Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009591.1 Hibiscus syriacus cultivar Beakdansim tig00116970_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2451160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:569332 original size:23 final size:23
Alignment explanation
Indices: 569288--569333 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
569278 AAATTATTAA
*
569288 AATAATTAAAAATATTATAAAAT
1 AATAATTAAAAATATTAAAAAAT
*
569311 AATAATTTATAAATA-TAAAAAAT
1 AATAA-TTAAAAATATTAAAAAAT
569334 TTATATCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AATAATTAAAAATATTAAAAAAT
Found at i:569376 original size:20 final size:21
Alignment explanation
Indices: 569343--569386 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
569333 TTTATATCCA
**
569343 AAAAATATTTACAAATT-ATT
1 AAAAATATAAACAAATTCATT
*
569363 AAAAATATAAACAATTTCATT
1 AAAAATATAAACAAATTCATT
569384 AAA
1 AAA
569387 GGTATCTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAATATAAACAAATTCATT
Found at i:569750 original size:22 final size:23
Alignment explanation
Indices: 569723--569766 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
569713 ATTAATTATA
569723 TATATATATAT-AT-ATTAAAATG
1 TATATATAT-TGATCATTAAAATG
569745 TATATATATTGATCATTAAAAT
1 TATATATATTGATCATTAAAAT
569767 AATGACTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 1 0.05
22 11 0.55
23 8 0.40
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (23 bp):
TATATATATTGATCATTAAAATG
Found at i:570322 original size:23 final size:23
Alignment explanation
Indices: 570291--570340 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
570281 CAAATGAATG
*
570291 TAAATGAACACAATAAACAAACA
1 TAAAAGAACACAATAAACAAACA
**
570314 TAAAAGAACACAATAAATGAACA
1 TAAAAGAACACAATAAACAAACA
570337 TAAA
1 TAAA
570341 CGACCATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (23 bp):
TAAAAGAACACAATAAACAAACA
Found at i:593709 original size:31 final size:30
Alignment explanation
Indices: 593661--593766 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 30
593651 AAAATTGTTT
* *
593661 AAATTTTAACTTAATTTTTTAATTTTAGATA
1 AAATATTAATTTAA-TTTTTAATTTTAGATA
* * *
593692 AAATATTAATTTGA-TTTTAATTTCATATA
1 AAATATTAATTTAATTTTTAATTTTAGATA
* * *
593721 AAATATTAATTTAATCATTAAACTTTAGATA
1 AAATATTAATTTAAT-TTTTAATTTTAGATA
*
593752 AAATATGAATTTAAT
1 AAATATTAATTTAAT
593767 CCATGTGTCG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 26 0.43
31 35 0.57
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (30 bp):
AAATATTAATTTAATTTTTAATTTTAGATA
Found at i:593713 original size:29 final size:29
Alignment explanation
Indices: 593677--593766 Score: 108
Period size: 29 Copynumber: 3.0 Consensus size: 29
593667 TAACTTAATT
*
593677 TTTTAATTTTAGATAAAATATTAATTTGA
1 TTTTAATTTTAGATAAAATATTAATTTAA
* *
593706 TTTTAATTTCATATAAAATATTAATTTAA
1 TTTTAATTTTAGATAAAATATTAATTTAA
* * *
593735 TCATTAAACTTTAGATAAAATATGAATTTAA
1 T--TTTAATTTTAGATAAAATATTAATTTAA
593766 T
1 T
593767 CCATGTGTCG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 27 0.53
31 24 0.47
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (29 bp):
TTTTAATTTTAGATAAAATATTAATTTAA
Found at i:594236 original size:22 final size:21
Alignment explanation
Indices: 594195--594243 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
594185 GAAAGAAAAG
*
594195 ATAAAATAATATGTAAAATAA
1 ATAAAATAATATATAAAATAA
*
594216 ATAAAATATATATATATAATAA
1 ATAAAATA-ATATATAAAATAA
*
594238 AGAAAA
1 ATAAAA
594244 AGAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
ATAAAATAATATATAAAATAA
Found at i:594282 original size:32 final size:31
Alignment explanation
Indices: 594209--594287 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 31
594199 AATAATATGT
*
594209 AAAAT-AAATAAAATATATATATATAATAAAG
1 AAAATAAAATAAAA-ATATATAAATAATAAAG
*
594240 AAAA-AGAATAAAAATATATAAATAA-AACAG
1 AAAATAAAATAAAAATATATAAATAATAA-AG
*
594270 ATAAATAAAATAATAATA
1 A-AAATAAAATAAAAATA
594288 AAAAAGTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 2 0.05
30 14 0.35
31 14 0.35
32 10 0.25
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (31 bp):
AAAATAAAATAAAAATATATAAATAATAAAG
Found at i:594291 original size:25 final size:26
Alignment explanation
Indices: 594214--594317 Score: 86
Period size: 32 Copynumber: 3.7 Consensus size: 26
594204 TATGTAAAAT
*
594214 AAATAAAATATATATATATAATAAAGAAAA
1 AAATAAAATATATA-ATA-AA-AAAG-TAA
* *
594244 AGAATAAAAATATATAAATAAAACAG-AT
1 A-AAT-AAAATATAT-AATAAAAAAGTAA
594272 AAATAAAATA-ATAATAAAAAAGTAA
1 AAATAAAATATATAATAAAAAAGTAA
594297 AAATAATATATATATAATAAA
1 AAATAA-A-ATATATAATAAA
594318 TAAAAACATA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
24 9 0.14
25 9 0.14
26 7 0.11
27 6 0.10
28 10 0.16
30 4 0.06
31 5 0.08
32 12 0.19
33 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATAAAATATATAATAAAAAAGTAA
Found at i:594307 original size:79 final size:78
Alignment explanation
Indices: 594195--594341 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 78
594185 GAAAGAAAAG
*
594195 ATAAAATAATATGTAAAATAAATAAAATATATATATATAATAAAGAAAAAGAAT-AAAAATATAT
1 ATAAAATAATATATAAAATAAATAAAATATATATATATAATAAAGAAAAA-AATAAAAAATAT-T
594259 AAATAAAACAGATAA
64 AAATAAAACAGATAA
* * *
594274 ATAAAATAATA-ATAAAA-AAGTAAAAATAATATATATATAATAAATAAAAACATAAAAAATATT
1 ATAAAATAATATATAAAATAAAT-AAAAT-ATATATATATAATAAAGAAAAAAATAAAAAATATT
594337 AAATA
64 AAATA
594342 TATATATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
77 3 0.05
78 18 0.30
79 40 0.66
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (78 bp):
ATAAAATAATATATAAAATAAATAAAATATATATATATAATAAAGAAAAAAATAAAAAATATTAA
ATAAAACAGATAA
Found at i:594335 original size:24 final size:25
Alignment explanation
Indices: 594229--594335 Score: 78
Period size: 28 Copynumber: 4.2 Consensus size: 25
594219 AAATATATAT
*
594229 ATATAATAAAGAAAAAG--AATAAA
1 ATATAATAAATAAAAAGATAATAAA
594252 A-ATATATAAATAAAACAGATAAATAAA
1 ATATA-ATAAATAAAA-AGAT-AATAAA
* * *
594279 ATAATAATAAAAAAGTAAAAATAATATAT
1 AT-ATAATAAATAA--AAAGATAATA-AA
*
594308 ATATAATAAATAAAAACATAA-AAA
1 ATATAATAAATAAAAAGATAATAAA
594332 ATAT
1 ATAT
594336 TAAATATATA
Statistics
Matches: 67, Mismatches: 7, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
22 3 0.04
23 10 0.15
24 7 0.10
25 1 0.01
26 7 0.10
27 7 0.10
28 21 0.31
29 9 0.13
30 2 0.03
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (25 bp):
ATATAATAAATAAAAAGATAATAAA
Found at i:594349 original size:43 final size:42
Alignment explanation
Indices: 594211--594398 Score: 142
Period size: 43 Copynumber: 4.5 Consensus size: 42
594201 TAATATGTAA
* * *
594211 AATAAATA-AAATATATATAT-AT-AATAAAGAA-AAAGAAT
1 AATAAATATATATATATATATAATAAATAAAAAATAAAAAAT
* * *
594249 AA-AAATATATAAATA-AAACAGATAAATAAAATAATAATAAAA-
1 AATAAATATATATATATATATA-ATAAATAAAA-AATAA-AAAAT
*
594291 AAGTAAAAATA-ATATATATATAATAAATAAAAACATAAAAAAT
1 AA-TAAATATATATATATATATAATAAATAAAAA-ATAAAAAAT
* * *
594334 ATTAAATATATATATAAAT-TAATAAAAACAAATAATAAAAAAT
1 AATAAATATATATATATATATAATAAATA-AAA-AATAAAAAAT
* *
594377 AACATATATATATATATATATA
1 AATAAATATATATATATATATA
594399 TGTAATTTAA
Statistics
Matches: 116, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
37 7 0.06
38 7 0.06
39 2 0.02
40 6 0.05
41 2 0.02
42 24 0.21
43 56 0.48
44 12 0.10
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (42 bp):
AATAAATATATATATATATATAATAAATAAAAAATAAAAAAT
Found at i:594367 original size:86 final size:82
Alignment explanation
Indices: 594214--594425 Score: 184
Period size: 83 Copynumber: 2.6 Consensus size: 82
594204 TATGTAAAAT
* * *
594214 AAATAAAATATATATATATAATAAAGAAAAAGAATAAAAATATATAAATAAAACAGATAAATAAA
1 AAATAAAATATATATATATAATAAAAAAAAAAAATAAAAATATATAAATAAAACAGATAAAAAAA
594279 ATAATAATAAAAAAGTAA
66 ATAATAA-AAAAAAGTAA
* * * **
594297 AAATAATATATATATA-ATAAATAAAAACATAAAAAATATTAAATATATATATAAATTA-ATAAA
1 AAATAAAATATATATATAT-AATAAAAA-A-AAAAAATA-AAAATATATAAATAAAACAGATAAA
594360 AACAAATAAT--AAAAAA-T-A
62 AA-AAATAATAAAAAAAAGTAA
* * * ***
594378 ACATATATATATATATATATATGTAATTTAAAAAAATAAAAATATATA
1 AAATA-AAATATATATATATA-ATAAAAAAAAAAAATAAAAATATATA
594426 TCAAAGTAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
80 9 0.08
81 13 0.12
82 16 0.15
83 33 0.31
84 1 0.01
85 13 0.12
86 22 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (82 bp):
AAATAAAATATATATATATAATAAAAAAAAAAAATAAAAATATATAAATAAAACAGATAAAAAAA
ATAATAAAAAAAAGTAA
Found at i:594384 original size:37 final size:39
Alignment explanation
Indices: 594209--594388 Score: 138
Period size: 38 Copynumber: 4.6 Consensus size: 39
594199 AATAATATGT
* *
594209 AAAATAAATAAA-ATATATATATATAATAAAGAAAAAGAATA
1 AAAATAAA-AAATA-ATATATATATAATAAATAAAAACAA-A
* * * * * *
594250 AAAATATATAAATAAAACAGATA-AATAAAATAATAATAAA
1 AAAATA-AAAAATAATATATATATAAT-AAATAAAAACAAA
*
594290 AAAGT-AAAAATAATATATATATAATAAATAAAAACATAA
1 AAAATAAAAAATAATATATATATAATAAATAAAAACA-AA
** *
594329 AAAATATTAAAT-ATATATATA-AATTAATAAAAAC-AA
1 AAAATAAAAAATAATATATATATAATAAATAAAAACAAA
* *
594365 ATAATAAAAAATAACATATATATA
1 AAAATAAAAAATAATATATATATA
594389 TATATATATA
Statistics
Matches: 109, Mismatches: 22, Indels: 19
0.73 0.15 0.13
Matches are distributed among these distances:
36 11 0.10
37 8 0.07
38 34 0.31
39 18 0.17
40 12 0.11
41 24 0.22
42 2 0.02
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (39 bp):
AAAATAAAAAATAATATATATATAATAAATAAAAACAAA
Found at i:595033 original size:37 final size:37
Alignment explanation
Indices: 594933--595043 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
594923 ATGCTTGTGG
** * *
594933 ATCATATTTTTAGGAGTTTGAATAATAGTAGAACTAT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
594970 ATCATATTTTTAGGAGTTTGAGTCCTAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
595007 ATCATATTTTTAGGAGTTTGAATCCTAAT-AAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
595043 A
1 A
595044 ACGTTATGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
36 8 0.12
37 59 0.88
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:595679 original size:85 final size:83
Alignment explanation
Indices: 595539--595783 Score: 237
Period size: 84 Copynumber: 2.9 Consensus size: 83
595529 ATGTGTCATC
* * * * *
595539 GAGCTGAATGGAATCGAACTCGACA-AT-TTTGTTGGCAGATAGCCCTTCTTGCCTTGAGTTATA
1 GAGCTGAACGTAATCGAACTCGA-AGGTCTTTGTTGGCAGATAACCCTTCTTACCTTGAGTTATA
* *
595602 CTGTAAATTTGATTTACCTCT-
65 CTGCAAA--TGATGTACCT-TG
* * * * * **
595623 GAGTTGAATGTAATTGAACTCGAAGGTCTTTGTTGGCAAATAACCCTTCTTACCTTGAGCTATGT
1 GAGCTGAACGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTACCTTGAGTTATAC
*
595688 TGCAAATGATGTGCCTTG
66 TGCAAATGATGTACCTTG
* * *
595706 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT-ATAGCCTTGAGTTAT
1 GAGCTGAACGTAATCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTTA-CCTTGAGTTAT
*
595770 AATGCAAATGATGT
64 ACTGCAAATGATGT
595784 CATCTTTGCT
Statistics
Matches: 133, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
82 1 0.01
83 37 0.28
84 59 0.44
85 36 0.27
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (83 bp):
GAGCTGAACGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTACCTTGAGTTATAC
TGCAAATGATGTACCTTG
Found at i:596540 original size:102 final size:102
Alignment explanation
Indices: 596433--597025 Score: 1069
Period size: 102 Copynumber: 5.8 Consensus size: 102
596423 ATATTTTGTG
* *
596433 TTTCAAGGGAAATGTTTTCAAAGTTTATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
596498 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
596535 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
596600 GTTCCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
596637 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAATTTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
596702 GTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
596739 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
596804 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
596841 TTTAAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
596906 GTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
596943 TTTCAAGGGAAATGTTGTCAATGTTTATGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
* *
597008 GTTCCAAAGGAAACTATC
66 GTTTCAAGGGAAACTATC
597026 AATGTTTATG
Statistics
Matches: 472, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 472 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:597043 original size:64 final size:64
Alignment explanation
Indices: 596960--597089 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 64
596950 GGAAATGTTG
*
596960 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAA-TGGAGACAAAATTTTGTTCCAAAGGAAACTA
1 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGT-GAAACAAAATTTTGTTCCAAAGGAAACTA
* *
597024 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGTGAAACAAAATTTTGTTTCAAGGGAAACTA
1 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGTGAAACAAAATTTTGTTCCAAAGGAAACTA
597088 TC
1 TC
597090 TCAAGAGAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 61 0.98
65 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (64 bp):
TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGTGAAACAAAATTTTGTTCCAAAGGAAACTA
Found at i:597050 original size:166 final size:166
Alignment explanation
Indices: 596858--597191 Score: 578
Period size: 166 Copynumber: 2.0 Consensus size: 166
596848 GGAAATGTTT
* *
596858 TCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAATTTTGTTTCAAGGGAAACTAT
1 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTAT
* *
596923 CTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGTTGTCAATGTTTATGTTTCAAGAGAAACTGT
66 CTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTGTCAATGTTTATGTTTAAAGAGAAACTGT
*
596988 CTCAATGGAGACAAAATTTTGTTCCAAAGGAAACTA
131 CTCAAAGGAGACAAAATTTTGTTCCAAAGGAAACTA
*
597024 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGTGAAACAAAATTTTGTTTCAAGGGAAACTAT
1 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTAT
* *
597089 CTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGT
66 CTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTGTCAATGTTTATGTTTAAAGAGAAACTGT
* *
597154 CTCAAAGGAGACAAAATTTTGTTTCAAGGGAAACTA
131 CTCAAAGGAGACAAAATTTTGTTCCAAAGGAAACTA
597190 TC
1 TC
597192 TCAAGAGAGG
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
166 158 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (166 bp):
TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTAT
CTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTGTCAATGTTTATGTTTAAAGAGAAACTGT
CTCAAAGGAGACAAAATTTTGTTCCAAAGGAAACTA
Found at i:597068 original size:268 final size:265
Alignment explanation
Indices: 596701--597709 Score: 1074
Period size: 268 Copynumber: 3.8 Consensus size: 265
596691 GACAAATTTT
* * * * * *
596701 TGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAATT-TTGTTCAAAGGAAA---TATCAATGTTT
*
596765 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
61 ATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
* * * *
596830 GACAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGA
126 GACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGA
*
596895 GACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGTTG
191 GACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGTTT
596960 TCAATGTTTA
256 TCAATGTTTA
596970 TGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTTTGTTCCAAAGGAAACTATCAATGTTTAT
1 TGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAATTTTGTT-CAAAGGAAA-TATCAATGTTTAT
*
597035 GTTTCAAGAGAAACTGTCTCAAGTGAAACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
63 GTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
597100 CAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAAGGAGA
128 CAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGA
*
597165 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATTTTTTC
193 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGTTTTC
597230 AATGTTTA
258 AATGTTTA
** * * * * *
597238 TGTTTCAAGAGAAACAATATCAAGTGAGACAAAATTTTGTTTC-AAGGGAA-A-CAAT-CTCAAG
1 TGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAATTTTG-TTCAAAGGAAATATCAATGTTTATG
* * * * * * * * *
597299 ---CGATATA-AAATTTTCTTTAA---AAAC--AGTCTTGTTTCAAGGGAAAATTGTCTCAAGCG
64 TTTC-A-AGAGAAACTGTC-TCAAGGGAAACAAAATTTTGTTTCAAGGG-AAACTATCTCAAGAG
* *** * * *
597355 AGACGAAATTTATTTCAAGGGAAACAATCTCAAAGGTTTGTGTTTCAAGAGAAACTGTCTC-AA-
125 AGACAAAATTTATTTCAAGGGAAATGTTTTC-AATGTTTATGTTTCAAGAGAAACTGTCTCAAAG
* * * ** **
597418 -A-AC------TCGTTTCAAGGGGAACTAAT-TC-A-A-A---TATTTTGTGTTTCAAGGGAAAT
189 GAGACAAAATTTTGTTTCAAGGGAAACT-ATCTCAAGAGAGGCAAAATT-CATTTCAAGGGAAAT
*
597468 GTTTTCAAAGTTTA
252 GTTTTCAATGTTTA
* * *
597482 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAATT-TTGTTCAAAGGAAA---TATCAATGTTT
* * *
597546 ATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATTGTTTCAAGGGAAACTATCTCAAGAGA
61 ATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
* * * * **
597611 GGCAAAATTAATTTCAAGGGAAATGTTTTTAATGTTTATATTTCAAGAGAAACAATCTCAAAGGA
126 GACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGA
597676 GACAAAATTTTGTTTCAAGGGAAACTATCTCAAG
191 GACAAAATTTTGTTTCAAGGGAAACTATCTCAAG
597710 CGAGATAAAA
Statistics
Matches: 612, Mismatches: 85, Indels: 89
0.78 0.11 0.11
Matches are distributed among these distances:
243 6 0.01
244 61 0.10
245 2 0.00
246 1 0.00
247 1 0.00
248 1 0.00
249 21 0.03
250 4 0.01
251 5 0.01
252 7 0.01
253 1 0.00
254 27 0.04
255 39 0.06
256 15 0.02
257 15 0.02
258 42 0.07
259 30 0.05
260 1 0.00
261 7 0.01
262 5 0.01
263 5 0.01
264 21 0.03
265 2 0.00
267 7 0.01
268 242 0.40
269 35 0.06
270 9 0.01
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (265 bp):
TGTTTCAAGAGAAACTGTCTCAAGGAGACAAAATTTTGTTCAAAGGAAATATCAATGTTTATGTT
TCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAA
AATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
AATTTTGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGTTTTCAAT
GTTTA
Found at i:597120 original size:36 final size:36
Alignment explanation
Indices: 597036--597222 Score: 117
Period size: 37 Copynumber: 5.3 Consensus size: 36
597026 AATGTTTATG
* * * * *
597036 TTTCAAGAGAAACTGTCTCAAGTGAAACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTA
597073 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
* * *
597109 TTTCAAGGGAAA-TGTTTTC-A-A-TG------TTTA
1 TTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATTTA
* * * *
597136 TGTTTAAAGAGAAACTGTCTCAA-AGGAGACAAAATTTTG
1 --TTTCAAGGGAAACTATCTCAAGA-GAGACAAAA-TTTA
* *
597175 TTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
597211 TTTCAAGGGAAA
1 TTTCAAGGGAAA
597223 TTTTTTCAAT
Statistics
Matches: 115, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
27 4 0.03
29 13 0.11
30 3 0.03
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.02
36 32 0.28
37 54 0.47
38 1 0.01
39 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
Found at i:597168 original size:102 final size:101
Alignment explanation
Indices: 596970--597298 Score: 459
Period size: 102 Copynumber: 3.2 Consensus size: 101
596960 TCAATGTTTA
* * * * *
596970 TGTTTCAAGAGAAACTGTCTCAATG-GAGACAAAATTT-TGTTCCAAAGGAAA-CTATCAATGTT
1 TGTTTCAAGGGAAACTATCTCAA-GAGAGACAAAATTTAT-TT-CAAGGGAAATTTTTCAATGTT
*
597032 TATGTTTCAAGAGAAACTGTCTCAAGTGAAACAAAATTT
63 TATGTTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTT
597071 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAAT-TTTTCAATGTTTA
*
597136 TGTTTAAAGAGAAACTGTCTCAAAG-GAGACAAAATTT
65 TGTTTCAAGAGAAACTGTCTC-AAGTGAGACAAAATTT
* *
597173 TGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATTTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA-TTTTTCAATGTTTA
** *
597238 TGTTTCAAGAGAAACAATATCAAGTGAGACAAAATTT
65 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTT
*
597275 TGTTTCAAGGGAAACAATCTCAAG
1 TGTTTCAAGGGAAACTATCTCAAG
597299 CGATATAAAA
Statistics
Matches: 207, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
100 9 0.04
101 38 0.18
102 156 0.75
103 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (101 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATTTTTCAATGTTTAT
GTTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTT
Found at i:597289 original size:37 final size:37
Alignment explanation
Indices: 597238--597312 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
597228 TCAATGTTTA
*
597238 TGTTTCAAGAGAAACAATATCAAGTGAGACAAAATTT
1 TGTTTCAAGAGAAACAATATCAAGCGAGACAAAATTT
* * * *
597275 TGTTTCAAGGGAAACAATCTCAAGCGATATAAAATTT
1 TGTTTCAAGAGAAACAATATCAAGCGAGACAAAATTT
597312 T
1 T
597313 CTTTAAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGAGAAACAATATCAAGCGAGACAAAATTT
Found at i:597533 original size:65 final size:66
Alignment explanation
Indices: 597455--597597 Score: 243
Period size: 65 Copynumber: 2.2 Consensus size: 66
597445 ATATTTTGTG
*
597455 TTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT-TC
1 TTTCAAGGGAAATGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATC
597519 A
66 A
* *
597520 TTTCAAGGGAAATGTTTTCAATGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATT
1 TTTCAAGGGAAATGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATC
*
597585 G
66 A
597586 TTTCAAGGGAAA
1 TTTCAAGGGAAA
597598 CTATCTCAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 60 0.82
66 13 0.18
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (66 bp):
TTTCAAGGGAAATGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATC
A
Found at i:597598 original size:102 final size:102
Alignment explanation
Indices: 597482--597719 Score: 368
Period size: 102 Copynumber: 2.3 Consensus size: 102
597472 TCAAAGTTTA
* * * *
597482 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAGGGAAATGTTTTCAATGTTTA
** *
597547 TATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATAT
66 TATTTCAAGAGAAACAATCTCAAAGGAGACAAAATAT
* *
597584 TGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTAATTTCAAGGGAAATGTTTTTAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAGGGAAATGTTTTCAATGTTTA
*
597649 TATTTCAAGAGAAACAATCTCAAAGGAGACAAAATTT
66 TATTTCAAGAGAAACAATCTCAAAGGAGACAAAATAT
* *
597686 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
597720 CTTTCTTTAA
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAGGGAAATGTTTTCAATGTTTA
TATTTCAAGAGAAACAATCTCAAAGGAGACAAAATAT
Found at i:597633 original size:36 final size:37
Alignment explanation
Indices: 597548--597633 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 37
597538 CAATGTTTAT
* * * *
597548 ATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATT
1 ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATATA
* *
597585 GTTTCAAGGGAAACTATCTCAAGAGAGGCAAAAT-TA
1 ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATATA
597621 ATTTCAAGGGAAA
1 ATTTCAAGGGAAA
597634 TGTTTTTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 13 0.31
37 29 0.69
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (37 bp):
ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATATA
Found at i:597832 original size:73 final size:73
Alignment explanation
Indices: 597728--597901 Score: 224
Period size: 73 Copynumber: 2.3 Consensus size: 73
597718 AACTTTCTTT
* * **
597728 AAAAACATTCTTGAGTGAAATGAAATGTCTTCTTTCGAGTGAAAACGGTCTCAATCGAGACAAA-
1 AAAAACAATCTTGAGTGAAAT-AAA--TCTTCTTTCGAGTGAAAAAGGTCTCAAGAGAGACAAAG
*
597792 TCTTGTTTTAAG
63 TC-TGTTTCAAG
597804 AAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTGAAAAAGGTCTCAAGAGAGACAAAGTCT
1 AAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTGAAAAAGGTCTCAAGAGAGACAAAGTCT
*
597869 GTTTCCAG
66 GTTTCAAG
** *
597877 AAAAACAATCTCAAGTGAGATAAAT
1 AAAAACAATCTTGAGTGAAATAAAT
597902 TATCTGCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
73 63 0.72
74 2 0.02
75 3 0.03
76 20 0.23
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (73 bp):
AAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTGAAAAAGGTCTCAAGAGAGACAAAGTCT
GTTTCAAG
Found at i:598202 original size:12 final size:12
Alignment explanation
Indices: 598185--598209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
598175 TGCATCATGT
598185 ATGTATATGTTG
1 ATGTATATGTTG
598197 ATGTATATGTTG
1 ATGTATATGTTG
598209 A
1 A
598210 AGCTGGGTTA
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:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (12 bp):
ATGTATATGTTG
Found at i:599127 original size:95 final size:95
Alignment explanation
Indices: 599009--599197 Score: 270
Period size: 95 Copynumber: 2.0 Consensus size: 95
598999 TTGTATATAT
* * *
599009 ATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAACGCCAGAGCGTTTAACCAATTGC
1 ATTATAATCACATTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGAGAGTTTAACCAATTGC
*
599074 TCTAGATAGACAACTCAAGCTTTATTGTAC
66 TCTAGAGAGACAACTCAAGCTTTATTGTAC
* * * * *
599104 ATTATAATCATATTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGAGTTTAACCAATTGC
1 ATTATAATCACATTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGAGAGTTTAACCAATTGC
* * *
599169 TTTAGAGGGACAGCTCAAGCTTTATTGTA
66 TCTAGAGAGACAACTCAAGCTTTATTGTA
599198 TATATATTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (95 bp):
ATTATAATCACATTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGAGAGTTTAACCAATTGC
TCTAGAGAGACAACTCAAGCTTTATTGTAC
Found at i:602035 original size:23 final size:23
Alignment explanation
Indices: 601993--602111 Score: 152
Period size: 23 Copynumber: 5.3 Consensus size: 23
601983 CACCACAGCT
*
601993 CATATA-AA-TGCACCGAAGTGC
1 CATATAGAATTGCACCGTAGTGC
*
602014 CATATAGAATTGCATCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
** *
602037 CACGTAGAGTTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
602060 CATATAGAATTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
* * *
602083 CGTGTAGAGTTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
602106 CATATA
1 CATATA
602112 ATAATGTCCA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 6 0.07
22 2 0.02
23 74 0.90
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (23 bp):
CATATAGAATTGCACCGTAGTGC
Found at i:602068 original size:46 final size:46
Alignment explanation
Indices: 602001--602111 Score: 186
Period size: 46 Copynumber: 2.4 Consensus size: 46
601991 CTCATATAAA
* *
602001 TGCACCGAAGTGCCATATAGAATTGCATCGTAGTGCCACGTAGAGT
1 TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCACGTAGAGT
**
602047 TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCGTGTAGAGT
1 TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCACGTAGAGT
602093 TGCACCGTAGTGCCATATA
1 TGCACCGTAGTGCCATATA
602112 ATAATGTCCA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (46 bp):
TGCACCGTAGTGCCATATAGAATTGCACCGTAGTGCCACGTAGAGT
Found at i:602294 original size:103 final size:103
Alignment explanation
Indices: 602123--602443 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
602113 TAATGTCCAT
602123 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
602188 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
602226 AAGAACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCAACA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
* *
602291 GACTTCACACATGTTCTAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
602329 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
602394 GACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
602432 AAGGACCACATA
1 AAGGACCACATA
602444 GACCCTCGAC
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:603904 original size:21 final size:21
Alignment explanation
Indices: 603878--603921 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
603868 TTTTTATTTG
* *
603878 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
603899 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
603920 CT
1 CT
603922 AGCCCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:607654 original size:23 final size:23
Alignment explanation
Indices: 607612--607730 Score: 125
Period size: 23 Copynumber: 5.3 Consensus size: 23
607602 CACCATAGCT
*
607612 CATATA-AA-TGCACCGAAGTGC
1 CATATAGAATTGCACCGTAGTGC
*
607633 CATATAGAATTGCACTGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
** *
607656 CACGTAGAGTTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
*
607679 CATATAGAATTGCAGCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
*** * *
607702 CGCGTAGAGTTGTACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
607725 CATATA
1 CATATA
607731 ATAATGTCCA
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
21 6 0.08
22 2 0.03
23 69 0.90
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (23 bp):
CATATAGAATTGCACCGTAGTGC
Found at i:607687 original size:46 final size:46
Alignment explanation
Indices: 607620--607730 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
607610 CTCATATAAA
*
607620 TGCACCGAAGTGCCATATAGAATTGCA-CTGTAGTGCCACGTAGAGT
1 TGCACCGTAGTGCCATATAGAATTGCAGC-GTAGTGCCACGTAGAGT
*
607666 TGCACCGTAGTGCCATATAGAATTGCAGCGTAGTGCCGCGTAGAGT
1 TGCACCGTAGTGCCATATAGAATTGCAGCGTAGTGCCACGTAGAGT
*
607712 TGTACCGTAGTGCCATATA
1 TGCACCGTAGTGCCATATA
607731 ATAATGTCCA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 60 0.98
47 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (46 bp):
TGCACCGTAGTGCCATATAGAATTGCAGCGTAGTGCCACGTAGAGT
Found at i:607915 original size:103 final size:103
Alignment explanation
Indices: 607742--608062 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
607732 TAATGTCCAT
*
607742 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
607807 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
607845 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
* *
607910 AACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
607948 AAGGACCATATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCATCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
608013 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
608051 AAGGACCACATA
1 AAGGACCACATA
608063 GACCCTCGAC
Statistics
Matches: 208, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 208 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:609527 original size:21 final size:21
Alignment explanation
Indices: 609501--609544 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
609491 TTTTTATTCG
* *
609501 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
609522 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
609543 CT
1 CT
609545 AGCCCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:610984 original size:15 final size:16
Alignment explanation
Indices: 610955--610988 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
610945 AAATTAAATA
*
610955 AAAGATAAGATAAGAT
1 AAAGATAAGAAAAGAT
610971 AAAGA-AAGAAAAGAT
1 AAAGATAAGAAAAGAT
610986 AAA
1 AAA
610989 ATAGTAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (16 bp):
AAAGATAAGAAAAGAT
Found at i:611056 original size:17 final size:17
Alignment explanation
Indices: 610998--611043 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
610988 AATAGTAAGT
610998 AAAATAAATAAATA-A-A
1 AAAATAAA-AAATAGAGA
*
611014 AATATAAAAAATAGAGA
1 AAAATAAAAAATAGAGA
*
611031 AAAAGAAAAAATA
1 AAAATAAAAAATA
611044 TATAGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.20
16 8 0.32
17 12 0.48
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAATAGAGA
Found at i:611112 original size:50 final size:47
Alignment explanation
Indices: 611008--611215 Score: 160
Period size: 46 Copynumber: 4.3 Consensus size: 47
610998 AAAATAAATA
* * * *
611008 AATAAA-AATATAAAAAATAGA-GAAAAAGAAAAAATATATAGAAATAA
1 AATAAATAA-ATAAAAAATA-ATAAAAAAGAAAAAATATATATATATAT
*
611055 AACAAATAAATAAAATAATAATAAAAAAGCAAAAAATA-ATATATATAT
1 AATAAATAAATAAAA-AATAATAAAAAAG-AAAAAATATATATATATAT
* * *
611103 -AT-AATAAATAAAAACATAA-AAAATAGTAAATATATATATATATAT
1 AATAAATAAATAAAAA-ATAATAAAAAAGAAAAAATATATATATATAT
* * *
611148 -ATAAATTAATAAAACAGATAATAAAAAATAACATATATATATATATATAT
1 AATAAATAAATAAAA-A-ATAATAAAAAAGAA-A-AAATATATATATATAT
*
611198 AATCTAAAAAAATAAAAA
1 AA--TAAATAAATAAAAA
611216 TATATATCAA
Statistics
Matches: 131, Mismatches: 16, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
44 6 0.05
45 19 0.15
46 25 0.19
47 18 0.14
48 25 0.19
49 9 0.07
50 16 0.12
51 1 0.01
52 1 0.01
53 11 0.08
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (47 bp):
AATAAATAAATAAAAAATAATAAAAAAGAAAAAATATATATATATAT
Found at i:611136 original size:35 final size:34
Alignment explanation
Indices: 611059--611140 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 34
611049 AAATAAAACA
*
611059 AATAAATA-AAATAATAATAAAAAAGCAAAAAAT
1 AATAAATATATATAATAATAAAAAAGCAAAAAAT
* *
611092 AATATATATATATAATAAATAAAAACA-TAAAAAAT
1 AATAAATATATATAAT-AATAAAAA-AGCAAAAAAT
*
611127 AGTAAATATATATA
1 AATAAATATATATA
611141 TATATATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.17
34 6 0.15
35 27 0.66
36 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (34 bp):
AATAAATATATATAATAATAAAAAAGCAAAAAAT
Found at i:612527 original size:19 final size:19
Alignment explanation
Indices: 612499--612544 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
612489 CATAGACTTT
*
612499 AATT-GTATTAAATAATCA
1 AATTGGTATTAAAGAATCA
*
612517 ATTTGGTATTAAAGAATCA
1 AATTGGTATTAAAGAATCA
612536 AATTGGTAT
1 AATTGGTAT
612545 ATATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (19 bp):
AATTGGTATTAAAGAATCA
Found at i:615192 original size:2 final size:2
Alignment explanation
Indices: 615181--615254 Score: 123
Period size: 2 Copynumber: 37.5 Consensus size: 2
615171 TATCATTAAT
615181 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
615222 TA TA TA TA TA TA TA TA TA TA AA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
615255 TAGTTGATTC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:615891 original size:2 final size:2
Alignment explanation
Indices: 615884--615918 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
615874 GAGGGTAGAT
615884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
615919 CCGGTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:616076 original size:23 final size:22
Alignment explanation
Indices: 616013--616105 Score: 82
Period size: 23 Copynumber: 4.2 Consensus size: 22
616003 TTTTTTGAAT
* *
616013 TATAAATGTAAAATTAAAAATA
1 TATAAATTTAAATTTAAAAATA
*
616035 T-TAAATTT-ATTTTAAAAATA
1 TATAAATTTAAATTTAAAAATA
* *
616055 TATAATTCTTAAATTTATAAATGA
1 TATAAAT-TTAAATTTAAAAAT-A
* *
616079 TAGAAATTTAAATTATAGAAATA
1 TATAAATTTAAATT-TAAAAATA
616102 TATA
1 TATA
616106 TATATATATA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
20 11 0.20
21 10 0.18
22 3 0.05
23 20 0.36
24 12 0.21
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (22 bp):
TATAAATTTAAATTTAAAAATA
Found at i:616085 original size:17 final size:17
Alignment explanation
Indices: 616065--616105 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
616055 TATAATTCTT
616065 AAATTTATAAATGATAG
1 AAATTTATAAATGATAG
*
616082 AAA-TT-TAAATTATAG
1 AAATTTATAAATGATAG
*
616097 AAATATATA
1 AAATTTATA
616106 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 12 0.60
16 3 0.15
17 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (17 bp):
AAATTTATAAATGATAG
Found at i:616106 original size:2 final size:2
Alignment explanation
Indices: 616099--616129 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
616089 AATTATAGAA
616099 AT AT AT 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 AT AT AT A
616130 AATTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:616354 original size:31 final size:30
Alignment explanation
Indices: 616319--616376 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
616309 TATTAACGTC
*
616319 AAGTGGCTTGATTGAAT-ATAATTAAATACTT
1 AAGTGGCTTAATTG-ATGA-AATTAAATACTT
*
616350 AAGTGGTTTAATTGATGAAATTAAATA
1 AAGTGGCTTAATTGATGAAATTAAATA
616377 TAGATGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.38
Consensus pattern (30 bp):
AAGTGGCTTAATTGATGAAATTAAATACTT
Found at i:620136 original size:30 final size:30
Alignment explanation
Indices: 620100--620163 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
620090 ACACGACTAT
620100 CTCACCTCCTCCTTCCTGCTACTGCCACTC
1 CTCACCTCCTCCTTCCTGCTACTGCCACTC
620130 CTCACCTCCTCCTTCCTGCTACTGCCACTC
1 CTCACCTCCTCCTTCCTGCTACTGCCACTC
620160 CTCA
1 CTCA
620164 TATCACCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.11, C:0.53, G:0.06, T:0.30
Consensus pattern (30 bp):
CTCACCTCCTCCTTCCTGCTACTGCCACTC
Found at i:620280 original size:13 final size:13
Alignment explanation
Indices: 620262--620287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
620252 GTCATTGAAT
620262 CCCTTAAGAAATA
1 CCCTTAAGAAATA
620275 CCCTTAAGAAATA
1 CCCTTAAGAAATA
620288 ATAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CCCTTAAGAAATA
Found at i:630077 original size:12 final size:11
Alignment explanation
Indices: 630062--630127 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 11
630052 ACACTTATTA
630062 ATAATATGATAT
1 ATAATAT-ATAT
630074 ATAATATATAT
1 ATAATATATAT
630085 ATATATATATAATT
1 ATA-ATATAT-A-T
630099 ATAAT-TATAAT
1 ATAATATAT-AT
* *
630110 AAAAATATATTT
1 -ATAATATATAT
630122 ATAATA
1 ATAATA
630128 ATTCACTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
11 13 0.28
12 23 0.50
13 6 0.13
14 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
ATAATATATAT
Found at i:630092 original size:17 final size:16
Alignment explanation
Indices: 630060--630129 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 16
630050 TTACACTTAT
*
630060 TAATAATAT-GATATA
1 TAATAATATATATATA
630075 TAAT-ATATATATATA
1 TAATAATATATATATA
630090 TATATAAT-TATA-ATTA
1 TA-ATAATATATATA-TA
* *
630106 TAATAAAAATATATTTA
1 TAAT-AATATATATATA
630123 TAATAAT
1 TAATAAT
630130 TCACTATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
14 4 0.09
15 14 0.32
16 14 0.32
17 12 0.27
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (16 bp):
TAATAATATATATATA
Found at i:631959 original size:6 final size:6
Alignment explanation
Indices: 631943--632066 Score: 63
Period size: 6 Copynumber: 20.0 Consensus size: 6
631933 AGAAGAAAAG
* * * * * * *
631943 TAGAGGA TAGAGA TAGAGA TAGAGA TGGGGA AAGAGA CAGAGG CAGGGA
1 TAGA-GA TAGAGA TAGAGA TAGAGA TAGAGA TAGAGA TAGAGA TAGAGA
* * * * * *
631992 TCGAAGGGA TA-AGGA TAGAGA TAGGGG TAGGGA TAGAGA TAGAGA TAGGGG
1 T---AGAGA TAGAG-A TAGAGA TAGAGA TAGAGA TAGAGA TAGAGA TAGAGA
632043 TAG-GCA TAGAGA TAGAGA TAGAGA
1 TAGAG-A TAGAGA TAGAGA TAGAGA
632067 GGCTGGTGAT
Statistics
Matches: 92, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
5 2 0.02
6 77 0.84
7 7 0.08
9 6 0.07
ACGTcount: A:0.41, C:0.03, G:0.42, T:0.14
Consensus pattern (6 bp):
TAGAGA
Found at i:632032 original size:24 final size:24
Alignment explanation
Indices: 631942--632063 Score: 111
Period size: 24 Copynumber: 4.9 Consensus size: 24
631932 CAGAAGAAAA
*
631942 GTAGAGGATAGAGATAGAGATAGAG
1 GTAG-GGATAGAGATAGAGATAGGG
* * * * **
631967 ATGGGGAAAGAGACAGAGGCAGGG
1 GTAGGGATAGAGATAGAGATAGGG
*
631991 ATCGAAGGGATA-AGGATAGAGATAGGG
1 ---GTAGGGATAGA-GATAGAGATAGGG
632018 GTAGGGATAGAGATAGAGATAGGG
1 GTAGGGATAGAGATAGAGATAGGG
*
632042 GTAGGCATAGAGATAGAGATAG
1 GTAGGGATAGAGATAGAGATAG
632064 AGAGGCTGGT
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
24 57 0.75
25 3 0.04
26 1 0.01
27 15 0.20
ACGTcount: A:0.40, C:0.03, G:0.43, T:0.14
Consensus pattern (24 bp):
GTAGGGATAGAGATAGAGATAGGG
Found at i:632040 original size:18 final size:18
Alignment explanation
Indices: 631943--632066 Score: 85
Period size: 18 Copynumber: 7.0 Consensus size: 18
631933 AGAAGAAAAG
*
631943 TAGAGGATAGAGATAGAGA
1 TAGA-GATAGGGATAGAGA
* *
631962 TAGAGATGGGGAAAGAGA
1 TAGAGATAGGGATAGAGA
* ** *
631980 CAGAGGCAGGGAT--CGA
1 TAGAGATAGGGATAGAGA
* *
631996 -AGGGATAAGGATAGAGA
1 TAGAGATAGGGATAGAGA
* *
632013 TAGGGGTAGGGATAGAGA
1 TAGAGATAGGGATAGAGA
*
632031 TAGAGATAGGGGTAG-GCA
1 TAGAGATAGGGATAGAG-A
*
632049 TAGAGATAGAGATAGAGA
1 TAGAGATAGGGATAGAGA
632067 GGCTGGTGAT
Statistics
Matches: 79, Mismatches: 21, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
15 8 0.10
16 2 0.03
17 3 0.04
18 61 0.77
19 5 0.06
ACGTcount: A:0.41, C:0.03, G:0.42, T:0.14
Consensus pattern (18 bp):
TAGAGATAGGGATAGAGA
Found at i:645512 original size:17 final size:18
Alignment explanation
Indices: 645492--645592 Score: 68
Period size: 17 Copynumber: 5.6 Consensus size: 18
645482 TATTATTACT
645492 TTTATTATTTTATAT-TA
1 TTTATTATTTTATATATA
645509 TTTATT-TTGTTATATATA
1 TTTATTATT-TTATATATA
* *
645527 TGTA-TATTTTATTTACATA
1 TTTATTATTTTA--TATATA
*
645546 CTTATTATTATTAATATATA
1 TTTATTATT-TT-ATATATA
* *
645566 TTT-TTA-TTTATTTTTA
1 TTTATTATTTTATATATA
645582 TTTGATTATTT
1 TTT-ATTATTT
645593 CTTTATTTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
16 10 0.15
17 18 0.28
18 11 0.17
19 12 0.18
20 11 0.17
21 2 0.03
22 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTATTATTTTATATATA
Found at i:645874 original size:17 final size:17
Alignment explanation
Indices: 645843--645889 Score: 85
Period size: 17 Copynumber: 2.7 Consensus size: 17
645833 TTTTTATTTT
645843 TTTATTTTACTTTGTTTA
1 TTTATTTT-CTTTGTTTA
645861 TTTATTTTCTTTGTTTA
1 TTTATTTTCTTTGTTTA
645878 TTTATTTTCTTT
1 TTTATTTTCTTT
645890 ATTTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTATTTTCTTTGTTTA
Found at i:645928 original size:14 final size:15
Alignment explanation
Indices: 645888--645933 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
645878 TTTATTTTCT
*
645888 TTATTTTCATTTTGC
1 TTATTTTCATTTTAC
645903 TTATTTT-A-TTTAC
1 TTATTTTCATTTTAC
645916 TT-TTTTCATTTTA-
1 TTATTTTCATTTTAC
645929 TTATT
1 TTATT
645934 ATTATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 4 0.15
13 9 0.33
14 7 0.26
15 7 0.26
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (15 bp):
TTATTTTCATTTTAC
Found at i:645972 original size:12 final size:12
Alignment explanation
Indices: 645955--646007 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
645945 CTTTTTTAGC
645955 TTTATTCACTCT
1 TTTATTCACTCT
645967 TTTATTCACTCT
1 TTTATTCACTCT
645979 TTTATTTC-CTC-
1 TTTA-TTCACTCT
* *
645990 TTTATTCATTTT
1 TTTATTCACTCT
646002 TTTATT
1 TTTATT
646008 TTTGTTTTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 3 0.08
11 5 0.14
12 25 0.69
13 3 0.08
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTATTCACTCT
Found at i:658859 original size:55 final size:55
Alignment explanation
Indices: 658775--658887 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
658765 GCTTAATTCA
658775 GATTCAAGGTCATGCTATAAAACCTGGTTTTACCATGGAGTGTTATTTACCTTCT
1 GATTCAAGGTCATGCTATAAAACCTGGTTTTACCATGGAGTGTTATTTACCTTCT
658830 GATTCAAGGTCATGCTATAAAACCTGGTTTTACCATGGAGTGTTATTTACCTTCT
1 GATTCAAGGTCATGCTATAAAACCTGGTTTTACCATGGAGTGTTATTTACCTTCT
658885 GAT
1 GAT
658888 CTTAGCTCCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (55 bp):
GATTCAAGGTCATGCTATAAAACCTGGTTTTACCATGGAGTGTTATTTACCTTCT
Found at i:659680 original size:37 final size:36
Alignment explanation
Indices: 659611--659684 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
659601 CATTAAACCT
*
659611 TTTTATATTTTTAATTTTGAAAAAAAATTATATAAA
1 TTTTATATTTTAAATTTTGAAAAAAAATTATATAAA
* *
659647 TTTTATGATTTTAAATTTTTTAAAGAAAA-TATATAAA
1 TTTTAT-ATTTTAAA-TTTTGAAAAAAAATTATATAAA
659684 T
1 T
659685 ATTTTCTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 6 0.18
37 16 0.48
38 11 0.33
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (36 bp):
TTTTATATTTTAAATTTTGAAAAAAAATTATATAAA
Found at i:659866 original size:20 final size:20
Alignment explanation
Indices: 659841--659896 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
659831 ATCCTATTCT
659841 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
* *
659861 CTGGTAAACTTTTATTCTCA
1 CTGGTAATCTTTTATTCCCA
* *
659881 CTGATAATCTTGTATT
1 CTGGTAATCTTTTATT
659897 TCATGAACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:661129 original size:660 final size:654
Alignment explanation
Indices: 659408--661232 Score: 2413
Period size: 660 Copynumber: 2.7 Consensus size: 654
659398 GTATTGTTGG
** * * * * *
659408 ATTACCGATATTTTAGACTAAAATGCCCTTAAA--ATTATTTTTTTTCAAAATTATCTTTATAT-
1 ATTACCGGCATTTTGGACTAAAATGCCCTTAAATTTTTATTTTTTTTCAAAAATATCATTCT-TC
* * * * *
659470 TGTCATTTAATAAT-AAAATTCTACGAATGTTAAATTATAAATTTATCTTTAAACTATTTTAGAT
65 TGTCATTGAATAATAAAAATTCTACGAAGGTTAAATTACAAATTTATCCTTAAATTATTTTAGAT
* * * * * * *** **
659534 TCATAAAAAATATATATAATTAAAATTTTATATAAAATTCAAGAGTTAAAATAAAATTTTATTCT
130 TTATAAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGAGTT-AAAT-TTTTTTTACCCT
* * * *
659599 TTCATTAAACCTTTTTATATTTTTAATTTTGAAAAAAAATTATATAAATTTTATGATTTTAAATT
193 TTCATTAAACATTTTTATATTTTTAA-TTTG-TAAAAAATTATATAAATATTATGAATTT-AATT
* *
659664 TTTTAAAGAAAATATATAAATATTTTCTAACTTGTTAAAAAGATAAATATATAATAAGGACAATT
255 TTTTAAAGAAAATATATAAATATTTTC-AATTTG-T-AAAA-ACAAATATATAATAAGGACAATT
* * * * * * *
659729 TGATTAAATATACATTTCAATAATATTTTATTCTTTTAACCAAATACAGTAATATTATATTCCTG
316 TGGTCAAATATACATTTCAATAATATTTTATTCCTTTAACCAAACACGGTAATCTTACATTCCTG
* * * *
659794 CTAAACCAACCAAACACAAAATATAATATTCTCAGTAATCCTATT-CTCTGGTAATCTTTTATTC
381 CTAAACCAACCAAACACAAAATACAACATTCACAGTAATCATATTCCT-TGGTAATCTTTTATTC
* * * ** *
659858 CCACTGGTAAACTTTTATTCTCACTGATAATCTTGTATTTCATGAACTAAATACACCCTTAGGGA
445 CCACTGGT--A-----A---T--CT--T-A-C----ATTCCGTGAACCAAACGCACCATTAGGGA
*
659923 GTGTTTGGTTCAAGGATTGTGGGATTCTCATGGGATGGTAATCCCACATTCCCATGTTTGGTTGG
490 GTGTTTGGTTCAAGGATTGTGGGATTCCCATGGGATGGTAATCCCACATTCCCATGTTTGGTTGG
* * * * * *
659988 CCGGGAATCTCATTTCCGGTAATATTTTTTTACTAATAGTAGATTTTTTGGGGTATATTACCGGG
555 CCGGGAATCTCATTCCCGGTAATATTTTATTACCAATAGTAGATTTTTTGAGGTATATCACCAGG
* * *
660053 AATGTAATTACCTCCCTTCCCTTATGTATTGTAAT
620 AATGTAATTACATCCATTCCCTTATGTATTGTAAC
*
660088 ATTACCGGCATTTTGGACTAAAATGCCCTT-AATTTTTTTTTTTTTTCAAAAATATCATTCTTCT
1 ATTACCGGCATTTTGGACTAAAATGCCCTTAAATTTTTATTTTTTTTCAAAAATATCATTCTTCT
*
660152 GTCATTGAATAATAAAAATTTTACGAAGGTTAAATTACAAATTTATCCTTAAATTATTTTAGATT
66 GTCATTGAATAATAAAAATTCTACGAAGGTTAAATTACAAATTTATCCTTAAATTATTTTAGATT
* *
660217 TACAAAAAAAATATCTATAATTAAAATTTTATATGAAGTTCAGGAGTTAAAATTTTTTTACCCTT
131 TA-TAAAAAAA-ATCTATAATTAAAATTTTATATGAAGTTCAGGAGTTAAATTTTTTTTACCCTT
* *
660282 TCATTAAATATTTTTATATTTTTTATTTTGTAAAAAATTATATAAATATTATGAATTTAATTTTT
194 TCATTAAACATTTTTATA-TTTTTAATTTGTAAAAAATTATATAAATATTATGAATTTAA-TTTT
* *
660347 TTAAAGAAAATATATAAATATTTTTTAACTTTTTAAAAACCAAATATATAATAAGGACAATTTGG
257 TTAAAGAAAATATATAAATA-TTTTCAA-TTTGTAAAAA-CAAATATATAATAAGGACAATTTGG
* * * *
660412 TCAAATATACATTCCAAAAATCTTTTATTCCTTTAACAAAACACGGTAATCTTACATTCCTGCTA
319 TCAAATATACATTTCAATAATATTTTATTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTA
* *
660477 AACCAACCAAACACAAAATACAACATTCCCAGTAATCATATTCCTTGGTAATCTTTTATTCTCAC
384 AACCAACCAAACACAAAATACAACATTCACAGTAATCATATTCCTTGGTAATCTTTTATTCCCAC
*
660542 TGGTAATCTTACATTCCGTGAACCAAACGCACCATTAGGGTGTGTTTGGTTCAAGGATTGTGGGA
449 TGGTAATCTTACATTCCGTGAACCAAACGCACCATTAGGGAGTGTTTGGTTCAAGGATTGTGGGA
*
660607 TTCCCATGGGATGAG-AATCCCACATTCCCATGTTTGGTTGGTCGGGAATCTCATTCCCGGTAAT
514 TTCCCATGGGATG-GTAATCCCACATTCCCATGTTTGGTTGGCCGGGAATCTCATTCCCGGTAAT
* * *
660671 GTTTTATTACCAATAGTAGATTTTTTGAGGTATATCACCAGGAATGTCATTACATCCATTCCTTT
578 ATTTTATTACCAATAGTAGATTTTTTGAGGTATATCACCAGGAATGTAATTACATCCATTCCCTT
660736 ATGTATTGTAAC
643 ATGTATTGTAAC
* * *
660748 ATTACCGGCGTTTTGGACTAAAATTCCCTTAAATTTTTATTTTTTTTAAAAAATATCATTCTTCT
1 ATTACCGGCATTTTGGACTAAAATGCCCTTAAATTTTTATTTTTTTTCAAAAATATCATTCTTCT
660813 GTCATTGAATAATAAAAATTCTACGAAGGTTAAATTACAAATTTATCCTTAAATTATTTTAGATT
66 GTCATTGAATAATAAAAATTCTACGAAGGTTAAATTACAAATTTATCCTTAAATTATTTTAGATT
*
660878 TATAAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGGGTTAAATTTTTTTTACCCTTTC
131 TATAAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGAGTTAAATTTTTTTTACCCTTTC
660943 ATTAAACATTTTTTATATTTTTAATTTGTAAAAAATTATATAAATATTATGAATTTAATTTTTTA
196 ATTAAACA-TTTTTATATTTTTAATTTGTAAAAAATTATATAAATATTATGAATTTAATTTTTTA
*
661008 AAGAAAATATATAAATATTTTACAATTTGTAATATTATACAAATATATAATAAGGATAATTTGGT
260 AAGAAAATATATAAATATTTT-CAATTTGTAA-A--A-ACAAATATATAATAAGGACAATTTGGT
* *
661073 CAAATATACATTTCAATAATTTTTTATCCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAA
320 CAAATATACATTTCAATAATATTTTATTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAA
* * *
661138 ACCAACCAAACACAAAATACAACATTCACAGTAATTATATTCCCTAGTAATCTTTTATTCCCACT
385 ACCAACCAAACACAAAATACAACATTCACAGTAATCATATTCCTTGGTAATCTTTTATTCCCACT
**
661203 AATAATCTTACATTCCGTGAACCAAACGCA
450 GGTAATCTTACATTCCGTGAACCAAACGCA
661233 ACTTTAATAT
Statistics
Matches: 1026, Mismatches: 99, Indels: 60
0.87 0.08 0.05
Matches are distributed among these distances:
657 10 0.01
658 27 0.03
659 100 0.10
660 388 0.38
661 100 0.10
664 1 0.00
665 1 0.00
666 1 0.00
668 2 0.00
670 1 0.00
673 1 0.00
678 1 0.00
679 3 0.00
680 173 0.17
681 89 0.09
682 81 0.08
683 15 0.01
684 32 0.03
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.40
Consensus pattern (654 bp):
ATTACCGGCATTTTGGACTAAAATGCCCTTAAATTTTTATTTTTTTTCAAAAATATCATTCTTCT
GTCATTGAATAATAAAAATTCTACGAAGGTTAAATTACAAATTTATCCTTAAATTATTTTAGATT
TATAAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGAGTTAAATTTTTTTTACCCTTTC
ATTAAACATTTTTATATTTTTAATTTGTAAAAAATTATATAAATATTATGAATTTAATTTTTTAA
AGAAAATATATAAATATTTTCAATTTGTAAAAACAAATATATAATAAGGACAATTTGGTCAAATA
TACATTTCAATAATATTTTATTCCTTTAACCAAACACGGTAATCTTACATTCCTGCTAAACCAAC
CAAACACAAAATACAACATTCACAGTAATCATATTCCTTGGTAATCTTTTATTCCCACTGGTAAT
CTTACATTCCGTGAACCAAACGCACCATTAGGGAGTGTTTGGTTCAAGGATTGTGGGATTCCCAT
GGGATGGTAATCCCACATTCCCATGTTTGGTTGGCCGGGAATCTCATTCCCGGTAATATTTTATT
ACCAATAGTAGATTTTTTGAGGTATATCACCAGGAATGTAATTACATCCATTCCCTTATGTATTG
TAAC
Found at i:665993 original size:31 final size:32
Alignment explanation
Indices: 665958--666018 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
665948 AATTTAGATT
* *
665958 TTTTAATTTAATTAC-GTAACTTTCAAATTAC
1 TTTTAATTTAATCACTCTAACTTTCAAATTAC
665989 TTTTAATTTAATCACTCTAACTTTCAAATT
1 TTTTAATTTAATCACTCTAACTTTCAAATT
666019 TATTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.34, C:0.15, G:0.02, T:0.49
Consensus pattern (32 bp):
TTTTAATTTAATCACTCTAACTTTCAAATTAC
Found at i:667276 original size:93 final size:93
Alignment explanation
Indices: 667117--667299 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 93
667107 TTAAACTTAT
* * * * * **
667117 TGATATGTTACGAACTAGTCATTAGATTTATCGAGATTTATTATTATTTATGGCATCACATGAAA
1 TGATACGTTACGAACCAGTCATTAAATTTATCAAGATTTATTACTATTTATAACATCACATGAAA
667182 TATTTTTGAAATAATTCGATAAGTTTAA
66 TATTTTTGAAATAATTCGATAAGTTTAA
*
667210 TGATACGTTACGAACCAGTCGTTAAATTTATCAAGATTTATTACTATTTATAACATCACATGAAA
1 TGATACGTTACGAACCAGTCATTAAATTTATCAAGATTTATTACTATTTATAACATCACATGAAA
*
667275 TATTTTTGTAATAATTCGATAAGTT
66 TATTTTTGAAATAATTCGATAAGTT
667300 CAGTAATATT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (93 bp):
TGATACGTTACGAACCAGTCATTAAATTTATCAAGATTTATTACTATTTATAACATCACATGAAA
TATTTTTGAAATAATTCGATAAGTTTAA
Found at i:667537 original size:2 final size:2
Alignment explanation
Indices: 667530--667572 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
667520 TGATTTCTTT
667530 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
667572 T
1 T
667573 TACAAATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:670630 original size:23 final size:22
Alignment explanation
Indices: 670604--670672 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
670594 CACCATAGCT
*
670604 CGTATAAATGCACCGAAGTGCCA
1 CGTA-AAATGCACTGAAGTGCCA
* * *
670627 CGTAGAATTGCACTGAAGTACCG
1 CGTA-AAATGCACTGAAGTGCCA
*
670650 CGTAAAATTGCACTGTAGTGCCA
1 CGTAAAA-TGCACTGAAGTGCCA
670673 TATAAGATTG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 2 0.06
23 34 0.94
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (22 bp):
CGTAAAATGCACTGAAGTGCCA
Found at i:671391 original size:63 final size:64
Alignment explanation
Indices: 671319--671457 Score: 183
Period size: 63 Copynumber: 2.2 Consensus size: 64
671309 ATCCCTTGAC
* *
671319 GGGTGCATCGATGCACTA-TCTATGCATCGATACATAAATATCATTCGATGTTTGTA-TTTAAGG
1 GGGTGCATCGATGCACTACT-TATGCATCGATACATAAATAGCATTCGATGTTTGTATTTTAAAG
* ** * *
671382 GGGTGCATCGATGCACTACTTGTGCATCGATACATTGATGGCATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCACTACTTATGCATCGATACATAAATAGCATTCGATGTTTGTATTTTAAAG
*
671446 GAGTGCATCGAT
1 GGGTGCATCGAT
671458 ACACCTTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
63 48 0.73
64 18 0.27
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (64 bp):
GGGTGCATCGATGCACTACTTATGCATCGATACATAAATAGCATTCGATGTTTGTATTTTAAAG
Found at i:672376 original size:20 final size:20
Alignment explanation
Indices: 672351--672411 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
672341 CAGTATGTGC
672351 AGGGGGAACAGATTCCCCCT
1 AGGGGGAACAGATTCCCCCT
*
672371 AGGGGGTATC-GATT-CCCC-
1 AGGGGG-AACAGATTCCCCCT
672389 ---GGGAACAGATTCCCCCT
1 AGGGGGAACAGATTCCCCCT
672406 AGGGGG
1 AGGGGG
672412 GTATCGATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 2 0.06
15 7 0.22
16 4 0.12
19 4 0.12
20 13 0.41
21 2 0.06
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.16
Consensus pattern (20 bp):
AGGGGGAACAGATTCCCCCT
Found at i:672400 original size:35 final size:36
Alignment explanation
Indices: 672354--672424 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
672344 TATGTGCAGG
672354 GGGAACAGATTCCCCCTA-GGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTAGGGGGGTATCGATTCCCC
672389 GGGAACAGATTCCCCCTAGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTAGGGGGGTATCGATTCCCC
672425 CTAAATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 18 0.51
36 17 0.49
ACGTcount: A:0.20, C:0.31, G:0.30, T:0.20
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTAGGGGGGTATCGATTCCCC
Found at i:673105 original size:38 final size:38
Alignment explanation
Indices: 673049--673140 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
673039 TATAAGACAT
* *
673049 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
673087 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
* *
673125 ATAATAGGTCATTCGG
1 ATGATAGGTCCTTCGG
673141 TACATTTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:673121 original size:21 final size:21
Alignment explanation
Indices: 673057--673125 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
673047 ATATGATAGG
* *
673057 TCCTACGGGACACAGATTACA
1 TCCTTCGGGACACAGATGACA
*
673078 TCCTTCGGGATGACAG--G---
1 TCCTTCGGGA-CACAGATGACA
673095 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACACAGATGACA
673116 TCCTTCGGGA
1 TCCTTCGGGA
673126 TAATAGGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
16 4 0.11
17 10 0.26
18 1 0.03
21 19 0.50
22 4 0.11
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.22
Consensus pattern (21 bp):
TCCTTCGGGACACAGATGACA
Found at i:679897 original size:17 final size:17
Alignment explanation
Indices: 679875--679939 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
679865 ACAGATTACA
679875 TCCTTCGGGATGACAGG
1 TCCTTCGGGATGACAGG
679892 TCCTTCGGAACACAGATGACA--
1 TCCTTCGG------GATGACAGG
*
679913 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGACAGG
679930 TCCTTCGGGA
1 TCCTTCGGGA
679940 CATTTATACG
Statistics
Matches: 39, Mismatches: 1, Indels: 16
0.70 0.02 0.29
Matches are distributed among these distances:
15 6 0.15
17 18 0.46
21 8 0.21
23 7 0.18
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (17 bp):
TCCTTCGGGATGACAGG
Found at i:679905 original size:38 final size:38
Alignment explanation
Indices: 679846--679937 Score: 148
Period size: 38 Copynumber: 2.4 Consensus size: 38
679836 TATAAGACAT
* * *
679846 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGAACACAGATGACATCCTTCGGG
*
679884 ATGACAGGTCCTTCGGAACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGAACACAGATGACATCCTTCGGG
679922 ATGATAGGTCCTTCGG
1 ATGATAGGTCCTTCGG
679938 GACATTTATA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGAACACAGATGACATCCTTCGGG
Found at i:681178 original size:29 final size:29
Alignment explanation
Indices: 681132--681188 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 29
681122 TTCTTTGAAC
681132 TTTTAAATTTATCCAATTTGATCACTAAAT
1 TTTTAAATTTAT-CAATTTGATCACTAAAT
681162 TTTTAAATCTTAT-AATTTGATCACTAA
1 TTTTAAAT-TTATCAATTTGATCACTAA
681189 CCCGGTATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 14 0.54
30 8 0.31
31 4 0.15
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (29 bp):
TTTTAAATTTATCAATTTGATCACTAAAT
Found at i:682679 original size:44 final size:44
Alignment explanation
Indices: 682613--682733 Score: 197
Period size: 44 Copynumber: 2.8 Consensus size: 44
682603 ATAATTAAAT
* *
682613 AATAAAAACAATAATAAACAAAATAAATAAAAAGTCCATAATTA
1 AATAAAAACATTAATAAACAAAATAAATAAAAAGTACATAATTA
* * *
682657 AATAAAAATATTAAGAAGCAAAATAAATAAAAAGTACATAATTA
1 AATAAAAACATTAATAAACAAAATAAATAAAAAGTACATAATTA
682701 AATAAAAACATTAATAAACAAAATAAATAAAAA
1 AATAAAAACATTAATAAACAAAATAAATAAAAA
682734 CAAGTCTATC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (44 bp):
AATAAAAACATTAATAAACAAAATAAATAAAAAGTACATAATTA
Found at i:683153 original size:21 final size:21
Alignment explanation
Indices: 683119--683235 Score: 130
Period size: 21 Copynumber: 5.6 Consensus size: 21
683109 CCCTGCGGTT
*
683119 GTGGCGTCTGAAATGGTTGCG
1 GTGGCATCTGAAATGGTTGCG
* **
683140 GTGGCATC-GAAAATGATTGTT
1 GTGGCATCTG-AAATGGTTGCG
* * *
683161 GTGCCATCTGAAGTAGTTGCG
1 GTGGCATCTGAAATGGTTGCG
*
683182 ATGGCATCTGAAAT-GTTGCG
1 GTGGCATCTGAAATGGTTGCG
*
683202 GTGGCATCTGAAATGGTTGTG
1 GTGGCATCTGAAATGGTTGCG
683223 GTGGCATCTGAAA
1 GTGGCATCTGAAA
683236 CAACTACATA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
20 20 0.26
21 57 0.73
22 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGGCATCTGAAATGGTTGCG
Found at i:687617 original size:34 final size:35
Alignment explanation
Indices: 687569--687638 Score: 124
Period size: 34 Copynumber: 2.0 Consensus size: 35
687559 TTAAAAAACT
*
687569 ATATTAATATACTAAATTAAAAGCAG-GCCCATAA
1 ATATTAATAAACTAAATTAAAAGCAGTGCCCATAA
687603 ATATTAATAAACTAAATTAAAAGCAGTGCCCATAA
1 ATATTAATAAACTAAATTAAAAGCAGTGCCCATAA
687638 A
1 A
687639 CTTATTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 25 0.74
35 9 0.26
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (35 bp):
ATATTAATAAACTAAATTAAAAGCAGTGCCCATAA
Found at i:691017 original size:37 final size:37
Alignment explanation
Indices: 690943--691017 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
690933 TACTATAATT
* *
690943 AATTTATATATTTTCTTTAAAAATTTTAAATTCATAA
1 AATTTATATATTTTCTTTAAAAATTTGAAAATCATAA
*
690980 AATTTATATAATTTTTTTTACAAAA-TTGAAAAT-ATAA
1 AATTTATAT-ATTTTCTTTA-AAAATTTGAAAATCATAA
691017 A
1 A
691018 TAGGTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 15 0.45
39 4 0.12
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
AATTTATATATTTTCTTTAAAAATTTGAAAATCATAA
Found at i:692037 original size:15 final size:15
Alignment explanation
Indices: 691995--692050 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
691985 TTTTCATAAT
691995 TATAATTAATATATTA
1 TATAATTAA-ATATTA
* *
692011 TCT-ATGATAATATTA
1 TATAATTA-AATATTA
692026 T-TGAATTAAATATTA
1 TAT-AATTAAATATTA
692041 TATAATTAAA
1 TATAATTAAA
692051 ACCTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 1 0.03
15 25 0.76
16 7 0.21
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (15 bp):
TATAATTAAATATTA
Found at i:692313 original size:7 final size:7
Alignment explanation
Indices: 692301--692357 Score: 96
Period size: 7 Copynumber: 8.1 Consensus size: 7
692291 TATACAAACT
692301 CTTCTCC
1 CTTCTCC
692308 CTTCTCC
1 CTTCTCC
692315 CTTCTCC
1 CTTCTCC
692322 CTTCTCC
1 CTTCTCC
692329 CTTCTCC
1 CTTCTCC
692336 CTTCTCC
1 CTTCTCC
*
692343 CTCCTCC
1 CTTCTCC
*
692350 CTCCTCC
1 CTTCTCC
692357 C
1 C
692358 GTATCTCCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (7 bp):
CTTCTCC
Found at i:693576 original size:31 final size:31
Alignment explanation
Indices: 693538--693631 Score: 120
Period size: 31 Copynumber: 3.0 Consensus size: 31
693528 AGGGTCGAGG
693538 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
693569 GTTTACCTATGTTCTT-TGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGA-ACATATGGACT
* * *
693600 GATTACCTAGGTTCTTCGAAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
693631 G
1 G
693632 GTCCTTCGGG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 2 0.04
31 51 0.93
32 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:694453 original size:22 final size:22
Alignment explanation
Indices: 694394--694456 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
694384 ATTCGGGTAC
694394 TGTTTACGGTACTGTTCATTAT
1 TGTTTACGGTACTGTTCATTAT
* * * *
694416 TATTCACGATAATGTTCATTAT
1 TGTTTACGGTACTGTTCATTAT
*
694438 TGTTTATGGTACTGTTCAT
1 TGTTTACGGTACTGTTCAT
694457 ACCGTATTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (22 bp):
TGTTTACGGTACTGTTCATTAT
Found at i:695281 original size:33 final size:33
Alignment explanation
Indices: 695244--695306 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
695234 ACAAAAAAAA
695244 TATTAAGATAAAAATTAACATGATAGATTGCAT
1 TATTAAGATAAAAATTAACATGATAGATTGCAT
**
695277 TATTAAGATAAAAATTAACATTTTAGATTG
1 TATTAAGATAAAAATTAACATGATAGATTG
695307 TGTCTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (33 bp):
TATTAAGATAAAAATTAACATGATAGATTGCAT
Found at i:713547 original size:15 final size:16
Alignment explanation
Indices: 713527--713556 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
713517 TCTAATTGAG
713527 ATTTAGA-ATTTTAAA
1 ATTTAGAGATTTTAAA
713542 ATTTAGAGATTTTAA
1 ATTTAGAGATTTTAA
713557 CAACAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (16 bp):
ATTTAGAGATTTTAAA
Found at i:719180 original size:21 final size:21
Alignment explanation
Indices: 719151--719202 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
719141 GTTGTCGTGC
*
719151 ACAAGTTTTATAGATGAAACA
1 ACAACTTTTATAGATGAAACA
*
719172 ATAACTTTTATAGATGAAACA
1 ACAACTTTTATAGATGAAACA
719193 ACAACTTTTA
1 ACAACTTTTA
719203 GACTATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
ACAACTTTTATAGATGAAACA
Found at i:719661 original size:189 final size:189
Alignment explanation
Indices: 719338--719719 Score: 737
Period size: 189 Copynumber: 2.0 Consensus size: 189
719328 GGATCATGTC
719338 CTTAAGGAATATGTAGTTCTAAATTATATTGATACTTTACATCAAATAGCTGATATTTTTACCAA
1 CTTAAGGAATATGTAGTTCTAAATTATATTGATACTTTACATCAAATAGCTGATATTTTTACCAA
*
719403 GCCATTAGGTAAAAAATGATTTTGGACACTTATGAAAGAGTTAGGACTTTCTAGCATTCCCTGGG
66 GCCATTAGGTAAAAAATGATTTTGGACACTTATGAAAGAGTTAGGACTTTCTAGCATTCCCTCGG
719468 TCTTAGTTCAAAATTTTGAATTTTTATGTTTTAAATGATTTTTTGGCTTAAAATTGGTT
131 TCTTAGTTCAAAATTTTGAATTTTTATGTTTTAAATGATTTTTTGGCTTAAAATTGGTT
*
719527 CTTAAGGAATATGTAGTTCTAAATTATGTTGATACTTTACATCAAATAGCTGATATTTTTACCAA
1 CTTAAGGAATATGTAGTTCTAAATTATATTGATACTTTACATCAAATAGCTGATATTTTTACCAA
*
719592 GCCATTAGGTAAAAAATGATTTTGGACACTTATGAAAGAGTTAGGACTTTCTAGCATTCCTTCGG
66 GCCATTAGGTAAAAAATGATTTTGGACACTTATGAAAGAGTTAGGACTTTCTAGCATTCCCTCGG
719657 TCTTAGTTCAAAATTTTGAATTTTTATGTTTTAAATGATTTTTTGGCTTAAAATTGGTT
131 TCTTAGTTCAAAATTTTGAATTTTTATGTTTTAAATGATTTTTTGGCTTAAAATTGGTT
719716 CTTA
1 CTTA
719720 TACATGCGTG
Statistics
Matches: 190, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
189 190 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (189 bp):
CTTAAGGAATATGTAGTTCTAAATTATATTGATACTTTACATCAAATAGCTGATATTTTTACCAA
GCCATTAGGTAAAAAATGATTTTGGACACTTATGAAAGAGTTAGGACTTTCTAGCATTCCCTCGG
TCTTAGTTCAAAATTTTGAATTTTTATGTTTTAAATGATTTTTTGGCTTAAAATTGGTT
Found at i:720048 original size:20 final size:20
Alignment explanation
Indices: 720025--720079 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
720015 AAATTATCTC
*
720025 TAAAGTTTTGAAACT-TCTTA
1 TAAAGTTTCGAAACTCTC-TA
* *
720045 TAAAGTATCGATACTCTCTA
1 TAAAGTTTCGAAACTCTCTA
*
720065 TAAAGTTTCAAAACT
1 TAAAGTTTCGAAACT
720080 TTCAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (20 bp):
TAAAGTTTCGAAACTCTCTA
Found at i:722611 original size:670 final size:674
Alignment explanation
Indices: 721296--722637 Score: 1602
Period size: 670 Copynumber: 2.0 Consensus size: 674
721286 TCTCAAACCC
** *
721296 GTCCTCACCTAGCTCATATTATCTTTACCGAGCTTGTCAATACTGTCTCTAAGTGTCTAGGGTAT
1 GTCCTCACCTAGCTCATATTATCTTTACCGAGCTTGTCAATACCATCTATAAGTGTCTAGGGTAT
* * * * *
721361 AAATGTTCCTTACCTTACGCTTGTGTGTTTAGTCACATCTTCACCAAGCGTCGGGTTAATCTTAC
66 AAACGTTCCTTACCTTACGCTTGTGTGCTTAGTCACATCTTCACAAAACGTCAGGTTAATCTTAC
*** * * * * *
721426 CTAGATGTCGCTTTCATCTTTCAAGCTCCACCGACCTTACATCGGCTCACAAAATCATGTATGAC
131 CTAGACACCGCTCTCATCTCTCAAGCTCCACCGACCTTACATCGACTCACAAAATCAGGAATGAC
* * ** * **
721491 TTCATCAATGGTGAATGGGTTCATATTTTTCAAGATCAAGCTGGAGAGGCTTTAGAAGTTGATGT
196 TTCATCAATGGTAAATGGGTTCACATTCATCAAGATCAAGCCGGAGAGGCTCAAGAAGTTGATGT
* * * *
721556 CACACATATTGATCATAGAATTGTTGCTCATTCTCTACGTTCTTTTGTCACTTTAGAGTTGCTTT
261 CACACATATTGATCATAGAATTGTTGCTCATCCTCTACCTTCTTTCGTCACTTTAGAGTTACTTT
*
721621 ACAACTACATGGTTAATAGATTCGATGATATCTTTCACTGCTTCGATGCCATGGAAAACCGTCTT
326 ACAACTACATGATTAATAGATTCGATGATATCTTTCACTGCTTCGATGCCATGGAAAACCGTCTT
* * * * * * * *
721686 GGTATTTTGGAGGTTTGTTTCTCGGATCCTTATTCTCATCCCTATCCTTCTCATGCGGAGGATGA
391 GGCACTTAGAAGGCTCGTTTCTAGGATCCTTATCCTCATCCCTATCCTTCTCATGC-GAGGAT-A
* *
721751 CGAAGACATTGATGATAAGGATTGATCATCCTTTCATTTATCATATCATGATACATTTAAGATTT
454 -GAAGA-ATTGATGAT-A-GATTGATCATCCTTTCATTTAGCATATCATGATACATTTAAGATTC
* ** ** *
721816 TTTGGTTTTTTTAAGATATTATTGTGTTTGGATGTTTTGGTTATTTTGGTTTTTTATGTTTTGGT
515 TTTGGATTTTTTAAGATATTATTGCATTAAGATGTTTTGGTTATTTTGGTATTTTATGTTTTGGT
* *
721881 TATTTCAGATATTTTGCTTATTGTATATGTTTTTGTTATGAAACTTTTATGGATTTATATGTTGA
580 TATTTCAGATATTTTGCTTATTGCATATGCTTTTGTTATGAAACTTTTATGGATTTATATGTTGA
*
721946 ATATTTATTTTGGATAATTTTGGTAAACAT
645 ATATTTATTTAGGATAATTTTGGTAAACAT
* * * *
721976 GTCCTCACCTAGCTCATATTATCTTTATCGAGCTTGTCAATGCCAT-TATAAAG-GTTTAGGGTT
1 GTCCTCACCTAGCTCATATTATCTTTACCGAGCTTGTCAATACCATCTAT-AAGTGTCTAGGGTA
* *
722039 TAAACGTTCCTTACCTTATGCTTGTGTGCTTAGTCACATCTTCACAAAACGTCAGGTTAATCTTG
65 TAAACGTTCCTTACCTTACGCTTGTGTGCTTAGTCACATCTTCACAAAACGTCAGGTTAATCTTA
* * * ** * * * *
722104 CCTATGGCACCGCTACTC-TCCTCTCGAGCTTCGTCGACCTTACCTTGACTCATAAAATCGGGAA
130 CCTA-GACACCGCT-CTCAT-CTCTCAAGCTCCACCGACCTTACATCGACTCACAAAATCAGGAA
* *
722168 TGACTTTATCAATGGTAAATGGGTTCGCATTCATCAAGATCAAGCCGGAGAGGCTCCAAG-AGTT
192 TGACTTCATCAATGGTAAATGGGTTCACATTCATCAAGATCAAGCCGGAGAGGCT-CAAGAAGTT
**** * *
722232 GATGTTGTGCATGTTGATCATAGAATTGTTGCTCCTCCTCCT-CCTCATCATTTCGTCACTTTAG
256 GATGTCACACATATTGATCATAGAATTGTTGCTCATCCT-CTACCT--TC-TTTCGTCACTTTAG
* ** * * * *
722296 A-TTCACTTTACGACTACAAT-ATTGGTAGATTCGATGATGTGTTTCACTGCTTTGATTCCATGG
317 AGTT-ACTTTACAACTAC-ATGATTAATAGATTCGATGATATCTTTCACTGCTTCGATGCCATGG
** * *
722359 -ATGCTCGTCTTGGCGCTTAGAAGGCTCGTTTCTAGGATCCTTATCCTCATCCCTATCTTTCTCA
380 AAAAC-CGTCTTGGCACTTAGAAGGCTCGTTTCTAGGATCCTTATCCTCATCCCTATCCTTCTCA
* *
722423 TGC-A-GAT-GATG-A-TGATGAT-GATTGATCCTCCTTTCATTTAGCATATCATGATACA-TTA
444 TGCGAGGATAGAAGAATTGATGATAGATTGATCATCCTTTCATTTAGCATATCATGATACATTTA
* **
722481 GGA-TCTTTGGATTTTTTGGGATATTATTGCATTAAGATGTTTTTGGTTATTTTGG-ATTTTATG
509 AGATTCTTTGGATTTTTTAAGATATTATTGCATTAAGATG-TTTTGGTTATTTTGGTATTTTATG
*
722544 TTTTGGTTATTTCAGATATTTTGCTTATTGCATATGCTTTTGTTATGACACTTTTATGGATTTAT
573 TTTTGGTTATTTCAGATATTTTGCTTATTGCATATGCTTTTGTTATGAAACTTTTATGGATTTAT
*
722609 ATGTTGAATATTTATTTAGGATATTTTTG
638 ATGTTGAATATTTATTTAGGATAATTTTG
722638 CTTATCATAT
Statistics
Matches: 561, Mismatches: 88, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
670 124 0.22
671 20 0.04
672 34 0.06
675 7 0.01
676 1 0.00
678 3 0.01
679 72 0.13
680 51 0.09
681 123 0.22
682 5 0.01
683 6 0.01
684 113 0.20
685 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (674 bp):
GTCCTCACCTAGCTCATATTATCTTTACCGAGCTTGTCAATACCATCTATAAGTGTCTAGGGTAT
AAACGTTCCTTACCTTACGCTTGTGTGCTTAGTCACATCTTCACAAAACGTCAGGTTAATCTTAC
CTAGACACCGCTCTCATCTCTCAAGCTCCACCGACCTTACATCGACTCACAAAATCAGGAATGAC
TTCATCAATGGTAAATGGGTTCACATTCATCAAGATCAAGCCGGAGAGGCTCAAGAAGTTGATGT
CACACATATTGATCATAGAATTGTTGCTCATCCTCTACCTTCTTTCGTCACTTTAGAGTTACTTT
ACAACTACATGATTAATAGATTCGATGATATCTTTCACTGCTTCGATGCCATGGAAAACCGTCTT
GGCACTTAGAAGGCTCGTTTCTAGGATCCTTATCCTCATCCCTATCCTTCTCATGCGAGGATAGA
AGAATTGATGATAGATTGATCATCCTTTCATTTAGCATATCATGATACATTTAAGATTCTTTGGA
TTTTTTAAGATATTATTGCATTAAGATGTTTTGGTTATTTTGGTATTTTATGTTTTGGTTATTTC
AGATATTTTGCTTATTGCATATGCTTTTGTTATGAAACTTTTATGGATTTATATGTTGAATATTT
ATTTAGGATAATTTTGGTAAACAT
Found at i:722975 original size:2 final size:2
Alignment explanation
Indices: 722968--722995 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
722958 ATATAACATA
722968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
722996 TAATTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:727215 original size:32 final size:32
Alignment explanation
Indices: 727179--727239 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
727169 ACAACAATAC
*
727179 AACACTAGCTGATGCTAGTTTACAAACACTAT
1 AACACTAGCTGAGGCTAGTTTACAAACACTAT
* *
727211 AACACTAGTTGCGGCTAGTTTACAAACAC
1 AACACTAGCTGAGGCTAGTTTACAAACAC
727240 AACCTCGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (32 bp):
AACACTAGCTGAGGCTAGTTTACAAACACTAT
Found at i:729830 original size:24 final size:25
Alignment explanation
Indices: 729803--729854 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
729793 TATTTTTTTT
*
729803 TAAT-AAAAAACGATAAGTTTACTC
1 TAATAAAAAAACAATAAGTTTACTC
* *
729827 TAATAAAAAAATAATATGTTTACTC
1 TAATAAAAAAACAATAAGTTTACTC
729852 TAA
1 TAA
729855 CAATCAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (25 bp):
TAATAAAAAAACAATAAGTTTACTC
Found at i:736392 original size:21 final size:21
Alignment explanation
Indices: 736341--736393 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
736331 ATTCTGACTA
736341 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * * *
736362 TCACGTTGCGATTTTCCTACT
1 TCGCATTGCGATTTTCCAAAT
*
736383 TCGCAATGCGA
1 TCGCATTGCGA
736394 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:736425 original size:20 final size:20
Alignment explanation
Indices: 736402--736448 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
736392 GAATACGTAA
*
736402 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
736422 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
736442 ATCGCAA
1 ATCGCAA
736449 TACTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:737317 original size:24 final size:24
Alignment explanation
Indices: 737290--737343 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
737280 GTATTCGAAA
737290 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
737314 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
737338 TTTGAT
1 TTTGAT
737344 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:739789 original size:20 final size:19
Alignment explanation
Indices: 739764--739872 Score: 148
Period size: 20 Copynumber: 5.5 Consensus size: 19
739754 CAACGCGGAA
739764 ATCGCAACGCGAATATGACT
1 ATCGCAACGCGAA-ATGACT
739784 ATCGCAATACG-GAAATGACT
1 ATCGC-A-ACGCGAAATGACT
*
739804 ATCGCAACGCGGAATTGACT
1 ATCGCAACGC-GAAATGACT
739824 ATCGCAACGCGAAATTGACT
1 ATCGCAACGCGAAA-TGACT
739844 ATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGACT
739864 ATCGCAACG
1 ATCGCAACG
739873 AGAGAATCGT
Statistics
Matches: 81, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 63 0.78
21 8 0.10
22 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:739905 original size:33 final size:34
Alignment explanation
Indices: 739868--739939 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
739858 ATGACTATCG
*
739868 CAACGAGAGAATCGTAATACG-AAATGAAAATCA
1 CAACGAGAGAATCGCAATACGAAAATGAAAATCA
* * *
739901 CAACGAGTGAATCGCAATGCGAAAATGAAAATCG
1 CAACGAGAGAATCGCAATACGAAAATGAAAATCA
739935 CAACG
1 CAACG
739940 CGAAACTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 18 0.53
34 16 0.47
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
CAACGAGAGAATCGCAATACGAAAATGAAAATCA
Found at i:740017 original size:33 final size:34
Alignment explanation
Indices: 739953--740023 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
739943 AACTAATTTC
* *
739953 CGATTTTCATTTTCGCATTGCGATTCACTCGTTG
1 CGATTTTCATTTACGCATTACGATTCACTCGTTG
*
739987 CGATTTTCA-TTACGCATTATGATT-ATCTCGTTG
1 CGATTTTCATTTACGCATTACGATTCA-CTCGTTG
740020 CGAT
1 CGAT
740024 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 23 0.70
34 9 0.27
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (34 bp):
CGATTTTCATTTACGCATTACGATTCACTCGTTG
Found at i:742174 original size:20 final size:20
Alignment explanation
Indices: 742151--742259 Score: 130
Period size: 20 Copynumber: 5.5 Consensus size: 20
742141 GAAACTTAAA
742151 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
742171 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
742191 ATTGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
742211 ATAGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* *
742231 ATCGCAATGC-AAATTTGACT
1 ATCGCAACGCGAAA-ATGACT
742251 ATCGCAACG
1 ATCGCAACG
742260 AGAGAATGGC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 2 0.03
20 76 0.97
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:742329 original size:20 final size:20
Alignment explanation
Indices: 742304--742480 Score: 175
Period size: 20 Copynumber: 9.5 Consensus size: 20
742294 GATTCTTTCG
**
742304 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
742324 TTGCGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
742344 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
742364 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
742378 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
742397 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
742411 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
742431 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
742451 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
742471 TTGCGATAGT
1 TTGCGATAGT
742481 AAACTATTCT
Statistics
Matches: 135, Mismatches: 8, Indels: 28
0.79 0.05 0.16
Matches are distributed among these distances:
14 14 0.10
16 12 0.09
17 6 0.04
18 5 0.04
19 7 0.05
20 91 0.67
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:742352 original size:40 final size:37
Alignment explanation
Indices: 742283--742480 Score: 173
Period size: 40 Copynumber: 5.5 Consensus size: 37
742273 GCAATTTTCA
* *
742283 TTTCGCATTGCG--A-TTCTTTCGTTGCGATAGTCAA
1 TTTCGCATTGCGATAGTTTTTTCGTTGCGATAGTCAT
*
742317 ATTCGCATTGCGATAGTTATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTT-TTTTCG--TTGCGATAGTCAT
* * **
742357 TTTCGCGTTGCGAT--TTTGTT-GTTGCGATTTTCA-
1 TTTCGCATTGCGATAGTTTTTTCGTTGCGATAGTCAT
* *
742390 TTTCGCATTGCG--A-TTCTCTCGTTGCGATAGTCAT
1 TTTCGCATTGCGATAGTTTTTTCGTTGCGATAGTCAT
* *
742424 TTTCGCGTTGCGATAGTCATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGT-TTTTTCG--TTGCGATAGTCAT
742464 TTTCGCATTGCGATAGT
1 TTTCGCATTGCGATAGT
742481 AAACTATTCT
Statistics
Matches: 130, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
32 3 0.02
33 22 0.17
34 32 0.25
36 3 0.02
37 6 0.05
38 11 0.08
40 53 0.41
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (37 bp):
TTTCGCATTGCGATAGTTTTTTCGTTGCGATAGTCAT
Found at i:742415 original size:107 final size:107
Alignment explanation
Indices: 742276--742477 Score: 350
Period size: 107 Copynumber: 1.9 Consensus size: 107
742266 TGGCAATGCA
* *
742276 ATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGCGATAGTTATTTTC
1 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTC
*
742341 GCATTGCGATAGTCATTTTCGCGTTGCGATTTTGTTGTTGCG
66 GCATTGCGATAGTCATTTTCGCATTGCGATTTTGTTGTTGCG
** *
742383 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTC
1 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTC
742448 GCATTGCGATAGTCATTTTCGCATTGCGAT
66 GCATTGCGATAGTCATTTTCGCATTGCGAT
742478 AGTAAACTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 89 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (107 bp):
ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTC
GCATTGCGATAGTCATTTTCGCATTGCGATTTTGTTGTTGCG
Found at i:742934 original size:194 final size:196
Alignment explanation
Indices: 742605--742994 Score: 766
Period size: 194 Copynumber: 2.0 Consensus size: 196
742595 TTGGCAGCAA
742605 CCGAATGAATTTACTAAGCAATCTAAGTAAAATTACGAGTAAATTTATCATCAAGTTAAATATGA
1 CCGAATGAATTTACTAAGCAATCTAAGTAAAATTACGAGTAAATTTATCATCAAGTTAAATATGA
742670 AAAATATTAAACTTACCTCATTGCGTAGAGTATGAAACTCGTTCTGCAACGATGCTACAATCTCA
66 AAAATATTAAACTTACCTCATTGCGTAGAGTATGAAACTCGTTCTGCAACGATGCTACAATCTCA
742735 CGTAGAGCTGCTACCTCACCACGTAAAGTAGACACCTT-ACACGCCATGC-CCATTGTCATCGCG
131 CGTAGAGCTGCTACCTCACCACGTAAAGTAGACACCTTAACACGCCATGCACCATTGTCATCGCG
742798 T
196 T
742799 CCGAATGAATTTACTAAGCAATCTAAGTAAAATTACGAGTAAATTTATCATCAAGTTAAATATGA
1 CCGAATGAATTTACTAAGCAATCTAAGTAAAATTACGAGTAAATTTATCATCAAGTTAAATATGA
742864 AAAATATTAAACTTACCTCATTGCGTAGAGTATGAAACTCGTTCTGCAACGATGCTACAATCTCA
66 AAAATATTAAACTTACCTCATTGCGTAGAGTATGAAACTCGTTCTGCAACGATGCTACAATCTCA
742929 CGTAGAGCTGCTACCTCACCACGTAAAGTAGACACCTTAACACGCCATGCACCATTGTCATCGCG
131 CGTAGAGCTGCTACCTCACCACGTAAAGTAGACACCTTAACACGCCATGCACCATTGTCATCGCG
742994 T
196 T
742995 AAAGTACCGA
Statistics
Matches: 194, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
194 168 0.87
195 11 0.06
196 15 0.08
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (196 bp):
CCGAATGAATTTACTAAGCAATCTAAGTAAAATTACGAGTAAATTTATCATCAAGTTAAATATGA
AAAATATTAAACTTACCTCATTGCGTAGAGTATGAAACTCGTTCTGCAACGATGCTACAATCTCA
CGTAGAGCTGCTACCTCACCACGTAAAGTAGACACCTTAACACGCCATGCACCATTGTCATCGCG
T
Found at i:744574 original size:20 final size:20
Alignment explanation
Indices: 744551--744606 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
744541 TCTGAAACTT
744551 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
744571 AAAACCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
744591 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
744607 TTTGACTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:744984 original size:22 final size:22
Alignment explanation
Indices: 744959--745034 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 22
744949 TGACCGTGAA
*
744959 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGCCGGAGATGGGGAC
* *
744981 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGCCGGAGATGGGGAC
*
745003 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGCCGGAGATGGGGAC
* *
745025 GGATGTCGCC
1 TGATTTCGCC
745035 TTAGAGAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGCCGGAGATGGGGAC
Found at i:745244 original size:20 final size:20
Alignment explanation
Indices: 745221--745334 Score: 129
Period size: 20 Copynumber: 5.7 Consensus size: 20
745211 CGATAGTCAG
*
745221 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
745241 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
745261 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
** * **
745281 AACCGCATTGCGATTTTTCAA
1 ATTCGCATTGCGA-TTTACGT
* *
745302 ATTCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
745322 ATTCGCATTGCGA
1 ATTCGCATTGCGA
745335 ATTAGGAAAA
Statistics
Matches: 74, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
20 61 0.82
21 13 0.18
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:745272 original size:40 final size:41
Alignment explanation
Indices: 745228--745330 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
745218 CAGATTCGCG
**
745228 TTGCGATTTACGTATTCGCATTACGA-TTTACGTATTCACA
1 TTGCGATTTACGTATTCGCATTACGATTTTACAAATTCACA
** * * * *
745268 TTGCGATTTACGTAACCGCATTGCGATTTTTCAAATTCGCG
1 TTGCGATTTACGTATTCGCATTACGATTTTACAAATTCACA
*
745309 TTGTGATTTACGTATTCGCATT
1 TTGCGATTTACGTATTCGCATT
745331 GCGAATTAGG
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 23 0.45
41 28 0.55
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (41 bp):
TTGCGATTTACGTATTCGCATTACGATTTTACAAATTCACA
Found at i:745355 original size:21 final size:21
Alignment explanation
Indices: 745331--745371 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
745321 TATTCGCATT
745331 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
*
745352 GCGAATTTGGAAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
745372 TACGATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:748462 original size:17 final size:17
Alignment explanation
Indices: 748440--748472 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
748430 CATAAAATCA
748440 TTTATGAGTACAAAATT
1 TTTATGAGTACAAAATT
748457 TTTATGAGTACAAAAT
1 TTTATGAGTACAAAAT
748473 AAAAGTTCTC
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:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
TTTATGAGTACAAAATT
Found at i:754034 original size:30 final size:31
Alignment explanation
Indices: 753990--754057 Score: 120
Period size: 30 Copynumber: 2.2 Consensus size: 31
753980 TTTCTTCATT
753990 GGTCACTAACGTTATCGATTTATAATAAAAC
1 GGTCACTAACGTTATCGATTTATAATAAAAC
*
754021 GGTCACT-ACGTTATCGATTTATAATAAAAT
1 GGTCACTAACGTTATCGATTTATAATAAAAC
754051 GGTCACT
1 GGTCACT
754058 CCATCGTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 29 0.81
31 7 0.19
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (31 bp):
GGTCACTAACGTTATCGATTTATAATAAAAC
Found at i:759129 original size:2 final size:2
Alignment explanation
Indices: 759124--759151 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
759114 ATTACCAATT
759124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
759152 CTAAATCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:772741 original size:20 final size:20
Alignment explanation
Indices: 772716--772755 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
772706 GTATCTGATC
772716 TATTAAT-TTATTAATATTTA
1 TATTAATATT-TTAATATTTA
*
772736 TATTAATATTTTAATTTTTA
1 TATTAATATTTTAATATTTA
772756 AAGTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTAATATTTTAATATTTA
Found at i:777755 original size:22 final size:22
Alignment explanation
Indices: 777718--777765 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
777708 AATCATTCTA
777718 AAAATTATATTTTTTAATATTATT
1 AAAATTATATTTTTTAAT-TT-TT
777742 AAAA-TAT-TTTTTTAATTTTT
1 AAAATTATATTTTTTAATTTTT
777762 AAAA
1 AAAA
777766 GCGTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
21 2 0.08
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAAATTATATTTTTTAATTTTT
Found at i:777805 original size:23 final size:23
Alignment explanation
Indices: 777769--777818 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
777759 TTTAAAAGCG
* * *
777769 TATTATTTATTTATTTTAAACAA
1 TATTAATTAATTATTTGAAACAA
*
777792 TATTAATTAATTATTTGAAATAA
1 TATTAATTAATTATTTGAAACAA
777815 TATT
1 TATT
777819 TAAATTATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTAATTAATTATTTGAAACAA
Found at i:777977 original size:15 final size:15
Alignment explanation
Indices: 777918--777958 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
777908 ATTAAAAACT
*
777918 AAATAGATAATTTTA
1 AAATAAATAATTTTA
777933 AAAT-AATAATTTTA
1 AAATAAATAATTTTA
777947 AAATAAATAATT
1 AAATAAATAATT
777959 AATATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
AAATAAATAATTTTA
Found at i:781975 original size:35 final size:35
Alignment explanation
Indices: 781936--782013 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
781926 GGGGTTGGGC
*
781936 ATGTAATTGAAGTATTTTGGAATTTGAAGTTTAGA
1 ATGTAATTGAAGCATTTTGGAATTTGAAGTTTAGA
* ** *
781971 ATGTAATTGAAGCATTTTGGATTTTGGGGTTTATA
1 ATGTAATTGAAGCATTTTGGAATTTGAAGTTTAGA
782006 ATGTAATT
1 ATGTAATT
782014 TATGACTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (35 bp):
ATGTAATTGAAGCATTTTGGAATTTGAAGTTTAGA
Found at i:783394 original size:35 final size:35
Alignment explanation
Indices: 783337--783412 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
783327 AACATAATCC
*
783337 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
* * * ** *
783372 TCAATTACATTTTATACTCCAAATTTGAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
783407 TCAATT
1 TCAATT
783413 TAAGGTTTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
Found at i:789705 original size:21 final size:21
Alignment explanation
Indices: 789679--789718 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
789669 CCCCCTTTGA
*
789679 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
789700 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
789719 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:791691 original size:9 final size:8
Alignment explanation
Indices: 791669--791719 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
791659 TGTTTCAACA
791669 TTTTGGAT
1 TTTTGGAT
791677 ATTTTGGAT
1 -TTTTGGAT
791686 TGTTT-GAT
1 T-TTTGGAT
791694 TTTGTGGAT
1 TTT-TGGAT
*
791703 TGTTGGA-
1 TTTTGGAT
791710 TTTTGGAT
1 TTTTGGAT
791718 TT
1 TT
791720 ATGAATGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:791703 original size:17 final size:17
Alignment explanation
Indices: 791671--791714 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
791661 TTTCAACATT
791671 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
791688 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
791705 TTGGATTTTG
1 TTGGATTTTG
791715 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Done.