461588 original size:94 final size:94
Alignment explanation
Indices: 127461393--127461611 Score: 237
Period size: 94 Copynumber: 2.3 Consensus size: 94
127461383 TATGTGTATG
* * *
127461393 AGTGTAAGACATGTCTGGGACATGCATCAGTCACAACATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGGCACAACACGAAAGCCAGTGTAAGACATGTCTGGG
**
127461458 ACATGCATCGCCCTCGAAATATTTAAGCC
66 ACATGCATCGCCCTCGAAATATACAAGCC
* ** * *
127461487 AGAGTAAGACATGTCTGGGACATGCATC-GGCATTGAGACGAAAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGGCA-CAACACGAAAGCCAGTGTAAGACATGTCTGG
* * *
127461551 GACATGCATCAG-GCTC-ACGATATACAAGCT
65 GACATGCATC-GCCCTCGA-AATATACAAGCC
* * *
127461581 AGTGTAAGACCTGTTTGGGGCATGGCATCAG
1 AGTGTAAGACATGTCTGGGACAT-GCATCAG
127461612 CTTGTGGTGT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
93 4 0.04
94 92 0.89
95 6 0.06
96 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGGCACAACACGAAAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGCCCTCGAAATATACAAGCC
Found at i:127462962 original size:21 final size:21
Alignment explanation
Indices: 127462932--127462987 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
127462922 GTTATAATGA
*
127462932 CCACACGGGCGTGTTGCCCTT
1 CCACATGGGCGTGTTGCCCTT
127462953 CCACATGGGCGTGTTGCCCTT
1 CCACATGGGCGTGTTGCCCTT
127462974 CCACATGGGCGTGT
1 CCACATGGGCGTGT
127462988 GTCCTATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.11, C:0.34, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACATGGGCGTGTTGCCCTT
Found at i:127470681 original size:49 final size:49
Alignment explanation
Indices: 127470609--127470796 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
127470599 TGAGGTCACG
* * *
127470609 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
* * * * *
127470658 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGATCGCA
* * *
127470709 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGCTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
*
127470758 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
127470797 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
Found at i:127470777 original size:100 final size:100
Alignment explanation
Indices: 127470604--127470791 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
127470594 TATTGTGAGG
*
127470604 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGCTCGCATGTGTAGTACT
127470669 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* *
127470704 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGCTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGCTCGCATGTGTAGTACT
127470769 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
127470792 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGCTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:127472420 original size:94 final size:94
Alignment explanation
Indices: 127472222--127472422 Score: 219
Period size: 94 Copynumber: 2.1 Consensus size: 94
127472212 TGATATGTGT
* * *
127472222 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAACATGAGAGTCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAACACGAGAGTCAGTGCAAGACATGTCT
* **
127472287 GGGACATGCATCGGCCTCGAGATATTTAA
66 GGGACATACATCGGCCTCGAGATATACAA
* * * ** * *
127472316 GCCAGAGTAAGACATGTCTAGGACATGCATC-GGCATTGAGACGAGAG-CTAGTGCAGGACATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCA-CAACACGAGAGTC-AGTGCAAGACATGT
* *
127472379 -TCGGGACATACATCGGCTTCGCGATATACAA
64 CT-GGGACATACATCGGCCTCGAGATATACAA
127472410 GCTAGTGTAAGAC
1 GCTAGTGTAAGAC
127472423 CCGTTTGGGA
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
93 5 0.06
94 82 0.94
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAACACGAGAGTCAGTGCAAGACATGTCT
GGGACATACATCGGCCTCGAGATATACAA
Found at i:127472516 original size:49 final size:49
Alignment explanation
Indices: 127472457--127472576 Score: 152
Period size: 49 Copynumber: 2.4 Consensus size: 49
127472447 GTGGTGTGTT
* * *
127472457 AGTGTTAGACCTGTCTGGGACATGACATTGACACT-GATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGAC-CTCGATAGATGAAAGCC
* * * *
127472506 AGTGTAAGACCTGTCTGGGACATGTCATCGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
127472555 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGACC-TGTCTGGGAC
127472577 CTGGCGTCAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 2 0.03
49 50 0.81
50 10 0.16
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
Found at i:127475363 original size:31 final size:31
Alignment explanation
Indices: 127475306--127475365 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
127475296 GGCTTATGTG
*
127475306 ATATATGTGGTAGTTTAAACATTTGAGATTT
1 ATATATGTGGTAGTTTAAAAATTTGAGATTT
127475337 ATATATGT-GTA-TGTTAAAAATATTGAGAT
1 ATATATGTGGTAGT-TTAAAAAT-TTGAGAT
127475366 CTATTACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 10 0.38
31 15 0.58
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (31 bp):
ATATATGTGGTAGTTTAAAAATTTGAGATTT
Found at i:127475593 original size:49 final size:51
Alignment explanation
Indices: 127475534--127475671 Score: 190
Period size: 49 Copynumber: 2.7 Consensus size: 51
127475524 ACGTGCAAGT
127475534 AGTGGCAGTATATCTGCAAATTTGTGGTGGCTTGTCCACAAAA-T-TTATC
1 AGTGGCAGTATATCTGCAAATTTGTGGTGGCTTGTCCACAAAAGTGTTATC
* * *
127475583 AGTGGTAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAAGTGTTATC
1 AGTGGCAGTATATCTGCAAATTTGTGGTGGCTTGTCCACAAAAGTGTTATC
* * * * *
127475634 AGTGGCAATTTATCTACAAATCTGTGGTAGCTTGTCCA
1 AGTGGCAGTATATCTGCAAATTTGTGGTGGCTTGTCCA
127475672 TAAATGGTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
49 40 0.53
50 1 0.01
51 35 0.46
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (51 bp):
AGTGGCAGTATATCTGCAAATTTGTGGTGGCTTGTCCACAAAAGTGTTATC
Found at i:127478629 original size:12 final size:12
Alignment explanation
Indices: 127478594--127478631 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
127478584 TATTGAAACA
127478594 ATAAA-AAAAAG
1 ATAAATAAAAAG
127478605 A-AAATAAAGAAG
1 ATAAATAAA-AAG
127478617 ATAAATAAAAAG
1 ATAAATAAAAAG
127478629 ATA
1 ATA
127478632 GAACGTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.12
11 4 0.17
12 10 0.42
13 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (12 bp):
ATAAATAAAAAG
Found at i:127480715 original size:23 final size:23
Alignment explanation
Indices: 127480685--127480730 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
127480675 GAAAAGAGAG
127480685 AATTTTGAACTCGGTTTACACTA
1 AATTTTGAACTCGGTTTACACTA
127480708 AATTTTGAACTCGGTTTACACTA
1 AATTTTGAACTCGGTTTACACTA
127480731 TAAACATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (23 bp):
AATTTTGAACTCGGTTTACACTA
Found at i:127489242 original size:29 final size:29
Alignment explanation
Indices: 127489231--127489301 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
127489221 TTTTCAGCTT
*
127489231 GCACACATAGTGTCATATTTTTCCAGCAC
1 GCACACATAGTGCCATATTTTTCCAGCAC
* *
127489260 GCACACTTAGTGCCATATATTTCCAGCA-
1 GCACACATAGTGCCATATTTTTCCAGCAC
*
127489288 -CACACTTAGTGCCA
1 GCACACATAGTGCCA
127489302 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 14 0.36
29 25 0.64
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (29 bp):
GCACACATAGTGCCATATTTTTCCAGCAC
Found at i:127490662 original size:16 final size:18
Alignment explanation
Indices: 127490632--127490671 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
127490622 TTTTTTTTCT
127490632 TTTCTATTTCTTTTATTA
1 TTTCTATTTCTTTTATTA
*
127490650 TTTC-ATTTC-TTTATTC
1 TTTCTATTTCTTTTATTA
127490666 TTTCTA
1 TTTCTA
127490672 CATAATCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 6 0.30
18 4 0.20
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTATTTCTTTTATTA
Found at i:127498915 original size:40 final size:40
Alignment explanation
Indices: 127498871--127499014 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
127498861 GTTCAAAACA
* * ***
127498871 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
127498911 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
127498951 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
127498990 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
127499015 TCGAACATTC
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 54 0.57
40 40 0.43
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:127498983 original size:39 final size:39
Alignment explanation
Indices: 127498901--127499014 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
127498891 TATGGTAACC
* *
127498901 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
127498941 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
127498980 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
127499015 TCGAACATTC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 54 0.76
40 17 0.24
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:127506959 original size:40 final size:40
Alignment explanation
Indices: 127506915--127507058 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
127506905 GTTCAAAACA
* * ***
127506915 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
127506955 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
127506995 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
127507034 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
127507059 TCGAACATTC
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 54 0.57
40 40 0.43
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:127507027 original size:39 final size:39
Alignment explanation
Indices: 127506945--127507058 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
127506935 TATGGTAACC
* *
127506945 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
127506985 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
127507024 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
127507059 TCGAACATTC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 54 0.76
40 17 0.24
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:127511316 original size:40 final size:40
Alignment explanation
Indices: 127511261--127511485 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
127511251 TATTTGGACG
* *
127511261 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* *
127511301 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* *
127511341 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTACT
* * *
127511384 ATACCCGGGCCAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* * * *
127511424 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
*
127511464 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
127511486 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 113 0.70
43 36 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
Found at i:127511504 original size:83 final size:79
Alignment explanation
Indices: 127511261--127511485 Score: 324
Period size: 83 Copynumber: 2.8 Consensus size: 79
127511251 TATTTGGACG
* * *
127511261 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTTCCTATATCCGAGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCG-GCTAAGTCCCGAAGGCA
127511326 TTTGTGCTAGTGACT
65 TTTGTGCTAGTGACT
* * *
127511341 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCCAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCC-GGCTAAGTCCCGAAG
127511406 GCATTTGTGCTAGTGACT
62 GCATTTGTGCTAGTGACT
* * *
127511424 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGG
127511486 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 14 0.11
80 42 0.33
81 1 0.01
83 71 0.55
84 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTGACT
Found at i:127527412 original size:13 final size:13
Alignment explanation
Indices: 127527394--127527423 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
127527384 GGTTGTTTAT
127527394 TAAACTAATTAAC
1 TAAACTAATTAAC
127527407 TAAACTAATTAAC
1 TAAACTAATTAAC
127527420 TAAA
1 TAAA
127527424 TAAACTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:127545751 original size:28 final size:28
Alignment explanation
Indices: 127545682--127545782 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
127545672 GACAAGATTG
* * * *
127545682 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
127545712 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
127545740 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
127545769 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
127545783 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:127550413 original size:28 final size:28
Alignment explanation
Indices: 127550367--127550435 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
127550357 TTTAAAACCC
*
127550367 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
127550394 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
127550422 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
127550436 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:127552259 original size:19 final size:18
Alignment explanation
Indices: 127552222--127552265 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
127552212 ATACATACAG
127552222 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
127552239 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
127552258 TACTAATT
1 TAATAATT
127552266 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:127554694 original size:28 final size:28
Alignment explanation
Indices: 127554648--127554716 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
127554638 TTTAAAACCC
*
127554648 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
127554675 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
127554703 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
127554717 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:127556542 original size:19 final size:18
Alignment explanation
Indices: 127556505--127556548 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
127556495 ATACATACAG
127556505 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
127556522 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
127556541 TACTAATT
1 TAATAATT
127556549 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:127558939 original size:28 final size:28
Alignment explanation
Indices: 127558893--127558961 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
127558883 TTTAAAACCC
*
127558893 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
127558920 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
127558948 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
127558962 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:127567522 original size:15 final size:15
Alignment explanation
Indices: 127567502--127567544 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
127567492 TATTAGAAAT
127567502 AAATAGATATTATAA
1 AAATAGATATTATAA
127567517 AAATAGA-A--AT--
1 AAATAGATATTATAA
127567527 AAATAGATATTATAA
1 AAATAGATATTATAA
127567542 AAA
1 AAA
127567545 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:127567523 original size:25 final size:25
Alignment explanation
Indices: 127567495--127567544 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
127567485 AAATATTTAT
127567495 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
127567520 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
127567545 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:127573235 original size:31 final size:33
Alignment explanation
Indices: 127573172--127573245 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
127573162 AAAATGAAAA
* *
127573172 TAAATTAATAATTTATTTTAATTATACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
*
127573205 TAAATTATTAATTT-TTCTATTTA-ACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
127573236 TAAA-TATTAA
1 TAAATTATTAA
127573246 ATAATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.16
31 12 0.32
32 7 0.18
33 13 0.34
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
TAAATTATTAATTTATTCTAATTATACTTAAAT
Found at i:127573251 original size:10 final size:10
Alignment explanation
Indices: 127573238--127573457 Score: 97
Period size: 11 Copynumber: 21.4 Consensus size: 10
127573228 ACTTAAATTA
*
127573238 AATATTAAAT
1 AATAATAAAT
127573248 AATAATAAAT
1 AATAATAAAT
** *
127573258 TCTAAATATACT
1 AAT-AATA-AAT
127573270 AA-ATATAAAT
1 AATA-ATAAAT
127573280 AATAACTAAAT
1 AATAA-TAAAT
127573291 AATAACTAAAT
1 AATAA-TAAAT
127573302 AGA-AAT--A-
1 A-ATAATAAAT
127573309 AA-AATAAAT
1 AATAATAAAT
127573318 AATAACTAAAT
1 AATAA-TAAAT
127573329 AGA-AATAAAAT
1 A-ATAAT-AAAT
127573340 AATAACTAAAT
1 AATAA-TAAAT
127573351 AGA-AATAAA-
1 A-ATAATAAAT
*
127573360 AAT-ATATAT
1 AATAATAAAT
* *
127573369 AAAAATATAT
1 AATAATAAAT
127573379 -ATAAT-AAT
1 AATAATAAAT
127573387 AATATATAAA-
1 AATA-ATAAAT
*
127573397 AATAATATAT
1 AATAATAAAT
*
127573407 AAATTATAAAT
1 -AATAATAAAT
127573418 AGATAATATAAT
1 A-ATAATA-AAT
127573430 AATAGATAGAAT
1 AATA-ATA-AAT
127573442 AATAAAATAAAT
1 AAT--AATAAAT
127573454 AATA
1 AATA
127573458 TAGAAATATA
Statistics
Matches: 165, Mismatches: 16, Indels: 58
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.02
7 1 0.01
8 9 0.05
9 16 0.10
10 39 0.24
11 67 0.41
12 25 0.15
13 3 0.02
14 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
AATAATAAAT
Found at i:127573371 original size:22 final size:24
Alignment explanation
Indices: 127573287--127573367 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 24
127573277 AATAATAACT
127573287 AAATA-ATAACTAAATAGAAATAA
1 AAATATATAACTAAATAGAAATAA
127573310 AAATAAATAATAACTAAATAGAAAT-A
1 AAAT--AT-ATAACTAAATAGAAATAA
127573336 AAATA-ATAACTAAATAGAAATAA
1 AAATATATAACTAAATAGAAATAA
127573359 AAATATATA
1 AAATATATA
127573368 TAAAAATATA
Statistics
Matches: 52, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
22 16 0.31
23 10 0.19
24 4 0.08
25 1 0.02
26 5 0.10
27 16 0.31
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
AAATATATAACTAAATAGAAATAA
Found at i:127573376 original size:12 final size:13
Alignment explanation
Indices: 127573355--127573409 Score: 87
Period size: 13 Copynumber: 4.4 Consensus size: 13
127573345 CTAAATAGAA
127573355 ATAAAAAT-ATAT
1 ATAAAAATAATAT
127573367 ATAAAAAT-ATAT
1 ATAAAAATAATAT
*
127573379 ATAATAATAATAT
1 ATAAAAATAATAT
127573392 ATAAAAATAATAT
1 ATAAAAATAATAT
127573405 ATAAA
1 ATAAA
127573410 TTATAAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 19 0.47
13 21 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAAAATAATAT
Found at i:127573390 original size:15 final size:15
Alignment explanation
Indices: 127573361--127573457 Score: 78
Period size: 15 Copynumber: 6.7 Consensus size: 15
127573351 AGAAATAAAA
*
127573361 ATATAT-ATAAAAAT
1 ATATATAATAATAAT
127573375 ATATATAATAATAAT
1 ATATATAATAATAAT
127573390 ATATA-AA-AATAAT
1 ATATATAATAATAAT
*
127573403 ATATA-AATTATAA-
1 ATATATAATAATAAT
*
127573416 ATAGATAATATAATAAT
1 ATATAT-A-ATAATAAT
* * *
127573433 AGATAGAATAATAAA
1 ATATATAATAATAAT
*
127573448 ATAAATAATA
1 ATATATAATA
127573458 TAGAAATATA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
13 17 0.26
14 12 0.18
15 27 0.41
16 7 0.11
17 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATAATAATAAT
Found at i:127573400 original size:43 final size:42
Alignment explanation
Indices: 127573304--127573467 Score: 118
Period size: 43 Copynumber: 3.7 Consensus size: 42
127573294 AACTAAATAG
* * * * *
127573304 AAATAAAAATAAATAATAA-CTAAATAGAAATAAAATAATAACT
1 AAATAAAAATAAA-AATAATATAAAAATATATATAATAATAA-T
*
127573347 AAATAGAAATAAAAATATATATAAAAATATATATAATAATAAT
1 AAATAAAAATAAAAATA-ATATAAAAATATATATAATAATAAT
* *
127573390 ATATAAAAATAATATATAAATTATAAATAGATA-ATATAATAATAGAT
1 AAATAAAAATAA-AAAT-AA-TATAAA-A-ATATATATAATAATA-AT
* *
127573437 AGAATAATAAA-ATAAATAATATAGAAATATA
1 A-AATAA-AAATAAAAATAATATAAAAATATA
127573468 GATTTATAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.04
43 27 0.28
44 23 0.24
45 12 0.12
46 14 0.14
47 9 0.09
48 5 0.05
49 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (42 bp):
AAATAAAAATAAAAATAATATAAAAATATATATAATAATAAT
Found at i:127573400 original size:49 final size:50
Alignment explanation
Indices: 127573263--127573459 Score: 139
Period size: 49 Copynumber: 4.0 Consensus size: 50
127573253 TAAATTCTAA
* *
127573263 ATATACTAAATATAAATAATAACTAA-ATAATAACTAAATAGAAATAAAAATA-
1 ATATAATAAATATATATAATAA-TAATAT-ATAAC-AAATA-AAATAAAAATAT
* * *
127573315 A-ATAATAACTAAATAGAAATAA-AATA-ATAACTAAATAGAAATAAAAATAT
1 ATATAATAAATATATA-TAATAATAATATATAAC-AAATA-AAATAAAAATAT
* *
127573365 ATATAA-AAATATATATAATAATAATATATAA-AAATAATATATAAAT-T
1 ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAAAATAT
* * * *
127573412 ATA-AATAGATA-ATATAATAAT-AGATAGAA-TAATAAAATAAATAATAT
1 ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAA-AATAT
127573459 A
1 A
127573460 GAAATATAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 23
0.75 0.10 0.14
Matches are distributed among these distances:
45 15 0.12
46 15 0.12
47 10 0.08
48 8 0.07
49 33 0.28
50 14 0.12
51 19 0.16
52 6 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (50 bp):
ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAAAATAT
Found at i:127573428 original size:20 final size:20
Alignment explanation
Indices: 127573403--127573506 Score: 62
Period size: 20 Copynumber: 5.4 Consensus size: 20
127573393 TAAAAATAAT
127573403 ATATAAATTATAAATAGATA
1 ATATAAATTATAAATAGATA
* *
127573423 ATAT-AATAATAGATAGAATA
1 ATATAAATTATAAATAG-ATA
*
127573443 ATA-AAATAAATAATATAGA-A
1 ATATAAAT-TATAA-ATAGATA
* *
127573463 ATATAGATTTATAAATCGA-A
1 ATATA-AATTATAAATAGATA
*
127573483 ATAT--ATTA-ATATA-ATA
1 ATATAAATTATAAATAGATA
127573499 ATATAAAT
1 ATATAAAT
127573507 ATTATTAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
15 1 0.02
16 8 0.12
17 3 0.05
18 2 0.03
19 10 0.15
20 26 0.39
21 10 0.15
22 6 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.34
Consensus pattern (20 bp):
ATATAAATTATAAATAGATA
Found at i:127573464 original size:15 final size:14
Alignment explanation
Indices: 127573305--127573465 Score: 55
Period size: 13 Copynumber: 11.8 Consensus size: 14
127573295 ACTAAATAGA
127573305 AATA-AAAATAAAT
1 AATATAAAATAAAT
*
127573318 AATAACTAAATAGAAAT
1 AAT-A-TAAA-ATAAAT
* *
127573335 AA-A-ATAATAACT
1 AATATAAAATAAAT
127573347 AA-ATAGAAATAAA-
1 AATATA-AAATAAAT
127573360 AATATATATAA-AAAT
1 AATATA-A-AATAAAT
*
127573375 -ATATATAAT-AAT
1 AATATAAAATAAAT
*
127573387 AATATATAA-AAAT
1 AATATAAAATAAAT
127573400 AATAT---ATAAAT
1 AATATAAAATAAAT
*
127573411 --TAT-AAATAGAT
1 AATATAAAATAAAT
*
127573422 AATATAATAATAGATAG
1 AATATAA-AATA-A-AT
127573439 AATAATAAAATAAAT
1 AAT-ATAAAATAAAT
127573454 AATATAGAAATA
1 AATATA-AAATA
127573466 TAGATTTATA
Statistics
Matches: 113, Mismatches: 12, Indels: 44
0.67 0.07 0.26
Matches are distributed among these distances:
9 3 0.03
10 1 0.01
11 9 0.08
12 12 0.11
13 27 0.24
14 22 0.19
15 16 0.14
16 4 0.04
17 15 0.13
18 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (14 bp):
AATATAAAATAAAT
Found at i:127573512 original size:23 final size:23
Alignment explanation
Indices: 127573481--127573564 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
127573471 TTATAAATCG
127573481 AAATA-TATTAATATAATAATAT
1 AAATATTATTAATATAATAATAT
* *
127573503 AAATATTATTAATTACTTAATATTCT
1 AAATATTATTAA-TA--TAATAATAT
* * *
127573529 TAATATTAATAACA-AATAATAT
1 AAATATTATTAATATAATAATAT
*
127573551 AAATTAATATTAAT
1 AAA-TATTATTAAT
127573565 TGCTAATAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 13 0.28
23 13 0.28
24 2 0.04
25 1 0.02
26 17 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTATTAATATAATAATAT
Found at i:127573572 original size:26 final size:26
Alignment explanation
Indices: 127573485--127573573 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
127573475 AAATCGAAAT
127573485 ATATTAA-TA-TAATAATATAAA-TA
1 ATATTAATTACTAATAATATAAATTA
* **
127573508 TTATTAATTACT--TAATAT-TCTTA
1 ATATTAATTACTAATAATATAAATTA
* *
127573531 ATATTAATAACAAATAATATAAATTA
1 ATATTAATTACTAATAATATAAATTA
*
127573557 ATATTAATTGCTAATAA
1 ATATTAATTACTAATAA
127573574 CTTGTAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.47
24 2 0.04
25 7 0.14
26 17 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATTAATTACTAATAATATAAATTA
Found at i:127579230 original size:15 final size:15
Alignment explanation
Indices: 127579212--127579242 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
127579202 ATCTCTCATC
127579212 TATCTATCTATTTTT
1 TATCTATCTATTTTT
127579227 TATCTATCTATTTTT
1 TATCTATCTATTTTT
127579242 T
1 T
127579243 CTTTAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:127579944 original size:16 final size:17
Alignment explanation
Indices: 127579917--127579950 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
127579907 AAATGGATTT
127579917 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
127579934 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
127579950 A
1 A
127579951 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:127580880 original size:15 final size:15
Alignment explanation
Indices: 127580851--127580912 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
127580841 GTAGAAAGCC
* *
127580851 TATTTTTTTTTCTAG
1 TATTTTATTTACTAG
127580866 TATTTTATTTACTAG
1 TATTTTATTTACTAG
**
127580881 CGTGTTTATTTACTAGCG
1 TAT-TTTATTTACTA--G
127580899 TA-TTTATTTACTAG
1 TATTTTATTTACTAG
127580913 CGTATTTGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 1 0.03
15 14 0.37
16 22 0.58
18 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (15 bp):
TATTTTATTTACTAG
Found at i:127580890 original size:16 final size:16
Alignment explanation
Indices: 127580869--127580919 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
127580859 TTTCTAGTAT
*
127580869 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
127580885 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
127580901 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
127580917 TTT
1 TTT
127580920 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:127582270 original size:13 final size:14
Alignment explanation
Indices: 127582237--127582270 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
127582227 GCCCGGAGGC
*
127582237 TAAAGAAAAAGTGA
1 TAAAAAAAAAGTGA
127582251 TAAAAAAAAAGTGA
1 TAAAAAAAAAGTGA
127582265 TGAAAA
1 T-AAAA
127582271 GTTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TAAAAAAAAAGTGA
Found at i:127583555 original size:9 final size:9
Alignment explanation
Indices: 127583541--127583629 Score: 57
Period size: 9 Copynumber: 10.3 Consensus size: 9
127583531 AGAAATAAAT
127583541 ATATATATA
1 ATATATATA
127583550 ATATATA-A
1 ATATATATA
*
127583558 AAATAATATTA
1 ATAT-ATA-TA
127583569 ATATATA-A
1 ATATATATA
127583577 ATATA-A-A
1 ATATATATA
127583584 A-ATATATA
1 ATATATATA
* *
127583592 AAATATTTA
1 ATATATATA
127583601 GATATA-A-A
1 -ATATATATA
* *
127583609 ATATTTAGA
1 ATATATATA
127583618 ATATATATA
1 ATATATATA
127583627 ATA
1 ATA
127583630 AAATAGATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
6 3 0.05
7 8 0.13
8 14 0.22
9 27 0.43
10 7 0.11
11 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATATATATA
Found at i:127583570 original size:19 final size:19
Alignment explanation
Indices: 127583537--127583594 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
127583527 AAATAGAAAT
127583537 AAATATATATATAATATATAA
1 AAATA-ATAT-TAATATATAA
127583558 AAATAATATTAATATATAA
1 AAATAATATTAATATATAA
*
127583577 ATATAA-A--AATATATAA
1 AAATAATATTAATATATAA
127583593 AA
1 AA
127583595 TATTTAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 10 0.29
18 1 0.03
19 15 0.43
20 4 0.11
21 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATAATATTAATATATAA
Found at i:127583581 original size:34 final size:35
Alignment explanation
Indices: 127583510--127583651 Score: 109
Period size: 34 Copynumber: 4.1 Consensus size: 35
127583500 TTTTGTATTG
* * * *
127583510 TATATAATGTATACAAAA-A-ATAGAAATAAATATA
1 TATATAATATATA-AAAATAGATATAAATATATAAA
*
127583544 TATATAATATATAAAAATA-ATATTAATATATAAA
1 TATATAATATATAAAAATAGATATAAATATATAAA
* *
127583578 TATAAAAATATATAAAATATTTAGATATAAAATATTTAGAA
1 TAT-ATAATATATAAAA-A--TAGATAT-AAATATATA-AA
127583619 TATAT-ATA-AT-AAAATAGATAT-AATATATAAA
1 TATATAATATATAAAAATAGATATAAATATATAAA
127583650 TA
1 TA
127583652 AATTGAATAT
Statistics
Matches: 90, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
31 4 0.04
32 7 0.08
33 4 0.04
34 34 0.38
35 12 0.13
36 2 0.02
37 3 0.03
38 4 0.04
39 7 0.08
40 8 0.09
41 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (35 bp):
TATATAATATATAAAAATAGATATAAATATATAAA
Found at i:127583596 original size:25 final size:24
Alignment explanation
Indices: 127583533--127583651 Score: 109
Period size: 24 Copynumber: 4.9 Consensus size: 24
127583523 CAAAAAATAG
*
127583533 AAATAAATAT-ATATATAATATATA
1 AAATATATATAATATATAA-ATATA
127583557 AAA-ATAATATTAATATATAAATATAA
1 AAATAT-ATA-TAATATATAAATAT-A
* * *
127583583 AAATATATAAAATATTTAGATATA
1 AAATATATATAATATATAAATATA
* * *
127583607 AAATATTTAGAATATATATA-ATA
1 AAATATATATAATATATAAATATA
*
127583630 AAATAGATATAATATATAAATA
1 AAATATATATAATATATAAATA
127583652 AATTGAATAT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
23 20 0.26
24 24 0.31
25 16 0.21
26 15 0.19
27 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (24 bp):
AAATATATATAATATATAAATATA
Found at i:127583607 original size:15 final size:16
Alignment explanation
Indices: 127583587--127583622 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
127583577 ATATAAAAAT
127583587 ATATAAAATATTTAG-
1 ATATAAAATATTTAGA
127583602 ATATAAAATATTTAGA
1 ATATAAAATATTTAGA
127583618 ATATA
1 ATATA
127583623 TATAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATAAAATATTTAGA
Found at i:127583661 original size:22 final size:22
Alignment explanation
Indices: 127583533--127583672 Score: 85
Period size: 23 Copynumber: 6.2 Consensus size: 22
127583523 CAAAAAATAG
*
127583533 AAATAAATATATATATAATATAT
1 AAATAAA-ATAGATATAATATAT
127583556 --A-AAAATA-ATATTAATATAT
1 AAATAAAATAGATA-TAATATAT
* * *
127583575 AAATATAAAAATATATAAAATATTT
1 -AA-AT-AAAATAGATATAATATAT
** *
127583600 AGATATAAAATATTTAGAATATAT
1 A-A-ATAAAATAGATATAATATAT
127583624 ATAATAAAATAGATATAATATAT
1 A-AATAAAATAGATATAATATAT
*
127583647 AAAT-AAATTGAATATAATAT-T
1 AAATAAAATAG-ATATAATATAT
127583668 AAATA
1 AAATA
127583673 GATAAATAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
18 3 0.03
19 11 0.11
20 3 0.03
21 11 0.11
22 12 0.12
23 19 0.20
24 18 0.19
25 16 0.17
26 3 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
AAATAAAATAGATATAATATAT
Found at i:127584078 original size:13 final size:13
Alignment explanation
Indices: 127584060--127584086 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
127584050 GTTATTCATA
127584060 ATTAATATGAATT
1 ATTAATATGAATT
127584073 ATTAATATGAATT
1 ATTAATATGAATT
127584086 A
1 A
127584087 GAGACTCGAA
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:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:127584275 original size:19 final size:21
Alignment explanation
Indices: 127584247--127584296 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
127584237 AAATTAAAAT
127584247 TTTATATATATA-TTTAT-TA
1 TTTATATATATATTTTATATA
*
127584266 TTTATCTATATATTTTATATA
1 TTTATATATATATTTTATATA
127584287 TTTA-ATATAT
1 TTTATATATAT
127584297 TTAATATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 10 0.37
21 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATATATATTTTATATA
Found at i:127584395 original size:17 final size:17
Alignment explanation
Indices: 127584373--127584411 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
127584363 CTGACTCCAT
*
127584373 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
127584390 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
127584407 TTTTA
1 TTTTA
127584412 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:127584577 original size:15 final size:17
Alignment explanation
Indices: 127584547--127584578 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
127584537 GTCAAAATCT
127584547 TTTTATGCAGTTATATA
1 TTTTATGCAGTTATATA
127584564 TTTTATG-A-TTATATA
1 TTTTATGCAGTTATATA
127584579 AATGAAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTATGCAGTTATATA
Found at i:127585228 original size:18 final size:18
Alignment explanation
Indices: 127585201--127585243 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
127585191 CGCATAAAAA
* *
127585201 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
127585219 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
127585237 GAAAGAA
1 GAAAGAA
127585244 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:127589987 original size:15 final size:15
Alignment explanation
Indices: 127589967--127589997 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
127589957 GACGGTTCCG
127589967 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
127589982 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
127589997 T
1 T
127589998 ACTGATACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:127593443 original size:20 final size:19
Alignment explanation
Indices: 127593413--127593496 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
127593403 GATGTTAGAA
127593413 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
127593433 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
127593451 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
127593469 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
127593489 TATCTATT
1 TAT-TATT
127593497 TCTTATCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 8 0.15
20 23 0.43
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Found at i:127593458 original size:16 final size:17
Alignment explanation
Indices: 127593418--127593467 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
127593408 TAGAATATTA
127593418 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
127593438 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
127593454 ATTCTAATATATAT
1 ATTCTATTATATAT
127593468 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:127595222 original size:18 final size:18
Alignment explanation
Indices: 127595201--127595237 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
127595191 AATTCGACGC
* *
127595201 AGTGGATAAATTAGATAA
1 AGTGGAAAAATGAGATAA
127595219 AGTGGAAAAATGAGATAA
1 AGTGGAAAAATGAGATAA
127595237 A
1 A
127595238 CCAGCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTGGAAAAATGAGATAA
Found at i:127598112 original size:17 final size:17
Alignment explanation
Indices: 127598090--127598123 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
127598080 ATAGATTCGC
*
127598090 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
127598107 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
127598124 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:127607136 original size:24 final size:25
Alignment explanation
Indices: 127607094--127607146 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
127607084 TTTTCTTTCT
127607094 ATATTATTAATATTATTT-ATTTAA
1 ATATTATTAATATTATTTAATTTAA
*
127607118 ATATTATTAATA-TATTTTAATTTAT
1 ATATTATTAATATTA-TTTAATTTAA
127607143 ATAT
1 ATAT
127607147 ATTTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 15 0.58
25 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTAATATTATTTAATTTAA
Found at i:127607149 original size:24 final size:23
Alignment explanation
Indices: 127607093--127607162 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
127607083 ATTTTCTTTC
127607093 TATAT-TATTAATATTATTTATT
1 TATATATATTAATATTATTTATT
*
127607115 TAAATATTATTAATA-TATTTTAATT
1 TATATA-TATTAATATTA-TTT-ATT
*
127607140 TATATATATTTAA-ATTATATATT
1 TATATATA-TTAATATTATTTATT
127607163 GAAATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 16 0.41
25 14 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATATTAATATTATTTATT
Found at i:127607157 original size:15 final size:14
Alignment explanation
Indices: 127607127--127607162 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
127607117 AATATTATTA
*
127607127 ATATATTTTAATTT
1 ATATATTTTAAATT
127607141 ATATATATTTAAATT
1 ATATAT-TTTAAATT
127607156 ATATATT
1 ATATATT
127607163 GAAATGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:127607374 original size:21 final size:21
Alignment explanation
Indices: 127607334--127607372 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
127607324 AAATCATGGA
127607334 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
127607355 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
127607373 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:127609916 original size:12 final size:12
Alignment explanation
Indices: 127609899--127609923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127609889 ATTTTATAAC
127609899 ATAAATATTGTT
1 ATAAATATTGTT
127609911 ATAAATATTGTT
1 ATAAATATTGTT
127609923 A
1 A
127609924 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:127621684 original size:13 final size:15
Alignment explanation
Indices: 127621658--127621697 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
127621648 CCTTAATTTA
127621658 TTAATATTTATTAAT
1 TTAATATTTATTAAT
127621673 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
127621686 TTAATATTTATT
1 TTAATATTTATT
127621698 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:127626096 original size:79 final size:80
Alignment explanation
Indices: 127626013--127626160 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
127626003 TATGGTAACC
* * * *
127626013 CGCACCAAGGCCTAC-GGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
127626076 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
127626092 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
127626157 CCGG
66 CCGG
127626161 TTATAATTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
79 13 0.23
80 43 0.77
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:127626102 original size:40 final size:38
Alignment explanation
Indices: 127626053--127626160 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
127626043 ATCACGATTT
*
127626053 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
127626093 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
127626133 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
127626161 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:127634208 original size:80 final size:80
Alignment explanation
Indices: 127634124--127634272 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
127634114 TATGGTAACC
* * * *
127634124 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
127634188 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
127634204 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
127634269 CCGG
66 CCGG
127634273 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:127634214 original size:40 final size:38
Alignment explanation
Indices: 127634165--127634272 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
127634155 ATCACGATTT
*
127634165 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
127634205 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
127634245 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
127634273 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:127637798 original size:34 final size:34
Alignment explanation
Indices: 127637757--127637824 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
127637747 CTTGAAAGTG
*
127637757 AAAACTTCATGAAAACATAACTAATTTCCTTTCC
1 AAAACTTCATGAAAACACAACTAATTTCCTTTCC
127637791 AAAACTTCATGAAAACACAACTAATTTCCTTTCC
1 AAAACTTCATGAAAACACAACTAATTTCCTTTCC
127637825 TACGAGCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (34 bp):
AAAACTTCATGAAAACACAACTAATTTCCTTTCC
Found at i:127639291 original size:27 final size:27
Alignment explanation
Indices: 127639143--127639282 Score: 201
Period size: 27 Copynumber: 5.2 Consensus size: 27
127639133 AACAACCATC
* * *
127639143 TTACCATAAAAGGGCAAAACAGTCGTT
1 TTACCACATAAGGGCAAAACAGTCATT
127639170 TTACCACATAAGGGCAAAACAGTCATT
1 TTACCACATAAGGGCAAAACAGTCATT
*
127639197 TTACCACATAAGGGCAAAACAATCATT
1 TTACCACATAAGGGCAAAACAGTCATT
* **
127639224 TTACCTCATAAGGGCAAAACAACCATT
1 TTACCACATAAGGGCAAAACAGTCATT
*
127639251 TTACCTCATAAGGGCAAAACAGTCA-T
1 TTACCACATAAGGGCAAAACAGTCATT
127639277 TTACCA
1 TTACCA
127639283 ACTTGAGGGT
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 6 0.06
27 98 0.94
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (27 bp):
TTACCACATAAGGGCAAAACAGTCATT
Found at i:127643887 original size:27 final size:27
Alignment explanation
Indices: 127643820--127644077 Score: 180
Period size: 27 Copynumber: 9.6 Consensus size: 27
127643810 GTATACATTA
* * *
127643820 CATAGGGGTAAAACAATCATTTTACCAT
1 CATAAGGGCAAAACAATCATTTAACC-T
* * * * *
127643848 AAAAAGGG-GAAATAATCATTTAACCA
1 CATAAGGGCAAAACAATCATTTAACCT
* * * * * *
127643874 CGTAAGGGCAAAATAGTTATTTTACTT
1 CATAAGGGCAAAACAATCATTTAACCT
*
127643901 CATAAGGGCAAAACAGTCA-TTATACCT
1 CATAAGGGCAAAACAATCATTTA-ACCT
* * * *
127643928 CATAAAGGAAAAACAATCATTTTACCC
1 CATAAGGGCAAAACAATCATTTAACCT
* * *
127643955 CATAAGGGTAAAACAATTATTTTACCT
1 CATAAGGGCAAAACAATCATTTAACCT
*
127643982 CATAAGGGCAAAACAATCATTTAACCA
1 CATAAGGGCAAAACAATCATTTAACCT
* * * *
127644009 CAAAAGGGCGAAACAGTCATTTTACAC-
1 CATAAGGGCAAAACAATCATTTAAC-CT
* * *
127644036 CATAAGGGGACAACAATCATTTTACCT
1 CATAAGGGCAAAACAATCATTTAACCT
* *
127644063 CAAAAAGGCAAAACA
1 CATAAGGGCAAAACA
127644078 GTTATTCACC
Statistics
Matches: 178, Mismatches: 47, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
26 8 0.04
27 162 0.91
28 8 0.04
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.24
Consensus pattern (27 bp):
CATAAGGGCAAAACAATCATTTAACCT
Found at i:127643950 original size:54 final size:54
Alignment explanation
Indices: 127643820--127644079 Score: 229
Period size: 54 Copynumber: 4.8 Consensus size: 54
127643810 GTATACATTA
* * * * * *
127643820 CATAGGGGTAAAACAATCATTTTACCATAAAAAGGGGAAATA-A-TCATTTAACCA
1 CATAAGGGAAAAACAATCATTTTACC-TCAAAAGGGCAAA-ACAGTCATTTTACCT
* * * * * * * *
127643874 CGTAAGGGCAAAATAGTTATTTTACTTCATAAGGGCAAAACAGTCATTATACCT
1 CATAAGGGAAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCT
* * * * * *
127643928 CATAAAGGAAAAACAATCATTTTACCCCATAAGGGTAAAACAATTATTTTACCT
1 CATAAGGGAAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCT
* * * *
127643982 CATAAGGGCAAAACAATCATTTAACCACAAAAGGGCGAAACAGTCATTTTACAC-
1 CATAAGGGAAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC-CT
* * *
127644036 CATAAGGGGACAACAATCATTTTACCTCAAAAAGGCAAAACAGT
1 CATAAGGGAAAAACAATCATTTTACCTCAAAAGGGCAAAACAGT
127644080 TATTCACCAA
Statistics
Matches: 163, Mismatches: 40, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
52 1 0.01
53 11 0.07
54 150 0.92
55 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (54 bp):
CATAAGGGAAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCT
Found at i:127643975 original size:81 final size:81
Alignment explanation
Indices: 127643820--127644079 Score: 247
Period size: 81 Copynumber: 3.2 Consensus size: 81
127643810 GTATACATTA
* * * * * * * * * *
127643820 CATAGGGGTAAAACAATCATTTTACCATAAAAAGGG-GAAATAATCATTTAACCACGTAAGGGCA
1 CATAAGGGCAAAACAGTCATTTAACCA-CAAAAGGGAAAAACAATCATTTTACCCCATAAGGGCA
* * *
127643884 AAATAGTTATTTTACTT
65 AAACAATTATTTTACCT
* *
127643901 CATAAGGGCAAAACAGTCA-TTATACCTCATAAA-GGAAAAACAATCATTTTACCCCATAAGGGT
1 CATAAGGGCAAAACAGTCATTTA-ACCACA-AAAGGGAAAAACAATCATTTTACCCCATAAGGGC
127643964 AAAACAATTATTTTACCT
64 AAAACAATTATTTTACCT
* ** * * * *
127643982 CATAAGGGCAAAACAATCATTTAACCACAAAAGGGCGAAACAGTCATTTTACACCATAAGGGGAC
1 CATAAGGGCAAAACAGTCATTTAACCACAAAAGGGAAAAACAATCATTTTACCCCATAAGGGCAA
*
127644047 AACAATCATTTTACCT
66 AACAATTATTTTACCT
* *
127644063 CAAAAAGGCAAAACAGT
1 CATAAGGGCAAAACAGT
127644080 TATTCACCAA
Statistics
Matches: 147, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
80 8 0.05
81 136 0.93
82 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (81 bp):
CATAAGGGCAAAACAGTCATTTAACCACAAAAGGGAAAAACAATCATTTTACCCCATAAGGGCAA
AACAATTATTTTACCT
Found at i:127645419 original size:12 final size:12
Alignment explanation
Indices: 127645402--127645429 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
127645392 CCTTAATTCT
127645402 CTCCTAAAATCC
1 CTCCTAAAATCC
127645414 CTCCTAAAATCC
1 CTCCTAAAATCC
127645426 CTCC
1 CTCC
127645430 AAGACCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.25
Consensus pattern (12 bp):
CTCCTAAAATCC
Found at i:127647032 original size:48 final size:48
Alignment explanation
Indices: 127646961--127647055 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
127646951 TAATCACTTG
127646961 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGATAAAAAAAAA
1 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGATAAAAAAAAA
127647009 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGATAAAAAAAA
1 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGATAAAAAAAA
127647056 TTATGAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.21
Consensus pattern (48 bp):
TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGATAAAAAAAAA
Found at i:127647075 original size:47 final size:48
Alignment explanation
Indices: 127646973--127647075 Score: 136
Period size: 48 Copynumber: 2.2 Consensus size: 48
127646963 TTTCTACAAG
*** * *
127646973 CTCAAGCACACTTTAGACAAGAAAGATAAAAAAAAATATTTCTACAAG
1 CTCAAGCACACTTTAGACAAGAAAGATAAAAAAAAATATTGAAAAAAA
*
127647021 CTCAAGCACACTTTAGACAAGAAAGATAAAAAAAATTA-TGAAAAAAA
1 CTCAAGCACACTTTAGACAAGAAAGATAAAAAAAAATATTGAAAAAAA
*
127647068 CTTAAGCA
1 CTCAAGCA
127647076 TAAACTTCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 11 0.23
48 37 0.77
ACGTcount: A:0.54, C:0.16, G:0.11, T:0.19
Consensus pattern (48 bp):
CTCAAGCACACTTTAGACAAGAAAGATAAAAAAAAATATTGAAAAAAA
Found at i:127648626 original size:36 final size:36
Alignment explanation
Indices: 127648579--127648686 Score: 198
Period size: 36 Copynumber: 3.0 Consensus size: 36
127648569 TAGTAGGAAT
127648579 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
1 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
127648615 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
1 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
* *
127648651 GCCTCTTCTCATGTACCAATGGAAAACATGTAGAAA
1 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
127648687 CTAAATTCAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (36 bp):
GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
Found at i:127650535 original size:16 final size:16
Alignment explanation
Indices: 127650510--127650555 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
127650500 AAACTTTCGA
*
127650510 CTTTTTGGCATTTTGG
1 CTTTTCGGCATTTTGG
*
127650526 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTTGG
*
127650542 CATTTCGGC-TTTTG
1 CTTTTCGGCATTTTG
127650556 ACGATTGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.07, C:0.20, G:0.24, T:0.50
Consensus pattern (16 bp):
CTTTTCGGCATTTTGG
Found at i:127654891 original size:5 final size:5
Alignment explanation
Indices: 127654879--127654922 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
127654869 TTACTTTATT
* * *
127654879 TAAT- TAATA TAATA TGATA TAATA TAAGA TAATA TAAGA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
127654923 ATATTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (5 bp):
TAATA
Found at i:127661258 original size:41 final size:41
Alignment explanation
Indices: 127661159--127661292 Score: 175
Period size: 40 Copynumber: 3.3 Consensus size: 41
127661149 GATATCTCAT
* * * * *
127661159 ACACTAAGTGTCGTACATAGCCGAAGCTATCT-TA-CATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGATC-TCGC
*
127661199 ACACTAAGTGCCAAATATAGCCGAAGCTATCTCGATCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTCGC
*
127661240 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAT-TCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTCGC
127661280 ACACTAAGTGCCA
1 ACACTAAGTGCCA
127661293 CAAATAAATG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 45 0.54
41 38 0.45
42 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTCGC
Found at i:127668221 original size:47 final size:47
Alignment explanation
Indices: 127668151--127668323 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
127668141 CCCTTCGGGA
* *
127668151 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
127668198 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
127668245 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
127668292 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
127668324 ATTTCATCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:127668298 original size:22 final size:22
Alignment explanation
Indices: 127668226--127668301 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
127668216 CTTCACATCC
*
127668226 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
127668248 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
127668272 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
127668295 ATCACAT
1 ATCACAT
127668302 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:127680854 original size:13 final size:14
Alignment explanation
Indices: 127680836--127680876 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
127680826 CTAGTCTCTC
127680836 TTAATTTTTAATT-
1 TTAATTTTTAATTA
*
127680849 TTAA-TTTTATTTA
1 TTAATTTTTAATTA
127680862 TTAATTTTTTAATTA
1 TTAA-TTTTTAATTA
127680877 ATTGAGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.30
13 8 0.35
15 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTAATTTTTAATTA
Found at i:127681876 original size:19 final size:19
Alignment explanation
Indices: 127681852--127681888 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
127681842 GCTGAAACTT
127681852 CAATGTTTAGAGCTCAACG
1 CAATGTTTAGAGCTCAACG
127681871 CAATGTTTAGAGCTCAAC
1 CAATGTTTAGAGCTCAAC
127681889 CGCCTAGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (19 bp):
CAATGTTTAGAGCTCAACG
Found at i:127685319 original size:71 final size:69
Alignment explanation
Indices: 127685231--127685392 Score: 306
Period size: 71 Copynumber: 2.3 Consensus size: 69
127685221 GAGATGTATC
127685231 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCC-A-TGA
127685296 AGGACA
64 AGGACA
127685302 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCATGAAG
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCATGAAG
127685367 GACA
66 GACA
127685371 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
127685393 AGACAAATCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 31 0.34
70 1 0.01
71 59 0.65
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCATGAAG
GACA
Found at i:127692118 original size:29 final size:28
Alignment explanation
Indices: 127692084--127692186 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
127692074 TACTCAATCA
*
127692084 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
127692113 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
127692142 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
127692171 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
127692187 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:127700118 original size:29 final size:28
Alignment explanation
Indices: 127700084--127700186 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
127700074 TACTCAATCA
*
127700084 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
127700113 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
127700142 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
127700171 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
127700187 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:127711896 original size:55 final size:53
Alignment explanation
Indices: 127711770--127712167 Score: 258
Period size: 55 Copynumber: 7.5 Consensus size: 53
127711760 AACTTACCAT
* * * * *
127711770 TGCCATATCTTGACATGGTCTTACGTGGTATACTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAA
* * * *
127711823 TGTCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAA
**** *
127711878 TGCCATGTCTTGACATGGTCTTACATTATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACA-TGGGACCTTGCCTTATAGAACTCATCAA
* * ** *
127711932 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTC-T-T---AC-CA--AA
1 TGCCATGTCTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAA
* *** * * * * *
127711978 TGTCATGTTCCAAACATGGTCTTACATAGTATCTTTGTCTTA-AGAACTCACCAA
1 TGCCATG-TCTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAA
* * *
127712032 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGACTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAA
* *** * * *
127712087 TGCCATGTCTTGTCATGGTCTTACATGATTTCATTGCCTTATAGAAATTATCAA
1 TGCCATGTCTTGACATGGTCTTACATG-GGACCTTGCCTTATAGAACTCATCAA
* * * *
127712141 TGGCAAGCCTTGGCATGGTCTTACATG
1 TGCCATGTCTTGACATGGTCTTACATG
127712168 ATATCCTTAT
Statistics
Matches: 269, Mismatches: 58, Indels: 35
0.74 0.16 0.10
Matches are distributed among these distances:
46 8 0.03
47 23 0.09
48 2 0.01
49 2 0.01
51 2 0.01
52 5 0.02
53 58 0.22
54 80 0.30
55 85 0.32
56 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGGACCTTGCCTTATAGAACTCATCAA
Found at i:127711957 original size:109 final size:109
Alignment explanation
Indices: 127711770--127712167 Score: 433
Period size: 109 Copynumber: 3.7 Consensus size: 109
127711760 AACTTACCAT
* * * * *
127711770 TGCCATATCTTGACATGGTCTTACGTGGTATACTTGCCTTAT-GAACTCACCAATGTCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
127711834 GGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
66 GGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
* * * *
127711878 TGCCATGTCTTGACATGGTCTTACATTATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
* * * *
127711943 GGCATGGTCTTACAT--GA---TATCCTTGT-CTTAC-CA--AA
66 GGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
* *** * *
127711978 TGTCATGTTCCAAACATGGTCTTACAT-AGTATCTTTGTCTTA-AGAACTCACCAATGCCATGCC
1 TGCCATG-TCTTGACATGGTCTTACATGA-TATCCTTGCCTTATAGAACTCACCAATGCCATGCC
**
127712041 TTGGCATGGTCTTACATGGGACCTTTGACTTATAGTAACTCATCAA
64 TTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
* * * * * * * *
127712087 TGCCATGTCTTGTCATGGTCTTACATGATTTCATTGCCTTATAGAAATTATCAATGGCAAGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
127712152 GGCATGGTCTTACATG
66 GGCATGGTCTTACATG
127712168 ATATCCTTAT
Statistics
Matches: 235, Mismatches: 41, Indels: 27
0.78 0.14 0.09
Matches are distributed among these distances:
100 45 0.19
101 26 0.11
102 4 0.02
103 3 0.01
104 7 0.03
105 5 0.02
106 3 0.01
107 4 0.02
108 61 0.26
109 77 0.33
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (109 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
GGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
Found at i:127712033 original size:100 final size:101
Alignment explanation
Indices: 127711890--127712206 Score: 329
Period size: 100 Copynumber: 3.1 Consensus size: 101
127711880 CCATGTCTTG
*
127711890 ACATGGTCTTACATTA-TTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTT
1 ACATGGTCTTACA-TAGTTTCATTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTT
*
127711954 ACATGATATCCTTGTCTTACCAAATGTCATGTTCCAA
65 ACATGATATCCTTGTCTTACCAAATGCCATGTTCCAA
* * * * *
127711991 ACATGGTCTTACATAGTATCTTTGTCTTA-AGAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATAGTTTCATTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
** * ***
127712055 CATGGGA-CCTTTGACTTATAGTAACTCATCAATGCCATG-TCTTG
66 CATGATATCC-TTG---TCT--T-AC-CA--AATGCCATGTTCCAA
* * * *
127712099 TCATGGTCTTACAT-GATTTCATTGCCTTATAGAAATTATCAATGGCAAGCCTTGGCATGGTCTT
1 ACATGGTCTTACATAG-TTTCATTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTT
*
127712163 ACATGATATCCTTATCTTACCAAATGCCATGTTCCAA
65 ACATGATATCCTTGTCTTACCAAATGCCATGTTCCAA
127712200 ACATGGT
1 ACATGGT
127712207 ATCCTTGTCT
Statistics
Matches: 172, Mismatches: 29, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
99 2 0.01
100 52 0.30
101 31 0.18
102 2 0.01
103 4 0.02
104 1 0.01
105 1 0.01
106 4 0.02
107 3 0.02
108 25 0.15
109 45 0.26
110 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (101 bp):
ACATGGTCTTACATAGTTTCATTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTGTCTTACCAAATGCCATGTTCCAA
Found at i:127712142 original size:209 final size:209
Alignment explanation
Indices: 127711782--127712206 Score: 699
Period size: 209 Copynumber: 2.0 Consensus size: 209
127711772 CCATATCTTG
* * * *
127711782 ACATGGTCTTACGTGGTATACTTGCCTTATGAACTCACCAATGTCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATAGTATACTTGCCTTAAGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
** * *
127711847 ATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATTATTTCCT
66 ATGGGACCTTTGACTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCAT
* * *
127711912 TGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTACCAA
131 TGCCTTATAGAAATTATCAATGCCAAGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
*
127711977 ATGTCATGTTCCAA
196 ATGCCATGTTCCAA
*
127711991 ACATGGTCTTACATAGTAT-CTTTGTCTTAAGAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATAGTATAC-TTGCCTTAAGAACTCACCAATGCCATGCCTTGGCATGGTCTTA
*
127712055 CATGGGACCTTTGACTTATAGTAACTCATCAATGCCATGTCTTGTCATGGTCTTACATGATTTCA
65 CATGGGACCTTTGACTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCA
*
127712120 TTGCCTTATAGAAATTATCAATGGCAAGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA
130 TTGCCTTATAGAAATTATCAATGCCAAGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA
127712185 AATGCCATGTTCCAA
195 AATGCCATGTTCCAA
127712200 ACATGGT
1 ACATGGT
127712207 ATCCTTGTCT
Statistics
Matches: 200, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
208 1 0.00
209 199 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (209 bp):
ACATGGTCTTACATAGTATACTTGCCTTAAGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGGGACCTTTGACTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCAT
TGCCTTATAGAAATTATCAATGCCAAGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
ATGCCATGTTCCAA
Found at i:127712428 original size:44 final size:44
Alignment explanation
Indices: 127712345--127712431 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
127712335 GTATCCTTAA
* *
127712345 CCGTCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTT
* ** *
127712389 CCGTCAATTCTTCCTTAGTTGCCATGGTA-CAACCTTGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAA-CATGGACTTT
127712432 GAGATATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTT
Found at i:127715679 original size:19 final size:19
Alignment explanation
Indices: 127715655--127715718 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
127715645 AATTTTGAAT
*
127715655 TTTTATGAATTTTTATAAA
1 TTTTATAAATTTTTATAAA
* *
127715674 TTTTATAAATATTGATAAA
1 TTTTATAAATTTTTATAAA
** * *
127715693 CATTATAAATTATTATAAT
1 TTTTATAAATTTTTATAAA
127715712 TTTTATA
1 TTTTATA
127715719 GGTTTTAGTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTATAAATTTTTATAAA
Done.