Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_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: 3548142
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 17
Found at i:2860822 original size:141 final size:141
Alignment explanation
Indices: 2860568--2860885 Score: 566
Period size: 141 Copynumber: 2.3 Consensus size: 141
2860558 CTAGACGTGC
* *
2860568 AAAGCCCAAATGATGAATGACAGTGGGCGTGAGGCCAGCTCAAGGTGCAAAGCCAGGTGGCTTAA
1 AAAGCCCAAATGATGATTGACCGTGGGCGTGAGGCCAGCTCAAGGTGCAAAGCCAGGTGGCTTAA
2860633 ACTCATAGTAGTCGATGGGACCAAGTTAGTAATGACCAGTGAGAGATCCCGTCAAACAAGGATAG
66 ACTCATAGTAGTCGATGGGACCAAGTTAGTAATGACCAGTGAGAGATCCCGTCAAACAAGGATAG
2860698 TAACAACTTTG
131 TAACAACTTTG
* * *
2860709 AAAGCCCAAATGATGATTGACCGTAGGCGTGAGGCCAGTTCGAGGTGCAAAGCCAGGTGGCTTAA
1 AAAGCCCAAATGATGATTGACCGTGGGCGTGAGGCCAGCTCAAGGTGCAAAGCCAGGTGGCTTAA
2860774 ACTCATAGTAGTCGATGGGACCAAGTTAGTAATGACCAGCT-AGAGATCCCGTCAAACAAGGATA
66 ACTCATAGTAGTCGATGGGACCAAGTTAGTAATGACCAG-TGAGAGATCCCGTCAAACAAGGATA
2860838 GTAACAACTTTG
130 GTAACAACTTTG
*
2860850 AAAGCCCAAATGATGATTGATCGTGGGCGTGAGGCC
1 AAAGCCCAAATGATGATTGACCGTGGGCGTGAGGCC
2860886 TTATTGACTA
Statistics
Matches: 169, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 168 0.99
142 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (141 bp):
AAAGCCCAAATGATGATTGACCGTGGGCGTGAGGCCAGCTCAAGGTGCAAAGCCAGGTGGCTTAA
ACTCATAGTAGTCGATGGGACCAAGTTAGTAATGACCAGTGAGAGATCCCGTCAAACAAGGATAG
TAACAACTTTG
Found at i:2863477 original size:34 final size:35
Alignment explanation
Indices: 2863439--2863513 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
2863429 TTGTCCCTTT
* *
2863439 TTCTTTTT-GATTTTTATTCTTTTTT-TTTGTTTTC
1 TTCTTTTTCG-TTTCTATTCTTTTTTGTTTCTTTTC
*
2863473 TTCTTTTTCGTTTCTCTTCTTTTTTGTTTCTTTTC
1 TTCTTTTTCGTTTCTATTCTTTTTTGTTTCTTTTC
2863508 TT-TTTT
1 TTCTTTT
2863514 GTTTTTGCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 25 0.69
35 11 0.31
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (35 bp):
TTCTTTTTCGTTTCTATTCTTTTTTGTTTCTTTTC
Found at i:2863479 original size:16 final size:15
Alignment explanation
Indices: 2863455--2863518 Score: 83
Period size: 16 Copynumber: 4.1 Consensus size: 15
2863445 TTGATTTTTA
*
2863455 TTCTTTTTTTTTGTT
1 TTCTTCTTTTTTGTT
*
2863470 TTCTTCTTTTTCGTT
1 TTCTTCTTTTTTGTT
2863485 TCTCTTCTTTTTTGTT
1 T-TCTTCTTTTTTGTT
*
2863501 TCTTTTCTTTTTTGTT
1 T-TCTTCTTTTTTGTT
2863517 TT
1 TT
2863519 TGCCCTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.34
16 29 0.66
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (15 bp):
TTCTTCTTTTTTGTT
Found at i:2863496 original size:31 final size:32
Alignment explanation
Indices: 2863456--2863517 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
2863446 TGATTTTTAT
*
2863456 TCTTTTTTTTTGTTT-TCTTCTTTTTCGTTTC
1 TCTTCTTTTTTGTTTCTCTTCTTTTTCGTTTC
* *
2863487 TCTTCTTTTTTGTTTCTTTTCTTTTTTGTTT
1 TCTTCTTTTTTGTTTCTCTTCTTTTTCGTTT
2863518 TTGCCCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (32 bp):
TCTTCTTTTTTGTTTCTCTTCTTTTTCGTTTC
Found at i:2867851 original size:19 final size:19
Alignment explanation
Indices: 2867797--2867851 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2867787 AACCAATAAT
2867797 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
2867816 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
2867835 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
2867852 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:2868012 original size:22 final size:21
Alignment explanation
Indices: 2867936--2868023 Score: 74
Period size: 22 Copynumber: 4.1 Consensus size: 21
2867926 CAAAGAAACT
*
2867936 AAAA-ATATA-ATGAAAATAA
1 AAAATATATATATAAAAATAA
*
2867955 ATAAATAGTATAAAT-AAAATAA
1 A-AAATA-TATATATAAAAATAA
2867977 AAAATATATATATAAAAATATA
1 AAAATATATATATAAAAATA-A
* *
2867999 AAAATGTATGTATAATATAATAA
1 AAAATATATATATAA-A-AATAA
2868022 AA
1 AA
2868024 TACTAAATCG
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
19 1 0.02
20 9 0.16
21 12 0.21
22 26 0.45
23 6 0.10
24 4 0.07
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAATATATATATAAAAATAA
Found at i:2868012 original size:24 final size:24
Alignment explanation
Indices: 2867953--2868025 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
2867943 TAATGAAAAT
*
2867953 AAATAAATAGTATAAATAAAATAAA
1 AAATATATA-TATAAATAAAATAAA
*
2867978 AAATATATATATAAA-AATATAAA
1 AAATATATATATAAATAAAATAAA
* *
2868001 AATGTATGTATAATATAATAAAATA
1 AA-ATATATAT-ATA-AATAAAATA
2868026 CTAAATCGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.23
24 12 0.31
25 11 0.28
26 2 0.05
27 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATATATATATAAATAAAATAAA
Found at i:2868300 original size:10 final size:9
Alignment explanation
Indices: 2868267--2868323 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 9
2868257 ATAAAAAACT
2868267 TATAATAAA
1 TATAATAAA
2868276 TA-AATAAA
1 TATAATAAA
2868284 T-TAATTAAA
1 TATAA-TAAA
2868293 TATAATTAAA
1 TATAA-TAAA
*
2868303 TAT-ATACA
1 TATAATAAA
*
2868311 TAT-ATACA
1 TATAATAAA
2868319 TATAA
1 TATAA
2868324 ATATAAGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
8 23 0.53
9 9 0.21
10 11 0.26
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (9 bp):
TATAATAAA
Found at i:2868757 original size:37 final size:37
Alignment explanation
Indices: 2868716--2868808 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
2868706 ATGCTTGTGG
* * *
2868716 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
* ** *
2868753 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
*
2868790 ATCATATTTTTAGGAGTTT
1 ATCCTATTTTTAGGAGTTT
2868809 GAATCCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
Found at i:2869142 original size:35 final size:34
Alignment explanation
Indices: 2869063--2869141 Score: 113
Period size: 37 Copynumber: 2.2 Consensus size: 34
2869053 AGGTTTTCTT
*
2869063 TTTTTTTTTGTTTTCAGAGAAACAATTTCAAAGG
1 TTTTTTTTTGTTTCCAGAGAAACAATTTCAAAGG
*
2869097 TTTTCTTTTTGTGTTCCAAGAGAAACGATTTCAAAGG
1 TTTT-TTTTTGT-TTCC-AGAGAAACAATTTCAAAGG
2869134 TTTTTTTT
1 TTTTTTTT
2869142 GGGAAACTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 4 0.10
35 7 0.17
36 7 0.17
37 22 0.55
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.49
Consensus pattern (34 bp):
TTTTTTTTTGTTTCCAGAGAAACAATTTCAAAGG
Found at i:2869320 original size:101 final size:101
Alignment explanation
Indices: 2869201--2869576 Score: 619
Period size: 102 Copynumber: 3.7 Consensus size: 101
2869191 CAAAGGTTGG
* * *
2869201 TGTTTCAAGAGAAACTGTCTCAAGAGAGGCAAAATTTATTTCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
2869266 CAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
66 CAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
*
2869302 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAA-AATTTGTTTCAAGGGAAACTATCTCAAGAGAG
2869367 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
65 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
*
2869404 TGTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
2869468 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
65 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
** * *
2869505 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATTTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTCAAGGGAAACTATCTCAAGAGAG
*
2869570 ATAAAAT
65 ACAAAAT
2869577 CTTGTTTTAA
Statistics
Matches: 258, Mismatches: 13, Indels: 7
0.93 0.05 0.03
Matches are distributed among these distances:
100 1 0.00
101 128 0.50
102 129 0.50
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
Found at i:2869353 original size:37 final size:37
Alignment explanation
Indices: 2869302--2869570 Score: 134
Period size: 37 Copynumber: 7.8 Consensus size: 37
2869292 TCGATGTTTA
*
2869302 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAATATTT
* * *
2869339 TGTTTCAAGGGAAACTATCTCAAGAGAGACAA-AATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAATATTT
** * *
2869375 CATTTCAAGGGAAA-TGTTTTC----GATG----T-TTA
1 TGTTTCAAGGGAAACTG-TCTCAAGGGA-GACAATATTT
* *
2869404 TGTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAATATTT
* * * *
2869440 TGTTTCAAGGGAAACTATCTCAAGAGAAACAA-AATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAATATTT
** * * *
2869476 CATTTCAAGGGAAA-TGTTTTCAA---TG----T-TTA
1 TGTTTCAAGGGAAACTG-TCTCAAGGGAGACAATATTT
*
2869505 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAT-TTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAATATTT
* * *
2869541 CTGTTTCGAGGGAAACTATCTCAAGCGAGA
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGA
2869571 TAAAATCTTG
Statistics
Matches: 168, Mismatches: 39, Indels: 50
0.65 0.15 0.19
Matches are distributed among these distances:
28 10 0.06
29 23 0.14
30 2 0.01
31 1 0.01
32 5 0.03
33 1 0.01
35 2 0.01
36 48 0.29
37 76 0.45
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAATATTT
Found at i:2869357 original size:102 final size:102
Alignment explanation
Indices: 2869201--2869576 Score: 632
Period size: 101 Copynumber: 3.7 Consensus size: 102
2869191 CAAAGGTTGG
* * * *
2869201 TGTTTCAAGAGAAACTGTCTCAAGAGAGGCAA-AATTTATTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
2869265 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
2869302 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
2869367 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
* *
2869404 TGTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
2869468 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
* *
2869505 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAT-TTTCTGTTTCGAGGGAAACTATCTCAAGCGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTT-TGTTTCAAGGGAAACTATCTCAAGAGA
*
2869569 GATAAAAT
65 GACAAAAT
2869577 CTTGTTTTAA
Statistics
Matches: 260, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
101 131 0.50
102 129 0.50
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTA
Found at i:2869493 original size:203 final size:203
Alignment explanation
Indices: 2869201--2869576 Score: 648
Period size: 203 Copynumber: 1.9 Consensus size: 203
2869191 CAAAGGTTGG
* *
2869201 TGTTTCAAGAGAAACTGTCTCAAGAGAGGCAAAATTTATTTCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTATCTCAAGAGAAA
*
2869266 CAAAATTCATTTCAAGGGAAATGTTTTCGATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
66 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
2869331 CAATATTT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
131 CAAT-TTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
2869395 CGATGTTTA
195 CGATGTTTA
* *
2869404 TGTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTATTTCAAGGGAAACTATCTCAAGAGAA
2869468 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAG
65 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAG
* * *
2869533 ACAATTTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
130 ACAATTTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
2869577 CTTGTTTTAA
Statistics
Matches: 163, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
202 29 0.18
203 134 0.82
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (203 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTATCTCAAGAGAAA
CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
CAATTTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
GATGTTTA
Found at i:2875021 original size:33 final size:32
Alignment explanation
Indices: 2874960--2875039 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 32
2874950 TGAATAAAAT
2874960 AAAGAAAATAAAAACAAGTAAAGAAAAATAACA
1 AAAGAAAATAAAAACAAGTAAAGAAAAATAA-A
* * * *
2874993 AAAGAAAATAATAATAA-TAATAGTAAAATGAA
1 AAAGAAAATAAAAACAAGTAA-AGAAAAATAAA
*
2875025 AAAGAATAAAAAAAA
1 AAAGAA-AATAAAAA
2875040 TGAATATGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 10 0.26
33 29 0.74
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.14
Consensus pattern (32 bp):
AAAGAAAATAAAAACAAGTAAAGAAAAATAAA
Found at i:2875109 original size:19 final size:20
Alignment explanation
Indices: 2875085--2875176 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 20
2875075 AAAACAAATC
2875085 AAAATAAAATAATAAAT-TA
1 AAAATAAAATAATAAATATA
2875104 AAAATAAGAATAA-AAGATA-A
1 AAAATAA-AATAATAA-ATATA
* *
2875124 AATATAATATAATATAATAATA
1 AAAATAAAATAATA-AAT-ATA
* *
2875146 ATAATAAAA-AGT-AATGATA
1 AAAATAAAATAATAAAT-ATA
2875165 AAAATAAAATAA
1 AAAATAAAATAA
2875177 AAGAGAATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
19 27 0.48
20 18 0.32
21 4 0.07
22 7 0.12
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAATAAAATAATAAATATA
Found at i:2875190 original size:25 final size:26
Alignment explanation
Indices: 2875135--2875193 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
2875125 ATATAATATA
*
2875135 ATATAATAATAATAATAAAAAGTAAT
1 ATATAAAAATAATAATAAAAAGTAAT
*
2875161 -GATAAAAATAA-AATAAAAGAG-AAT
1 ATATAAAAATAATAATAAAA-AGTAAT
2875185 ATATAAAAA
1 ATATAAAAA
2875194 ACAAGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (26 bp):
ATATAAAAATAATAATAAAAAGTAAT
Found at i:2875207 original size:2 final size:2
Alignment explanation
Indices: 2875202--2875279 Score: 86
Period size: 2 Copynumber: 38.5 Consensus size: 2
2875192 AAACAAGTAA
*
2875202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
2875243 GAG AT AA AA AT GAT AT AT AT AT AT AT AT AT AA AT AT A
1 -AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
2875280 ATAAATTGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
1 1 0.02
2 62 0.94
3 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (2 bp):
AT
Found at i:2875605 original size:16 final size:18
Alignment explanation
Indices: 2875584--2875624 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
2875574 ATATACATGT
2875584 AATAAC-GT-ATTAATAA
1 AATAACAGTAATTAATAA
2875600 AATAACAAAGTAATTAATAA
1 AATAAC--AGTAATTAATAA
2875620 AATAA
1 AATAA
2875625 AAAGAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
19 2 0.10
20 13 0.62
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAACAGTAATTAATAA
Found at i:2878601 original size:12 final size:12
Alignment explanation
Indices: 2878558--2878612 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
2878548 TTAGCATCAG
2878558 CATCATCAACAT
1 CATCATCAACAT
* *
2878570 CACCATCACCAT
1 CATCATCAACAT
*
2878582 CATTATCAACAT
1 CATCATCAACAT
* *
2878594 TATCATCATCAT
1 CATCATCAACAT
*
2878606 CGTCATC
1 CATCATC
2878613 GTCAACTACA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (12 bp):
CATCATCAACAT
Found at i:2878604 original size:6 final size:6
Alignment explanation
Indices: 2878552--2878612 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
2878542 TGTTCATTAG
* * * * * * *
2878552 CATCAG CATCAT CAACAT CACCAT CACCAT CATTAT CAACAT TATCAT
1 CATCAT CATCAT CATCAT CATCAT CATCAT CATCAT CATCAT CATCAT
*
2878600 CATCAT CGTCAT C
1 CATCAT CATCAT C
2878613 GTCAACTACA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.28
Consensus pattern (6 bp):
CATCAT
Found at i:2879774 original size:38 final size:39
Alignment explanation
Indices: 2879700--2879808 Score: 138
Period size: 38 Copynumber: 2.8 Consensus size: 39
2879690 TTTAAAAAAT
2879700 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
*
2879739 AATTTAGAATGTT-ATG-GCAACA-AATTTAAGAAATTAGG
1 AATTTAGAATGTTAATGTG-AA-ATAATTTAAGAAATTAAG
*
2879777 AATTTAGAATG-TAGA-GTGAAATAATTTGAGAA
1 AATTTAGAATGTTA-ATGTGAAATAATTTAAGAA
2879809 TTATAACTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
37 3 0.05
38 43 0.69
39 16 0.26
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.33
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
Found at i:2882556 original size:2 final size:2
Alignment explanation
Indices: 2882549--2882608 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
2882539 TAATGAAACG
2882549 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
2882591 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2882609 TTAATGTTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2889655 original size:3 final size:3
Alignment explanation
Indices: 2889647--2889691 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
2889637 AGGAAAAATA
* *
2889647 AAT AAT AAT AAT AAT AAT GAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2889692 GACAATAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2901541 original size:26 final size:26
Alignment explanation
Indices: 2901512--2901561 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2901502 ATAAAACTGT
*
2901512 TGATGTTTGAATGAAACAAAATTTGG
1 TGATATTTGAATGAAACAAAATTTGG
2901538 TGATATTTGAATGAAACAAAATTT
1 TGATATTTGAATGAAACAAAATTT
2901562 TTAGTTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (26 bp):
TGATATTTGAATGAAACAAAATTTGG
Found at i:2905553 original size:63 final size:63
Alignment explanation
Indices: 2905454--2905579 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
2905444 AGGATATGAT
*
2905454 CTCGATTATGTGTTCGGAGTCGCATATGAGTGCTTTAATTGAACACTGAGAATGCACAAACAA
1 CTCGATTATGTGTTCCGAGTCGCATATGAGTGCTTTAATTGAACACTGAGAATGCACAAACAA
2905517 CTCGATTATGTGTTCCGAGTCGCATATGAGTGCTTTAATTGAACACTGAGAATGCACAAACAA
1 CTCGATTATGTGTTCCGAGTCGCATATGAGTGCTTTAATTGAACACTGAGAATGCACAAACAA
2905580 TTTTACAAGA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (63 bp):
CTCGATTATGTGTTCCGAGTCGCATATGAGTGCTTTAATTGAACACTGAGAATGCACAAACAA
Found at i:2906675 original size:17 final size:17
Alignment explanation
Indices: 2906647--2906697 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
2906637 TTAAGAGTTG
*
2906647 GTTTAATAAATGAACTA
1 GTTTAATGAATGAACTA
* *
2906664 GTTTGATGAATGAACCA
1 GTTTAATGAATGAACTA
*
2906681 GTTTAATTAATGAACTA
1 GTTTAATGAATGAACTA
2906698 ACTTTATTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (17 bp):
GTTTAATGAATGAACTA
Found at i:2906792 original size:17 final size:18
Alignment explanation
Indices: 2906772--2906835 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 18
2906762 ACTACTTCCC
2906772 TAAATGAAATACATG-TT
1 TAAATGAAATACATGCTT
* *
2906789 TAAATGCAATGCATGCTT
1 TAAATGAAATACATGCTT
*
2906807 T-AATGAACA-ACATACTTAT
1 TAAATGAA-ATACATGC-T-T
2906826 TAAATGAAAT
1 TAAATGAAAT
2906836 GAATTTCATG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
17 22 0.61
18 5 0.14
19 3 0.08
20 6 0.17
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TAAATGAAATACATGCTT
Found at i:2910770 original size:17 final size:17
Alignment explanation
Indices: 2910748--2910781 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2910738 AATTAATACT
2910748 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
2910765 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
2910782 CAATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:2911515 original size:20 final size:20
Alignment explanation
Indices: 2911483--2911528 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2911473 TACTATGCTG
2911483 GAAATT-AATGTTA-GAGTGTT
1 GAAATTGAATGTTAGGA-TG-T
2911503 GAAATTGAA-GTTAGGATGT
1 GAAATTGAATGTTAGGATGT
2911522 GAAATTG
1 GAAATTG
2911529 GATTATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
GAAATTGAATGTTAGGATGT
Found at i:2919228 original size:93 final size:91
Alignment explanation
Indices: 2919071--2919254 Score: 350
Period size: 93 Copynumber: 2.0 Consensus size: 91
2919061 TGATATACAA
2919071 CGGATCTAGAACATCAACAAATTTCTGAATGGATGTCATCTTTGTGTTTCTTCAATCTTTGAGGA
1 CGGATCTAGAACATCAACAAATTTCTGAATGGATGTCATCTTTGTGTTTCTTCAATCTTTGAGGA
2919136 AATGGTGGTGGTGGTCTCACGTCATC
66 AATGGTGGTGGTGGTCTCACGTCATC
2919162 CGGATCTAGAACATCAACAAAATTTCTTGAATGGATGTCATCTTTGTGTTTCTTCAATCTTTGAG
1 CGGATCTAGAACATCAAC-AAATTTC-TGAATGGATGTCATCTTTGTGTTTCTTCAATCTTTGAG
2919227 GAAATGGTGGTGGTGGTCTCACGTCATC
64 GAAATGGTGGTGGTGGTCTCACGTCATC
2919255 TACTGTTGGT
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
91 18 0.20
92 7 0.08
93 66 0.73
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (91 bp):
CGGATCTAGAACATCAACAAATTTCTGAATGGATGTCATCTTTGTGTTTCTTCAATCTTTGAGGA
AATGGTGGTGGTGGTCTCACGTCATC
Found at i:2927946 original size:35 final size:35
Alignment explanation
Indices: 2927900--2927970 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
2927890 CATCTCCTAA
2927900 AATACAATATCTGCAAAAACAAAGGCCAATATATC
1 AATACAATATCTGCAAAAACAAAGGCCAATATATC
2927935 AATACAATATCTGCAAAAACAAAGGCCAATATATC
1 AATACAATATCTGCAAAAACAAAGGCCAATATATC
2927970 A
1 A
2927971 TAATACAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (35 bp):
AATACAATATCTGCAAAAACAAAGGCCAATATATC
Found at i:2930885 original size:18 final size:18
Alignment explanation
Indices: 2930862--2930903 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2930852 TGGGTCTGGA
*
2930862 TTCTGGGCCTGGACCGGG
1 TTCTGGGCCTGGACCAGG
*
2930880 TTCTGGGCCTGGATCAGG
1 TTCTGGGCCTGGACCAGG
2930898 TTCTGG
1 TTCTGG
2930904 ATCTGCTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.24, G:0.40, T:0.29
Consensus pattern (18 bp):
TTCTGGGCCTGGACCAGG
Found at i:2930992 original size:3 final size:3
Alignment explanation
Indices: 2930986--2931025 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
2930976 ATTTATTATT
2930986 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
2931026 ACTATGACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2931330 original size:82 final size:81
Alignment explanation
Indices: 2931160--2931832 Score: 653
Period size: 82 Copynumber: 8.2 Consensus size: 81
2931150 TGCTCTACTC
2931160 TTCTTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTTCGGGTAGTCAAATCAATTTTGG-A
1 TTCTTTCAGGGGAGATCAAA-TTGATATGTTCCTC-TTTTTCGGGTAGTCAAATCAATTTTGGAA
* * * * *
2931224 GAATGGGTATGCTTCACTA
64 G-ACGAGTCTACTCCACTA
* * * *
2931243 ATCTTTCAGGGGAGATCATAATTGATATGTTTCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAG
1 TTCTTTCAGGGGAGATCA-AATTGATATGTTCCTCTTTTTCGGGTAGTCAAATCAATTTTGGAAG
* * *
2931308 ACGAATGTTCTCCACTA
65 ACGAGTCTACTCCACTA
* ** *
2931325 TTCTTTCAAGATAGATCAAACTTGATATGTTCCTCTTTTTCGGGTATTCAAATCAATTTTGGAAG
1 TTCTTTCAGGGGAGATCAAA-TTGATATGTTCCTCTTTTTCGGGTAGTCAAATCAATTTTGGAAG
** *
2931390 ACGAGTCTACTTTATTA
65 ACGAGTCTACTCCACTA
* * * **
2931407 ATCATTT-AGGGGAGATCATACTTGA-ACTGTAT-CTC-TTTTCAGGTAGTTTAATCAATTTTGG
1 TTC-TTTCAGGGGAGATCA-AATTGATA-TGT-TCCTCTTTTTCGGGTAGTCAAATCAATTTTGG
* * *
2931468 AAGATGGGTCTGCTCCACTA
62 AAGACGAGTCTACTCCACTA
* * *
2931488 TTCATTCAGGGGAGATCAAACTTAATTTGTTCCTCTTTTTCGGGTAGTCAAATCAATTTTGGAAG
1 TTCTTTCAGGGGAGATCAAA-TTGATATGTTCCTCTTTTTCGGGTAGTCAAATCAATTTTGGAAG
*
2931553 TCGAGTCTACTCCACTA
65 ACGAGTCTACTCCACTA
* * * * *
2931570 TTCATTCAGAGGAGATCAGACTTGATCTGTTCCTCTTTTTCGGGTAGTCATATCAATTTTGGAAG
1 TTCTTTCAGGGGAGATCA-AATTGATATGTTCCTCTTTTTCGGGTAGTCAAATCAATTTTGGAAG
* *
2931635 ACGAGTCTGCTCTACTA
65 ACGAGTCTACTCCACTA
* * * *
2931652 TT-TATTTAGGGGAGATCAGACTTGATCTGTTCCT-TCTTTTCGGGTAGTCAGATCAATTTTGGA
1 TTCT-TTCAGGGGAGATCA-AATTGATATGTTCCTCT-TTTTCGGGTAGTCAAATCAATTTTGGA
2931715 AGACACGAGTCTACTCCACTA
63 AG--ACGAGTCTACTCCACTA
** * * * *
2931736 TTGAATT-AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTAGGAA
1 TT-CTTTCAGGGGAGATCA-AATTGATATGTTCCTCTTTTTCGGGTAGTCAAATCAATTTTGGAA
** *
2931800 GACGAGTCCGCTCCGCTA
64 GACGAGTCTACTCCACTA
*
2931818 TTCTTGCA-GGGAGAT
1 TTCTTTCAGGGGAGAT
2931833 AAGACTCGAG
Statistics
Matches: 495, Mismatches: 74, Indels: 44
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.01
81 70 0.14
82 307 0.62
83 38 0.08
84 73 0.15
85 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (81 bp):
TTCTTTCAGGGGAGATCAAATTGATATGTTCCTCTTTTTCGGGTAGTCAAATCAATTTTGGAAGA
CGAGTCTACTCCACTA
Found at i:2931444 original size:164 final size:165
Alignment explanation
Indices: 2931148--2931832 Score: 780
Period size: 164 Copynumber: 4.2 Consensus size: 165
2931138 TGATGGGAAA
* *
2931148 TCTGCTCTACTCTTCTTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTTCGGGTAGTCAAA
1 TCTGCTCCACTATTCTTTCAGGGGAGATCAAACTTGATATGTTCCTC-TTTTTCGGGTAGTCAAA
* * * * * * * *
2931213 TCAATTTTGG-AGAATGGGTATGCTTCACTAATC-TTTCAGGGGAGATCATAATTGATA-TGTTT
65 TCAATTTTGGAAGAACGAGTCTACTCCACTAATCATTT-AGGGGAGATCAGACTTGA-ACTGTTC
* *
2931275 CTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGAA
128 CTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAG
* * * ** *
2931313 TGTTCTCCACTATTCTTTCAAGATAGATCAAACTTGATATGTTCCTCTTTTTCGGGTATTCAAAT
1 TCTGCTCCACTATTCTTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTCGGGTAGTCAAAT
** * *
2931378 CAATTTTGGAAG-ACGAGTCTACTTTATTAATCATTTAGGGGAGATCATACTTGAACTGTAT-CT
66 CAATTTTGGAAGAACGAGTCTACTCCACTAATCATTTAGGGGAGATCAGACTTGAACTGT-TCCT
* * * *
2931441 C-TTTTCAGGTAGTTTA-ATCAATTTTGGAAGATGGG
130 CTTTTTCGGGTAG-TCAGATCAATTTTGGAAGACGAG
* * *
2931476 TCTGCTCCACTATTCATTCAGGGGAGATCAAACTTAATTTGTTCCTCTTTTTCGGGTAGTCAAAT
1 TCTGCTCCACTATTCTTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTCGGGTAGTCAAAT
* * * * *
2931541 CAATTTTGGAAG-TCGAGTCTACTCCACTATTCATTCAGAGGAGATCAGACTTGATCTGTTCCTC
66 CAATTTTGGAAGAACGAGTCTACTCCACTAATCATTTAGGGGAGATCAGACTTGAACTGTTCCTC
*
2931605 TTTTTCGGGTAGTCATATCAATTTTGGAAGACGAG
131 TTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAG
* * * * *
2931640 TCTGCTCTACTATT-TATTTAGGGGAGATCAGACTTGATCTGTTCCT-TCTTTTCGGGTAGTCAG
1 TCTGCTCCACTATTCT-TTCAGGGGAGATCAAACTTGATATGTTCCTCT-TTTTCGGGTAGTCAA
* * * **
2931703 ATCAATTTTGGAAGACACGAGTCTACTCCACTATTGAATTAGGGGAGATCAGACTTGATTTGTTC
64 ATCAATTTTGGAAGA-ACGAGTCTACTCCACTAATCATTTAGGGGAGATCAGACTTGAACTGTTC
*
2931768 CTCTTTTTCGGGTAGTCAGATCAATTTAGGAAGACGAG
128 CTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAG
* * *
2931806 TCCGCTCCGCTATTCTTGCA-GGGAGAT
1 TCTGCTCCACTATTCTTTCAGGGGAGAT
2931833 AAGACTCGAG
Statistics
Matches: 444, Mismatches: 63, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
162 1 0.00
163 138 0.31
164 159 0.36
165 53 0.12
166 92 0.21
167 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (165 bp):
TCTGCTCCACTATTCTTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTCGGGTAGTCAAAT
CAATTTTGGAAGAACGAGTCTACTCCACTAATCATTTAGGGGAGATCAGACTTGAACTGTTCCTC
TTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAG
Found at i:2931641 original size:245 final size:245
Alignment explanation
Indices: 2931167--2931838 Score: 811
Period size: 245 Copynumber: 2.7 Consensus size: 245
2931157 CTCTTCTTTC
*
2931167 AGGGGAGATCAAACTTGATA-TGTTCCTCTTTTTTCGGGTAGTCAAATCAATTTTGG-AGAATGG
1 AGGGGAGATCAAACTTGA-ACTGTTCCTC--TTTTCGGGTAGTTAAATCAATTTTGGAAGAATGG
* * * * * * *
2931230 GTATGCTTCACTAATCTTTCAGGGGAGATCATAA-TTGATATGTTTCTCTTTTTTGGGTAGTCAG
63 GTCTGCTCCACTATTCATTCAGGGGAGATCA-AACTTGATTTGTTCCTCTTTTTCGGGTAGTCAG
* * * * *
2931294 ATCAATTTTGGAAGACGAATGTTCTCCACTATTCTTTCA-AGATAGATCAAACTTGATATGTTCC
127 ATCAATTTTGGAAGACGAGTCTACTCCACTATTC-TTCAGAG-GAGATCAGACTTGATATGTTCC
* * *
2931358 TCTTTTTCGGGTATTCAAATCAATTTTGGAAGACGAGTCTACTTTATTAATCATTT
190 TCTTTTTCGGGTAGTCAAATCAATTTTGGAAGACGAGTCTACTCTACTAATCATTT
* * *
2931414 AGGGGAGATCATACTTGAACTGTAT-CTCTTTTCAGGTAGTTTAATCAATTTTGGAAG-ATGGGT
1 AGGGGAGATCAAACTTGAACTGT-TCCTCTTTTCGGGTAGTTAAATCAATTTTGGAAGAATGGGT
* *
2931477 CTGCTCCACTATTCATTCAGGGGAGATCAAACTTAATTTGTTCCTCTTTTTCGGGTAGTCAAATC
65 CTGCTCCACTATTCATTCAGGGGAGATCAAACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATC
* *
2931542 AATTTTGGAAGTCGAGTCTACTCCACTATTCATTCAGAGGAGATCAGACTTGATCTGTTCCTCTT
130 AATTTTGGAAGACGAGTCTACTCCACTATTC-TTCAGAGGAGATCAGACTTGATATGTTCCTCTT
* * * *
2931607 TTTCGGGTAGTCATATCAATTTTGGAAGACGAGTCTGCTCTACTATTTATTT
194 TTTCGGGTAGTCAAATCAATTTTGGAAGACGAGTCTACTCTACTAATCATTT
* * * * * *
2931659 AGGGGAGATCAGACTTGATCTGTTCCTTCTTTTCGGGTAGTCAGATCAATTTTGGAAGACACGAG
1 AGGGGAGATCAAACTTGAACTGTTCC-TCTTTTCGGGTAGTTAAATCAATTTTGGAAGA-ATGGG
* * *
2931724 TCTACTCCACTATTGAATT-AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGA
64 TCTGCTCCACTATT-CATTCAGGGGAGATCAAACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGA
* ** * *
2931788 TCAATTTAGGAAGACGAGTCCGCTCCGCTATTCTTGCAG-GGAGATAAGACT
128 TCAATTTTGGAAGACGAGTCTACTCCACTATTCTT-CAGAGGAGATCAGACT
2931839 CGAGAAATTT
Statistics
Matches: 367, Mismatches: 47, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
244 3 0.01
245 203 0.55
246 32 0.09
247 36 0.10
248 90 0.25
249 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (245 bp):
AGGGGAGATCAAACTTGAACTGTTCCTCTTTTCGGGTAGTTAAATCAATTTTGGAAGAATGGGTC
TGCTCCACTATTCATTCAGGGGAGATCAAACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCA
ATTTTGGAAGACGAGTCTACTCCACTATTCTTCAGAGGAGATCAGACTTGATATGTTCCTCTTTT
TCGGGTAGTCAAATCAATTTTGGAAGACGAGTCTACTCTACTAATCATTT
Found at i:2932066 original size:89 final size:89
Alignment explanation
Indices: 2931863--2932764 Score: 988
Period size: 89 Copynumber: 10.1 Consensus size: 89
2931853 AAAACGCTGA
* * * ** *
2931863 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCATTTACTTTTCTGGGGAGATCACA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
* * *
2931928 CTGTGAGATTGATTTGCGTCACTAC
66 CT-CGAGATTGATTTGCTTCGCTAC
* * * * * *
2931953 TCTTTCGGGAAGACCAAGTGTGAAATAAAAAGAATTTGCTCCTATACTATTCCCGGGAGATCAGA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
* *
2932018 TTCGAGATTGATTTGCTTTGCTAC
66 CTCGAGATTGATTTGCTTCGCTAC
* * * * *
2932042 TCTTTCGGGAAGACCAAATCTGAAATATGAAGATTCTGCTGCTCT-CTCAT-CCGGGAGATTAGA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
* *
2932105 CTCAAGATTGATTTTCTTCGCTAC
66 CTCGAGATTGATTTGCTTCGCTAC
* * * *
2932129 TCTTTCGAGAAGACAAAAACTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGATCAGA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
* *
2932194 CTTGAGATTGATTTGCTTCACTAC
66 CTCGAGATTGATTTGCTTCGCTAC
** *
2932218 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCAACTCCTCTACTCTTCCAGGGAGATCAGA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
*
2932283 CTCGAGATTAATTTGCTTCGCTAC
66 CTCGAGATTGATTTGCTTCGCTAC
* * * * * * *
2932307 TATTTCAGGAAGACCAAATCTGAAATAAGAAGAATATGTTCCCCTACTCTTGCGGGGAGATCAGA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
* *
2932372 CTCGAGATTGATTTTCTTCTCTAC
66 CTCGAGATTGATTTGCTTCGCTAC
** * *
2932396 TCTTTCGATAAAACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTT-CCGAGGATATCAG
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCG-GGAGATCAG
* * *
2932460 ACTCAAGATTGATTTACTTCGTTAC
65 ACTCGAGATTGATTTGCTTCGCTAC
* ** * * * * * * * *
2932485 TTTTTTAGGAAGAACAAATCTGATATAAGAGGAATCTGTTCCACTACTCTT-CTGGGAGATTAAA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
*
2932549 CTCGAGATTGATTTTCTTCAG-TAC
66 CTCGAGATTGATTTGCTTC-GCTAC
** ** * * * *
2932573 TCTTTCAAGAAGACCAAATCTGGGATAAGAAGAATTTGTTCCTCTACTCTTCCGGGGAGATCAAA
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
*
2932638 CTCAAGATTGATTTGCTTCGCTAC
66 CTCGAGATTGATTTGCTTCGCTAC
* * * * *
2932662 TCTTTCGGGAAGAGCAAATATGACATAAGAAGAATCTGCTCCTATGCTCTT-CCGAGGAGATCAG
1 TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCG-GGAGATCAG
* * * *
2932726 ACTCAAGATTTATTTTGCTTCGTTAG
65 ACTCGAGATTGA-TTTGCTTCGCTAC
*
2932752 TCTTTCAGGAAGA
1 TCTTTCGGGAAGA
2932765 GTAAATCAAA
Statistics
Matches: 680, Mismatches: 124, Indels: 16
0.83 0.15 0.02
Matches are distributed among these distances:
87 71 0.10
88 81 0.12
89 449 0.66
90 79 0.12
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (89 bp):
TCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCCGGGAGATCAGA
CTCGAGATTGATTTGCTTCGCTAC
Found at i:2932586 original size:444 final size:445
Alignment explanation
Indices: 2931865--2932764 Score: 1128
Period size: 444 Copynumber: 2.0 Consensus size: 445
2931855 AACGCTGATC
* * ** *
2931865 TTTCGGGAAGACCAAATCTGAAATAAGAAGAATCTGCTCATTTACTTTTCTGGGGAGATCACACT
1 TTTCAGGAAGACCAAATCTGAAATAAGAAGAATATGCTCACCTACTTTGCTGGGGAGATCACACT
* * * * * *
2931930 GTGAGATTGATTTGCGTCACTACTCTTTCGGGAAGACCAAGTGTGAAATAAAAAGAATTTGCTCC
66 GCGAGATTGATTTGCGTCACTACTCTTTCGAGAAAACCAAATCTGAAATAAAAAGAATCTGCTCC
* * * * * *
2931995 TATACTATTCCCGGGAGATCAGATTCGAGATTGATTTGCTTTGCTACTCTTTCGGGAAGACCAAA
131 TATACTATTCCCGGGAGATCAGACTCAAGATTGATTTACTTCGCTACTCTTTCAGGAAGAACAAA
* * * * *
2932060 TCTGAAATATGAAGATTCTGCTGCTCTCTCATCCGGGAGATTAGACTCAAGATTGATTTTCTTCG
196 TCTGAAATAAGAAGAATCTGCTCCACTCTCATCCGGGAGATTAAACTCAAGATTGATTTTCTTCG
*
2932125 CTACTCTTTCGAGAAGACAAAAACTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGAT
261 CTACTCTTTCAAGAAGACAAAAACTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGAT
* ** *
2932190 CAGACTTGAGATTGATTTGCTTCACTACTCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATCA
326 CAAACTCAAGATTGATTTGCTTCACTACTCTTTCGGGAAGACCAAATATGAAATAAGAAGAATCA
* *
2932255 ACTCCTCTACTCTTCC-AGGGAGATCAGACTCGAGA-TTAATTTGCTTCGCTACTA
391 ACTCCTATACTCTTCCGA-GGAGATCAGACTCAAGATTTAATTTGCTTCGCTACTA
* * *
2932309 TTTCAGGAAGACCAAATCTGAAATAAGAAGAATATGTTCCCCTACTCTTGC-GGGGAGATCAGAC
1 TTTCAGGAAGACCAAATCTGAAATAAGAAGAATATGCTCACCTACT-TTGCTGGGGAGATCACAC
* * * * *
2932373 T-CGAGATTGATTTTCTTCTCTACTCTTTCGATAAAACCAAATCTGAAATAAGAAGAATCTGCTC
65 TGCGAGATTGATTTGCGTCACTACTCTTTCGAGAAAACCAAATCTGAAATAAAAAGAATCTGCTC
* * * * * *
2932437 CTCTACTCTT-CCGAGGATATCAGACTCAAGATTGATTTACTTCGTTACTTTTTTAGGAAGAACA
130 CTATACTATTCCCG-GGAGATCAGACTCAAGATTGATTTACTTCGCTACTCTTTCAGGAAGAACA
* * * * * *
2932501 AATCTGATATAAGAGGAATCTGTTCCACTACTCTTCTGGGAGATTAAACTCGAGATTGATTTTCT
194 AATCTGAAATAAGAAGAATCTGCTCCACT-CTCATCCGGGAGATTAAACTCAAGATTGATTTTCT
* * ** * *
2932566 TCAG-TACTCTTTCAAGAAGACCAAATCTGGGATAAGAAGAATTTGTTCCTCTACTCTTCCGGGG
258 TC-GCTACTCTTTCAAGAAGACAAAAACTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGG
* * *
2932630 AGATCAAACTCAAGATTGATTTGCTTCGCTACTCTTTCGGGAAGAGCAAATATGACATAAGAAGA
322 AGATCAAACTCAAGATTGATTTGCTTCACTACTCTTTCGGGAAGACCAAATATGAAATAAGAAGA
** * * * * *
2932695 ATCTGCTCCTATGCTCTTCCGAGGAGATCAGACTCAAGATTTATTTTGCTTCGTTAGTC
387 ATCAACTCCTATACTCTTCCGAGGAGATCAGACTCAAGATTTAATTTGCTTCGCTACTA
2932754 TTTCAGGAAGA
1 TTTCAGGAAGA
2932765 GTAAATCAAA
Statistics
Matches: 385, Mismatches: 65, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
442 3 0.01
443 122 0.32
444 229 0.59
445 31 0.08
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (445 bp):
TTTCAGGAAGACCAAATCTGAAATAAGAAGAATATGCTCACCTACTTTGCTGGGGAGATCACACT
GCGAGATTGATTTGCGTCACTACTCTTTCGAGAAAACCAAATCTGAAATAAAAAGAATCTGCTCC
TATACTATTCCCGGGAGATCAGACTCAAGATTGATTTACTTCGCTACTCTTTCAGGAAGAACAAA
TCTGAAATAAGAAGAATCTGCTCCACTCTCATCCGGGAGATTAAACTCAAGATTGATTTTCTTCG
CTACTCTTTCAAGAAGACAAAAACTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGGGGAGAT
CAAACTCAAGATTGATTTGCTTCACTACTCTTTCGGGAAGACCAAATATGAAATAAGAAGAATCA
ACTCCTATACTCTTCCGAGGAGATCAGACTCAAGATTTAATTTGCTTCGCTACTA
Found at i:2932881 original size:67 final size:64
Alignment explanation
Indices: 2932800--2933075 Score: 258
Period size: 62 Copynumber: 4.3 Consensus size: 64
2932790 TGTTCTTTAC
*
2932800 GAGGAAGTCAAGGATTGACTCTTCTTCGCAAGGGAGT-AAGGAATAACAAAGATTGACTTCTCTT
1 GAGGAAGTCAAGGATTGACTCTACTTCG--A-GGAGTCAAGG-ATAACAAAGATTGACTTCTCTT
*
2932864 CAC
62 CAT
* ** * *
2932867 GAGGAAGTCAAGGATTGACTCCACTTCACGAATAAGTCATGGATAACTAAGATTGACTTCTCTTC
1 GAGGAAGTCAAGGATTGACTCTACTT--CG-AGGAGTCAAGGATAACAAAGATTGACTTCTCTTC
2932932 AT
63 AT
** * * * * *
2932934 GAATAAGTCAGGGATTGACTCT-GTTAG-GGAGTCAAAGATAAAAAATG-TTGACTTCTCTTCAT
1 GAGGAAGTCAAGGATTGACTCTACTTCGAGGAGTCAAGGATAACAAA-GATTGACTTCTCTTCAT
* * * *
2932996 GTGAAAGTCAAGTATTGACTCTAC-TCGA-GAGTCAAGAATAACAAAGATTGACTTCTCTTCAT
1 GAGGAAGTCAAGGATTGACTCTACTTCGAGGAGTCAAGGATAACAAAGATTGACTTCTCTTCAT
* *
2933058 GAGGAAGTAAATGATTGA
1 GAGGAAGTCAAGGATTGA
2933076 AATTTCTAAA
Statistics
Matches: 168, Mismatches: 34, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
61 1 0.01
62 88 0.52
63 1 0.01
64 1 0.01
66 2 0.01
67 68 0.40
68 5 0.03
69 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (64 bp):
GAGGAAGTCAAGGATTGACTCTACTTCGAGGAGTCAAGGATAACAAAGATTGACTTCTCTTCAT
Found at i:2932903 original size:29 final size:29
Alignment explanation
Indices: 2932850--2932910 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2932840 GAATAACAAA
* * *
2932850 GATTGACTTCTCTTCACGAGGAAGTCAAG
1 GATTGACTCCACTTCACGAAGAAGTCAAG
* *
2932879 GATTGACTCCACTTCACGAATAAGTCATG
1 GATTGACTCCACTTCACGAAGAAGTCAAG
2932908 GAT
1 GAT
2932911 AACTAAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (29 bp):
GATTGACTCCACTTCACGAAGAAGTCAAG
Found at i:2935270 original size:15 final size:15
Alignment explanation
Indices: 2935245--2935287 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
2935235 GGAATACTTG
2935245 ATTTATTTTCTTTCTT
1 ATTT-TTTTCTTTCTT
2935261 ATTTTTTTCTTTCTT
1 ATTTTTTTCTTTCTT
*
2935276 ATTATTTTCTTT
1 ATTTTTTTCTTT
2935288 TTCTTTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTTTCTTTCTT
Found at i:2935290 original size:21 final size:21
Alignment explanation
Indices: 2935264--2935336 Score: 105
Period size: 21 Copynumber: 3.4 Consensus size: 21
2935254 CTTTCTTATT
2935264 TTTTTCTTTCT-TATTATTTTC
1 TTTTTCTTTCTCTATT-TTTTC
2935285 TTTTTCTTTCTCTATTTTTTC
1 TTTTTCTTTCTCTATTTTTTC
2935306 TTTTTC-TTCTTCTATTTTTTC
1 TTTTTCTTTC-TCTATTTTTTC
2935327 TCTTTTCTTT
1 T-TTTTCTTT
2935337 TTGTTCGATG
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.06
21 34 0.71
22 9 0.19
23 2 0.04
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTCTTTCTCTATTTTTTC
Found at i:2935338 original size:15 final size:15
Alignment explanation
Indices: 2935280--2935338 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 15
2935270 TTTCTTATTA
2935280 TTTTCTTTTTCTTTCTC
1 TTTTC-TTTT-TTTCTC
2935297 TATTT-TTTCTTTT-TC
1 T-TTTCTTT-TTTTCTC
2935312 TTCTTCTATTTTTTCTC
1 TT-TTCT-TTTTTTCTC
2935329 TTTTCTTTTT
1 TTTTCTTTTT
2935339 GTTCGATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
14 1 0.03
15 9 0.25
16 15 0.42
17 8 0.22
18 3 0.08
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTTTCTC
Found at i:2942730 original size:3 final size:3
Alignment explanation
Indices: 2942724--2942757 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
2942714 ATTTATTATT
*
2942724 TAA TAA TAA TAA TAA TAA TAA TTA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
2942758 ACTAGGACGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2943201 original size:2 final size:2
Alignment explanation
Indices: 2943194--2943219 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2943184 CTTTAATAAT
2943194 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
2943220 AACGTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2955669 original size:16 final size:16
Alignment explanation
Indices: 2955648--2955681 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2955638 CCACTGAGCA
2955648 GTCTGCATACTACACG
1 GTCTGCATACTACACG
*
2955664 GTCTGCATACTCCACG
1 GTCTGCATACTACACG
2955680 GT
1 GT
2955682 GCTATTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (16 bp):
GTCTGCATACTACACG
Found at i:2957484 original size:45 final size:45
Alignment explanation
Indices: 2957355--2957676 Score: 389
Period size: 45 Copynumber: 7.2 Consensus size: 45
2957345 TATTCGTTAT
* *
2957355 TTTCATTTATGGCATCCTTTCATGTCGATAATGCACTATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
* ** *
2957400 TTTCATTTATGACAT-C-TTCATGAAGATAATGCACAATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
*
2957443 TTTCATTTATGGCATCATTTCATGCCGATAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
* *
2957488 TTTCATTTATAGCATCTTTTCATGCCGATAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
* * * * * *
2957533 TTTC-GTTATGTCATCCTTTCATGCCGATGATGCATCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
* * ** * * *
2957577 TTTTATTTATGGCATCCTTTCTTGCAAATAACGCACCGTTATGAA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
* * * *
2957622 TTTCATTTATTGCATCCTTTCATGTCGATAATGCAACGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
2957667 TTTCATTTAT
1 TTTCATTTAT
2957677 TACTCATTTT
Statistics
Matches: 235, Mismatches: 39, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
43 38 0.16
44 36 0.15
45 161 0.69
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCATTATGCA
Found at i:2957627 original size:134 final size:133
Alignment explanation
Indices: 2957355--2957676 Score: 396
Period size: 134 Copynumber: 2.4 Consensus size: 133
2957345 TATTCGTTAT
* * *
2957355 TTTCATTTATGGCATCCTTTCATGTCGATAATGCACTATTATGCATTTCATTTATGACATCTTCA
1 TTTCATTTATAGCATCCTTTCATGTCGATAATGCACCATTATGCATTTCAGTTATGACATCTTCA
* ** *
2957420 TGAAGATAATGCACAATTATGCATTTCATTTATGGCATCATTTCATGCCGATAATGCACCATTAT
66 TGAAGATAATGCACAATTATACATTTCATTTATGGCATCATTTCATGCAAATAACGCACCATTAT
*
2957485 GCA
131 GAA
* * *
2957488 TTTCATTTATAGCATCTTTTCATGCCGATAATGCACCATTATGCATTTC-GTTATGTCATCCTTT
1 TTTCATTTATAGCATCCTTTCATGTCGATAATGCACCATTATGCATTTCAGTTATGACAT-C-TT
** * * * * * *
2957552 CATGCCGATGATGCATC-GTTATACATTTTATTTATGGCATCCTTTCTTGCAAATAACGCACCGT
64 CATGAAGATAATGCA-CAATTATACATTTCATTTATGGCATCATTTCATGCAAATAACGCACCAT
2957616 TATGAA
128 TATGAA
* * * *
2957622 TTTCATTTATTGCATCCTTTCATGTCGATAATGCAACGTTATGCATTTCATTTAT
1 TTTCATTTATAGCATCCTTTCATGTCGATAATGCACCATTATGCATTTCAGTTAT
2957677 TACTCATTTT
Statistics
Matches: 160, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
132 8 0.05
133 46 0.29
134 101 0.63
135 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (133 bp):
TTTCATTTATAGCATCCTTTCATGTCGATAATGCACCATTATGCATTTCAGTTATGACATCTTCA
TGAAGATAATGCACAATTATACATTTCATTTATGGCATCATTTCATGCAAATAACGCACCATTAT
GAA
Found at i:2957669 original size:90 final size:90
Alignment explanation
Indices: 2957355--2957676 Score: 384
Period size: 89 Copynumber: 3.6 Consensus size: 90
2957345 TATTCGTTAT
* *
2957355 TTTCATTTATGGCATCCTTTCATGTCGATAATGC-ACTATTATGCATTTCATTTATGACAT-C-T
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCAAC-ATTATGCATTTCATTTATGGCATCCTT
*
2957417 TCATG-AAGATAATGCACAATTATGCA
65 TCATGCAA-ATAATGCACCATTATGCA
* * * *
2957443 TTTCATTTATGGCATCATTTCATGCCGATAATGCACCATTATGCATTTCATTTATAGCATCTTTT
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCAACATTATGCATTTCATTTATGGCATCCTTT
**
2957508 CATGCCGATAATGCACCATTATGCA
66 CATGCAAATAATGCACCATTATGCA
* * * * * * *
2957533 TTTC-GTTATGTCATCCTTTCATGCCGATGATGCATCGTTATACATTTTATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCAACATTATGCATTTCATTTATGGCATCCTTT
* * * *
2957597 CTTGCAAATAACGCACCGTTATGAA
66 CATGCAAATAATGCACCATTATGCA
* * *
2957622 TTTCATTTATTGCATCCTTTCATGTCGATAATGCAACGTTATGCATTTCATTTAT
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCAACATTATGCATTTCATTTAT
2957677 TACTCATTTT
Statistics
Matches: 196, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
88 53 0.27
89 74 0.38
90 69 0.35
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (90 bp):
TTTCATTTATGGCATCCTTTCATGCCGATAATGCAACATTATGCATTTCATTTATGGCATCCTTT
CATGCAAATAATGCACCATTATGCA
Found at i:2958155 original size:20 final size:20
Alignment explanation
Indices: 2958125--2958169 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2958115 ATTATGGTAC
2958125 CGATA-CTTTCTTTCAGTAT
1 CGATACCTTTCTTTCAGTAT
*
2958144 CGATACCTTTCTTTTAGTAT
1 CGATACCTTTCTTTCAGTAT
*
2958164 TGATAC
1 CGATAC
2958170 TACTATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (20 bp):
CGATACCTTTCTTTCAGTAT
Found at i:2962427 original size:19 final size:21
Alignment explanation
Indices: 2962377--2962435 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 21
2962367 ATTCCCTGTG
*
2962377 GGGGGAATCGGTTCTCTTCAAA
1 GGGGGAATCGGTTC-CCTCAAA
2962399 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
*
2962419 GGGGG-ATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
2962436 TGCACAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 11 0.31
20 7 0.20
21 3 0.09
22 14 0.40
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.24
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:2964848 original size:163 final size:158
Alignment explanation
Indices: 2964585--2964902 Score: 559
Period size: 163 Copynumber: 2.0 Consensus size: 158
2964575 TCTTCATCAA
2964585 TTTAGCATCAAATTTGTAAAGTTTTTTTACCTTAGTTACAAATTCAGTAAATCCAAGATTTCAAA
1 TTTAGCATCAAATTTGTAAAGTTTTTTTACCTTAGTTACAAATTCAGTAAATCCAAGATTTCAAA
2964650 TTCAGTTCCATGATCACTCCTAACACTAGTTATAGAGTAACC-TTTTCA-TTTGAATTACTTTTG
66 TTCAGTTCCATGATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCATTTTGAATTACTTTTG
2964713 AAAATGTGATGAATTGTTCTAATGCAAT
131 AAAATGTGATGAATTGTTCTAATGCAAT
2964741 TTTAGCATCAAATTTGTAAAGTTTTTCTTTACCTTTAGAGTTACAAAATTCAGTAAATCCAAGAT
1 TTTAGCATCAAATTTGTAAAG-TTTT-TTTACC-TT--AGTTAC-AAATTCAGTAAATCCAAGA-
2964806 TTTCAAATTCAGTTCCATGATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCATTTTGAATT
59 TTTCAAATTCAGTTCCATGATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCATTTTGAATT
2964871 ACTTTTGAAAATGTGATGAATTGTTCTAATGC
124 ACTTTTGAAAATGTGATGAATTGTTCTAATGC
2964903 TTCATCTTTA
Statistics
Matches: 153, Mismatches: 0, Indels: 9
0.94 0.00 0.06
Matches are distributed among these distances:
156 21 0.14
157 4 0.03
158 6 0.04
159 2 0.01
161 6 0.04
162 19 0.12
163 49 0.32
164 6 0.04
165 40 0.26
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (158 bp):
TTTAGCATCAAATTTGTAAAGTTTTTTTACCTTAGTTACAAATTCAGTAAATCCAAGATTTCAAA
TTCAGTTCCATGATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCATTTTGAATTACTTTTG
AAAATGTGATGAATTGTTCTAATGCAAT
Found at i:2983039 original size:16 final size:16
Alignment explanation
Indices: 2983018--2983051 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2983008 CCACTGAGCA
2983018 GTCTGCATACTACACG
1 GTCTGCATACTACACG
*
2983034 GTCTGCATACTCCACG
1 GTCTGCATACTACACG
2983050 GT
1 GT
2983052 GCTATTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (16 bp):
GTCTGCATACTACACG
Found at i:2987812 original size:20 final size:22
Alignment explanation
Indices: 2987766--2987823 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
2987756 TTCCCCTGTG
2987766 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCCTTCAAA
2987789 GGGGGAATCGGTTCCC-TC-AA
1 GGGGGAATCGGTTCCCTTCAAA
* *
2987809 GGGGGGATCGATTCC
1 GGGGGAATCGGTTCC
2987824 TTCTGCACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 15 0.45
21 2 0.06
22 3 0.09
23 13 0.39
ACGTcount: A:0.19, C:0.24, G:0.36, T:0.21
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCTTCAAA
Found at i:3016921 original size:21 final size:21
Alignment explanation
Indices: 3016897--3016940 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3016887 AAAGATAAGG
*
3016897 AAAAT-AACAAGTAAAACTAAA
1 AAAATGAAAAAGTAAAA-TAAA
*
3016918 AAAATGAAAAAGTAGAATAAA
1 AAAATGAAAAAGTAAAATAAA
3016939 AA
1 AA
3016941 TGCTATGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAATGAAAAAGTAAAATAAA
Found at i:3021590 original size:18 final size:18
Alignment explanation
Indices: 3021554--3021590 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3021544 TTATTATAGT
3021554 TAGTACTAAATAAATTTA
1 TAGTACTAAATAAATTTA
3021572 TAGTA-TAAATAAATATTA
1 TAGTACTAAATAAAT-TTA
3021590 T
1 T
3021591 TATATTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
TAGTACTAAATAAATTTA
Found at i:3022422 original size:22 final size:23
Alignment explanation
Indices: 3022379--3022426 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
3022369 AAAAACCTTG
*
3022379 TTTACCATAACCAAGAAACTCTA
1 TTTACCATAACCAAAAAACTCTA
3022402 TTTACCATAA-CAAAAAACTCTA
1 TTTACCATAACCAAAAAACTCTA
3022424 TTT
1 TTT
3022427 CTACAAGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.31
Consensus pattern (23 bp):
TTTACCATAACCAAAAAACTCTA
Found at i:3022618 original size:17 final size:17
Alignment explanation
Indices: 3022596--3022632 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3022586 TTTGCAATAT
3022596 TGTCCTCATCGCAGCAC
1 TGTCCTCATCGCAGCAC
* *
3022613 TGTCCTTATCGCAGCCC
1 TGTCCTCATCGCAGCAC
3022630 TGT
1 TGT
3022633 TCACCTCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.38, G:0.19, T:0.30
Consensus pattern (17 bp):
TGTCCTCATCGCAGCAC
Found at i:3034982 original size:23 final size:22
Alignment explanation
Indices: 3034956--3034998 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3034946 TCTAACAAAC
*
3034956 TAAAAATCCTAATTAATAAATAT
1 TAAAAATCCTAAATAA-AAATAT
3034979 TAAAAATCCTAAATAAAAAT
1 TAAAAATCCTAAATAAAAAT
3034999 TCTATGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAATCCTAAATAAAAATAT
Found at i:3037828 original size:24 final size:24
Alignment explanation
Indices: 3037796--3037844 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
3037786 TTTCTTAAGA
*
3037796 TTTAATTTACTATTTATTAAGAAT
1 TTTAATTTACTATTAATTAAGAAT
* *
3037820 TTTAGTTTACTATTAATTAGGAAT
1 TTTAATTTACTATTAATTAAGAAT
3037844 T
1 T
3037845 AAGTGTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
TTTAATTTACTATTAATTAAGAAT
Found at i:3038721 original size:26 final size:26
Alignment explanation
Indices: 3038692--3038752 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
3038682 AAAAGATTTC
* *
3038692 AATTGATTTTAATGTGTTGATTATTG-
1 AATTGATTTTAAGGT-TTGATTAATGA
* *
3038718 AATTGGTTTTGAGGTTTGATTAATGA
1 AATTGATTTTAAGGTTTGATTAATGA
3038744 AATTGATTT
1 AATTGATTT
3038753 GTTTTTGGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (26 bp):
AATTGATTTTAAGGTTTGATTAATGA
Found at i:3055825 original size:24 final size:24
Alignment explanation
Indices: 3055793--3055840 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3055783 CGAGCTAAAC
3055793 AATGTTAAATAAAGCTCTTAATGG
1 AATGTTAAATAAAGCTCTTAATGG
3055817 AATGTTAAATAAAGCTCTTAATGG
1 AATGTTAAATAAAGCTCTTAATGG
3055841 GAAGTAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (24 bp):
AATGTTAAATAAAGCTCTTAATGG
Found at i:3055870 original size:10 final size:10
Alignment explanation
Indices: 3055855--3055921 Score: 53
Period size: 10 Copynumber: 6.0 Consensus size: 10
3055845 TAACACATTA
3055855 TATTTAATTT
1 TATTTAATTT
3055865 TATTTAATTT
1 TATTTAATTT
3055875 TATTTTCGATTATTT
1 TA-TTT--A--ATTT
*
3055890 GATTTAATTT
1 TATTTAATTT
3055900 TATTTTCAATTT
1 TA-TTT-AATTT
*
3055912 TATTCAATTT
1 TATTTAATTT
3055922 ATTCCATACC
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
10 22 0.47
11 8 0.17
12 8 0.17
13 1 0.02
14 3 0.06
15 5 0.11
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (10 bp):
TATTTAATTT
Found at i:3055889 original size:25 final size:22
Alignment explanation
Indices: 3055852--3055921 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 22
3055842 AAGTAACACA
3055852 TTATATTT-AATTTTATTTAATT
1 TTAT-TTTCAATTTTATTTAATT
*
3055874 TTATTTTCGATTATTTGATTTAATT
1 TTATTTTC-A--ATTTTATTTAATT
*
3055899 TTATTTTCAATTTTATTCAATT
1 TTATTTTCAATTTTATTTAATT
3055921 T
1 T
3055922 ATTCCATACC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.07
22 16 0.39
23 1 0.02
24 1 0.02
25 20 0.49
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (22 bp):
TTATTTTCAATTTTATTTAATT
Found at i:3061927 original size:24 final size:24
Alignment explanation
Indices: 3061896--3061944 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3061886 AGACTTCATG
3061896 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3061920 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3061944 A
1 A
3061945 ATGTCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:3062412 original size:21 final size:21
Alignment explanation
Indices: 3062353--3062418 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
3062343 AAGGGTACAT
* *
3062353 ATTCCCCCCCAGGGGGAACAG
1 ATTCCCCCCCAGGGGGTACCG
3062374 ATTCCCCCCCAGGGGGTACCG
1 ATTCCCCCCCAGGGGGTACCG
* *
3062395 ATTCCCCCCCAGGAGGTATCG
1 ATTCCCCCCCAGGGGGTACCG
3062416 ATT
1 ATT
3062419 ACTGCCTATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.20, C:0.38, G:0.26, T:0.17
Consensus pattern (21 bp):
ATTCCCCCCCAGGGGGTACCG
Found at i:3065153 original size:19 final size:19
Alignment explanation
Indices: 3065129--3065195 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
3065119 ATCATATTGT
3065129 CCAGGGGGAAAGATTCCCC
1 CCAGGGGGAAAGATTCCCC
* *
3065148 CCAGGGGTACAGATTCCCC
1 CCAGGGGGAAAGATTCCCC
*
3065167 CCAGGGGGAACCGATTCCCCC
1 CCAGGGGGAA-AGATT-CCCC
3065188 CCAGGGGG
1 CCAGGGGG
3065196 TACCGATTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 25 0.61
20 4 0.10
21 12 0.29
ACGTcount: A:0.21, C:0.36, G:0.33, T:0.10
Consensus pattern (19 bp):
CCAGGGGGAAAGATTCCCC
Found at i:3065187 original size:21 final size:20
Alignment explanation
Indices: 3065129--3065207 Score: 99
Period size: 21 Copynumber: 4.0 Consensus size: 20
3065119 ATCATATTGT
3065129 CCAGGGGGAA-AGATTCCCC
1 CCAGGGGGAACAGATTCCCC
*
3065148 CCA-GGGGTACAGATTCCCC
1 CCAGGGGGAACAGATTCCCC
*
3065167 CCAGGGGGAACCGATTCCCCC
1 CCAGGGGGAACAGATT-CCCC
* *
3065188 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGAACAGATTCCCC
3065208 ATGTCTAACG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
18 5 0.09
19 15 0.28
20 14 0.26
21 19 0.36
ACGTcount: A:0.20, C:0.38, G:0.29, T:0.13
Consensus pattern (20 bp):
CCAGGGGGAACAGATTCCCC
Found at i:3067052 original size:6 final size:6
Alignment explanation
Indices: 3067041--3067080 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
3067031 GTAGGAGTTC
*
3067041 TTTTCT TTTTCT TTTTGT TTTTCT TCTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTT
3067081 ATTGCAGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:3067072 original size:19 final size:18
Alignment explanation
Indices: 3067041--3067080 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
3067031 GTAGGAGTTC
*
3067041 TTTTCTTTTTCTTTTTGT
1 TTTTCTTTTTCTTTTTCT
3067059 TTTTCTTCTTTCTTTTTCT
1 TTTTCTT-TTTCTTTTTCT
3067078 TTT
1 TTT
3067081 ATTGCAGCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTCT
Found at i:3067277 original size:12 final size:13
Alignment explanation
Indices: 3067255--3067289 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
3067245 GAAAGAAATT
3067255 AAATGGAAAT-AAG
1 AAAT-GAAATAAAG
3067268 AAATGAAATAAAG
1 AAATGAAATAAAG
3067281 AAATGAAAT
1 AAATGAAAT
3067290 GGATAGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (13 bp):
AAATGAAATAAAG
Found at i:3068582 original size:20 final size:21
Alignment explanation
Indices: 3068544--3068582 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
3068534 GATCGTTTAG
* *
3068544 AAGCTAAGATAACATGTATAT
1 AAGCTAAGATAAAAGGTATAT
3068565 AAGCT-AGATAAAAGGTAT
1 AAGCTAAGATAAAAGGTAT
3068583 TGGACGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (21 bp):
AAGCTAAGATAAAAGGTATAT
Found at i:3071849 original size:54 final size:54
Alignment explanation
Indices: 3071762--3072251 Score: 631
Period size: 54 Copynumber: 9.2 Consensus size: 54
3071752 AGTGATTTTC
* * * * * * * * * *
3071762 GCACACGTAGTG-CAGATACGGTAATTCACAAACTCACTACGAATTACGTGGGGT
1 GCACACATAGTGCCA-ATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
** *
3071816 GCACACATAGTGCCAATATAGAAATTAATAAACTAATTATGAATTTCTTAGGTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
* * * **
3071870 GCACACATAGTGTCAATACGGAAATTCATAAACTTATTATAAATTTCTTAATTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
* *
3071924 GCACACATATTGCCAATACGGAAATTTATAAACTAATTATGAATTTCTTAGGTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
*
3071978 GCACACATAGTGCCAATACGGAAATTCATAAAC----T-T--A-TT-ATAGGTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
* * **
3072023 GCACGCATATTTTCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
*
3072077 GCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
*
3072131 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATTAATTTCTTAGGTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
* *
3072185 GCACAGATAGTGCTAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
1 GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
*
3072239 GTACACATAGTGC
1 GCACACATAGTGC
3072252 TCATTCGGTA
Statistics
Matches: 378, Mismatches: 48, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
45 35 0.09
46 2 0.01
47 1 0.00
49 2 0.01
50 2 0.01
52 1 0.00
53 2 0.01
54 331 0.88
55 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (54 bp):
GCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTT
Found at i:3072093 original size:99 final size:99
Alignment explanation
Indices: 3071922--3072224 Score: 444
Period size: 99 Copynumber: 3.0 Consensus size: 99
3071912 ATTTCTTAAT
*
3071922 TTGCACACATATTGCCAATACGGAAATTTATAAACTAATTATGAATTTCTTAGGTTGCACACATA
1 TTGCACACATATTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATA
3071987 GTGCCAATACGGAAATTCATAAACTTATTATAGG
66 GTGCCAATACGGAAATTCATAAACTTATTATAGG
* **
3072021 TTGCACGCATATTTTCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATA
1 TTGCACACATATTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATA
3072086 GTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
66 GTGCCAATACGGAAATTCATAAACTTA-T-T--A-----TAGG
* * *
3072129 TTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATTAATTTCTTAGGTTGCACAGATA
1 TTGCACACATATTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATA
* *
3072194 GTGCTAATACGGAAATTCATAAACTAATTAT
66 GTGCCAATACGGAAATTCATAAACTTATTAT
3072225 GAATTTCTTA
Statistics
Matches: 183, Mismatches: 12, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
99 89 0.49
100 1 0.01
101 1 0.01
103 1 0.01
104 1 0.01
106 1 0.01
107 1 0.01
108 88 0.48
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (99 bp):
TTGCACACATATTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATA
GTGCCAATACGGAAATTCATAAACTTATTATAGG
Found at i:3072103 original size:207 final size:207
Alignment explanation
Indices: 3071836--3072224 Score: 679
Period size: 207 Copynumber: 1.9 Consensus size: 207
3071826 TGCCAATATA
*
3071836 GAAATTAATAAACTAATTATGAATTTCTTAGGTTGCACACATAGTGTCAATACGGAAATTCATAA
1 GAAATTAATAAACTAATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAA
* * *
3071901 ACTTATTATAAATTTCTTAATTTGCACACATATTGCCAATACGGAAATTTATAAACTAATTATGA
66 ACTTATTATAAATTTCTTAAGTTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGA
*
3071966 ATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATAGGTTGCACGCAT
131 ATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATAGGTTGCACGCAT
3072031 ATTTTCAATACG
196 ATTTTCAATACG
*
3072043 GAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAA
1 GAAATTAATAAACTAATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAA
* * *
3072108 ACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATTA
66 ACTTATTATAAATTTCTTAAGTTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGA
* *
3072173 ATTTCTTAGGTTGCACAGATAGTGCTAATACGGAAATTCATAAACTAATTAT
131 ATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTAT
3072225 GAATTTCTTA
Statistics
Matches: 171, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 171 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (207 bp):
GAAATTAATAAACTAATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAA
ACTTATTATAAATTTCTTAAGTTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGA
ATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATAGGTTGCACGCAT
ATTTTCAATACG
Found at i:3073760 original size:31 final size:34
Alignment explanation
Indices: 3073710--3073771 Score: 94
Period size: 31 Copynumber: 1.9 Consensus size: 34
3073700 TATGATTTTT
*
3073710 ATGATGATATATTTAAAATGATTATGATATGGAA
1 ATGATGATATATTTAAAATGAATATGATATGGAA
3073744 ATGATGAT-T-TTT-AAATGAATATGATATG
1 ATGATGATATATTTAAAATGAATATGATATG
3073772 ATCTGAAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 15 0.56
32 3 0.11
33 1 0.04
34 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (34 bp):
ATGATGATATATTTAAAATGAATATGATATGGAA
Found at i:3077532 original size:23 final size:23
Alignment explanation
Indices: 3077503--3077561 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
3077493 TACCCTCAGG
3077503 GGGTATCGATACCCATTCAAAGA
1 GGGTATCGATACCCATTCAAAGA
*
3077526 GGGTATCGATACCCATTCAAAGG
1 GGGTATCGATACCCATTCAAAGA
3077549 GGGTATCGATACC
1 GGGTATCGATACC
3077562 TAGCGCACAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
GGGTATCGATACCCATTCAAAGA
Found at i:3077539 original size:42 final size:44
Alignment explanation
Indices: 3077477--3077561 Score: 120
Period size: 42 Copynumber: 1.9 Consensus size: 44
3077467 TAACCAGAAC
* *
3077477 TCAAAGGGGGTATCGGTACCC-TC-AGGGGGTATCGATACCCAT
1 TCAAAGAGGGTATCGATACCCATCAAGGGGGTATCGATACCCAT
3077519 TCAAAGAGGGTATCGATACCCATTCAAAGGGGGTATCGATACC
1 TCAAAGAGGGTATCGATACCCA-TC-AAGGGGGTATCGATACC
3077562 TAGCGCACAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 19 0.51
44 2 0.05
46 16 0.43
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (44 bp):
TCAAAGAGGGTATCGATACCCATCAAGGGGGTATCGATACCCAT
Found at i:3084583 original size:30 final size:30
Alignment explanation
Indices: 3084547--3084607 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
3084537 GTATTACGAC
3084547 ACTTAGTAAAATTATTCAATATAGGAAGAT
1 ACTTAGTAAAATTATTCAATATAGGAAGAT
3084577 ACTTAGTAAAATTATTCAATATAGGAAGAT
1 ACTTAGTAAAATTATTCAATATAGGAAGAT
3084607 A
1 A
3084608 ATTTACGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (30 bp):
ACTTAGTAAAATTATTCAATATAGGAAGAT
Found at i:3091664 original size:31 final size:30
Alignment explanation
Indices: 3091629--3091696 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
3091619 TCAAAAAACA
3091629 TAAGATATGATCACTTTCATTTTTATTTAAT
1 TAAGATATG-TCACTTTCATTTTTATTTAAT
* *
3091660 TAAGAAAATGTCACTTTCGTTTTTATTTAAT
1 TAAG-ATATGTCACTTTCATTTTTATTTAAT
3091691 TAAGAT
1 TAAGAT
3091697 GTGGTCATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 28 0.85
32 4 0.12
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (30 bp):
TAAGATATGTCACTTTCATTTTTATTTAAT
Found at i:3091892 original size:25 final size:22
Alignment explanation
Indices: 3091858--3091924 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 22
3091848 ACATTTTAAA
3091858 TTAAGTTAATAATAAAATATATT
1 TTAAGTTAATAATAAAA-ATATT
3091881 TAATAAGTTAAT-ATAAAAATATT
1 T--TAAGTTAATAATAAAAATATT
3091904 TTAAGTTAATATATATAAAAT
1 TTAAGTTAATA-ATA-AAAAT
3091925 TATATTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
21 9 0.23
23 10 0.26
24 11 0.28
25 9 0.23
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TTAAGTTAATAATAAAAATATT
Found at i:3092248 original size:39 final size:40
Alignment explanation
Indices: 3092162--3092261 Score: 93
Period size: 39 Copynumber: 2.6 Consensus size: 40
3092152 CATTAATGTG
*
3092162 AAATAATTTAAGAAATTAAGAATTTAGAACTTTATGGCTT
1 AAATAATTTAAGAAATTAAGAATTTAGAACTTTATGGCTC
* * *
3092202 TAA-AATTTAAGAAATTAGGATTTTAGAA-TGTTA-GAG-TC
1 AAATAATTTAAGAAATTAAGAATTTAGAACT-TTATG-GCTC
* *
3092240 AAATAATTTGAG-AATTATGAAT
1 AAATAATTTAAGAAATTAAGAAT
3092262 AAAAAATTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
38 13 0.27
39 34 0.69
40 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (40 bp):
AAATAATTTAAGAAATTAAGAATTTAGAACTTTATGGCTC
Found at i:3092606 original size:30 final size:31
Alignment explanation
Indices: 3092548--3092614 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
3092538 TTACTTTATT
3092548 AAAA-ATATGACTAAATTGAGTGAATATATA
1 AAAATATATGACTAAATTGAGTGAATATATA
* * *
3092578 AATAATATAT-ACTAAA-TGTGTGATTATATC
1 AA-AATATATGACTAAATTGAGTGAATATATA
3092608 AAAATAT
1 AAAATAT
3092615 TTAACTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.16
30 15 0.47
31 8 0.25
32 4 0.12
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.34
Consensus pattern (31 bp):
AAAATATATGACTAAATTGAGTGAATATATA
Found at i:3096791 original size:13 final size:14
Alignment explanation
Indices: 3096775--3096822 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 14
3096765 AAACCCCTTC
3096775 GAAAAAAAG-AAAA
1 GAAAAAAAGAAAAA
3096788 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
*
3096802 AAAGAAAAAGAAAAA
1 GAA-AAAAAGAAAAA
3096817 GAAAAA
1 GAAAAA
3096823 GAGAGGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 9 0.29
15 13 0.42
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:3096793 original size:6 final size:6
Alignment explanation
Indices: 3096778--3096824 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
3096768 CCCCTTCGAA
3096778 AAAAAG -AAAAG AAAAA- AAGAAA- AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG AAAAAG
3096824 A
1 A
3096825 GAGGGAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.26
6 28 0.74
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3096795 original size:8 final size:8
Alignment explanation
Indices: 3096784--3096816 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
3096774 CGAAAAAAAG
3096784 AAAAGAAA
1 AAAAGAAA
3096792 AAAAGAAA
1 AAAAGAAA
*
3096800 AAAA-AGA
1 AAAAGAAA
3096807 AAAAGAAA
1 AAAAGAAA
3096815 AA
1 AA
3096817 GAAAAAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:3096799 original size:21 final size:20
Alignment explanation
Indices: 3096775--3096822 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
3096765 AAACCCCTTC
3096775 GAAAAAAAGAAAAGAAAAAAA
1 GAAAAAAAGAAAA-AAAAAAA
*
3096796 GAAAAAAAAGAAAAAGAAAAA
1 G-AAAAAAAGAAAAAAAAAAA
3096817 GAAAAA
1 GAAAAA
3096823 GAGAGGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 8 0.32
22 12 0.48
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
GAAAAAAAGAAAAAAAAAAA
Found at i:3096834 original size:22 final size:21
Alignment explanation
Indices: 3096776--3096822 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
3096766 AACCCCTTCG
*
3096776 AAAAAAAGAAAAGAAAAAAAGA
1 AAAAAAAGAAAA-AGAAAAAGA
3096798 AAAAAAAGAAAAAGAAAAAGA
1 AAAAAAAGAAAAAGAAAAAGA
3096819 AAAA
1 AAAA
3096823 GAGAGGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAAGAAAAAGA
Found at i:3122103 original size:559 final size:548
Alignment explanation
Indices: 3120822--3121909 Score: 1554
Period size: 559 Copynumber: 1.9 Consensus size: 548
3120812 ATTTTTGGTT
* * * *
3120822 TGTAAAGAAAGAAGGAAACACGATGATGAAGAAG-AG--TGGGTAGTTTTTCTTGGAAAATGATG
1 TGTAAAGAAAGAAGGAAACACGATGATGAAGAAGAAGACTCGGTAATATTTCTTCGAAAATGAT-
* * * * *
3120884 GGTGGTTTCGGGGGCATTTTGGTCTTTACACGGTGGGGAAAAGATTTCTCATTAAATGAGAAATA
65 GCT-GTTT---GGG-ATTTTCGTCTTTACAAGGTCGGG---ACATTTCTCATTAAATGAGAAATA
** * ** * *
3120949 TTTGATAAGACATAATGGGGAAGAAGGGATTTCTTTCCCTCTTTATTCTGACGCCAAATCACGTA
122 TTCCAT-ACACAT-ATCAGGAACAAGAGATTTCTTTCCCTCTTTATTCTGACGCCAAATCACGTA
3121014 CCCTAGGGTTTTTTTTCTTCATGCATGCTTCAACTCCCCATGCTGCCATGTGTTCCTTGCTCGCC
185 CCCTAGGGTTTTTTTTCTTCATGCATGCTTCAACTCCCCATGCTGCCATGTGTTCCTTGCTCGCC
3121079 TACAATATAAAAGAAGGAAATAATAAAATAAAACATATTAAAGCATAAAATAACTTAACTTATTT
250 TACAATATAAAAGAAGGAAATAATAAAATAAAACATATTAAAGCATAAAATAACTTAACTTATTT
3121144 ATGTACAAAATTCAGATTTTCGTTGCCTAGACAACTAATATTTGCTCAATTAAGAAAAGCAAACT
315 ATGTACAAAATTCAGATTTTCGTTGCCTAGACAACTAATATTTGCTCAATTAAGAAAAGCAAACT
*
3121209 CATGCCAGTTTGTCGCGCATGACTGGGGCTCATTTGTACTCCTTGAGTCTCTGCCTGATCACTTT
380 CATGCCAGTTTGTCGCGCATGACTGGGGCTCATTTGTACTCCTTGAGTCTCTGCCCGATCACTTT
3121274 GAAGATGGAACCATCATTTTGGGTTGTGAATTCATTGCTTCATTGTCATGGTCTTGGTGTACGAT
445 GAAGATGGAACCATCATTTTGGGTTGTGAATTCATTGCTTCATTGTCATGGTCTTGGTGTACGAT
* ** **
3121339 GAATGGTCCTGTATTTTGAGAGAAAGAAAATTTTTGGTT
510 GAATGGTCCTGTATTTTGAGAGAAAGAAAACTTAAGGCG
* * * * *
3121378 TGTAAAGAAAGAAGGAAACACGATGATGAAGAAGAAGAGTGGGTAGTTTTTCTTGGAAAATGATG
1 TGTAAAGAAAGAAGGAAACACGATGATGAAGAAGAAGACTCGGTAATATTTCTTCGAAAATGAT-
* * * * *
3121443 GGTGGTTTCGGGGGCATTTTGGTCTTTACACGGTGGGGAAAAGATTTCTCATTAAATGAGAAATA
65 GCT-GTTT---GGG-ATTTTCGTCTTTACAAGGTCGGG---ACATTTCTCATTAAATGAGAAATA
** * ** * * *
3121508 TTTGATAAGACATAATGGGGAAGAAGGGATTTCTTTCCCTCTTTATTCTGTCGCCAAATCACGTA
122 TTCCAT-ACACAT-ATCAGGAACAAGAGATTTCTTTCCCTCTTTATTCTGACGCCAAATCACGTA
3121573 CCCTAGGGTTTTTTTTCTTCATGCATGCTTCAACTCCCCATGCTGCCATGTGTTCCTTGCTCGCC
185 CCCTAGGGTTTTTTTTCTTCATGCATGCTTCAACTCCCCATGCTGCCATGTGTTCCTTGCTCGCC
3121638 TACAATATAAAAGAAGGAAATAATAAAATAAAACATATTAAAGCATAAAATAACTTAACTTATTT
250 TACAATATAAAAGAAGGAAATAATAAAATAAAACATATTAAAGCATAAAATAACTTAACTTATTT
3121703 ATGTACAAAATTCAGATTTTCGTTGCCTAGACAACTAATATTTGCTCAATTAAGAAAAGCAAACT
315 ATGTACAAAATTCAGATTTTCGTTGCCTAGACAACTAATATTTGCTCAATTAAGAAAAGCAAACT
* *
3121768 CATGCCGGTTTGTCGCGCATGACTGGGGCTCATTTGTACTCCTTGAGTCTCTTCCCGATCACTTT
380 CATGCCAGTTTGTCGCGCATGACTGGGGCTCATTTGTACTCCTTGAGTCTCTGCCCGATCACTTT
3121833 GAAGATGGAACCATCATTTT-GGTTGTGAATTTCAATTGCTTCATTGTCATGGTCTTGGTGTACG
445 GAAGATGGAACCATCATTTTGGGTTGTGAA-TTC-ATTGCTTCATTGTCATGGTCTTGGTGTACG
3121897 ATGAATGGTCCTG
508 ATGAATGGTCCTG
3121910 ACCATCGTGA
Statistics
Matches: 523, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
556 34 0.07
557 2 0.00
558 9 0.02
559 435 0.83
560 43 0.08
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (548 bp):
TGTAAAGAAAGAAGGAAACACGATGATGAAGAAGAAGACTCGGTAATATTTCTTCGAAAATGATG
CTGTTTGGGATTTTCGTCTTTACAAGGTCGGGACATTTCTCATTAAATGAGAAATATTCCATACA
CATATCAGGAACAAGAGATTTCTTTCCCTCTTTATTCTGACGCCAAATCACGTACCCTAGGGTTT
TTTTTCTTCATGCATGCTTCAACTCCCCATGCTGCCATGTGTTCCTTGCTCGCCTACAATATAAA
AGAAGGAAATAATAAAATAAAACATATTAAAGCATAAAATAACTTAACTTATTTATGTACAAAAT
TCAGATTTTCGTTGCCTAGACAACTAATATTTGCTCAATTAAGAAAAGCAAACTCATGCCAGTTT
GTCGCGCATGACTGGGGCTCATTTGTACTCCTTGAGTCTCTGCCCGATCACTTTGAAGATGGAAC
CATCATTTTGGGTTGTGAATTCATTGCTTCATTGTCATGGTCTTGGTGTACGATGAATGGTCCTG
TATTTTGAGAGAAAGAAAACTTAAGGCG
Found at i:3128741 original size:21 final size:21
Alignment explanation
Indices: 3128702--3128741 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3128692 AAGACTCTAT
*
3128702 TTTCAAAATACAAATATGATA
1 TTTCAAAATACAAAAATGATA
**
3128723 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
3128742 AAATAGTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:3140532 original size:19 final size:20
Alignment explanation
Indices: 3140497--3140534 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3140487 CAAAATTTCA
3140497 TTTTGATTTTCAAAATCAAC
1 TTTTGATTTTCAAAATCAAC
*
3140517 TTTTGCTTTT-AAAATCAA
1 TTTTGATTTTCAAAATCAA
3140535 ATCATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTGATTTTCAAAATCAAC
Found at i:3143533 original size:82 final size:82
Alignment explanation
Indices: 3143417--3143570 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 82
3143407 TATGATTTTG
* * * *
3143417 AAAAATTCAATTTCAATAATGAAAAAGGGAAGCTTTAAATTTTTCCAAATATTGCTCTTTTTCAT
1 AAAAAATCAATTTCAAGAATGAAAAAGGGAAGCTTTAAATTTTTCCAAATATTGCTATTTTTCAC
3143482 TAAATATGGATTTGAAA
66 TAAATATGGATTTGAAA
* * *
3143499 AAAAAATCAATTT-AAGAATGAAAAAGAGGGAGCTTTAACTTTTTCCAAATATTGTTATTTTTCA
1 AAAAAATCAATTTCAAGAATGAAAAAG-GGAAGCTTTAAATTTTTCCAAATATTGCTATTTTTCA
3143563 CTAAATAT
65 CTAAATAT
3143571 TTTATTAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 12 0.19
82 52 0.81
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (82 bp):
AAAAAATCAATTTCAAGAATGAAAAAGGGAAGCTTTAAATTTTTCCAAATATTGCTATTTTTCAC
TAAATATGGATTTGAAA
Found at i:3144157 original size:20 final size:20
Alignment explanation
Indices: 3144129--3144166 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3144119 TTTTGTAGAA
* *
3144129 AAATTATCCCTAACGACTCC
1 AAATCATCCCCAACGACTCC
3144149 AAATCATCCCCAACGACT
1 AAATCATCCCCAACGACT
3144167 AGAACATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.37, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATCATCCCCAACGACTCC
Found at i:3147074 original size:73 final size:73
Alignment explanation
Indices: 3146955--3147097 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 73
3146945 ATGTGTTTGA
* * ** * *
3146955 AAAATTCATTTTCAAGAATGAAAAATGTGGAGCTTTAACTTTTTCCAAATATTGATTTTTTTCAT
1 AAAATTCAATTTCAAGAATGAAAAATGGGGAAATTTAACTTTTTCCAAATATTGATCTTTCTCAT
3147020 TAAATGAT
66 TAAATGAT
*
3147028 AAAATTCAATTTCAAGAATGAAAAATGGGGAAATTTAACTTTTTCCAAATATTGCTCTTTCTCAT
1 AAAATTCAATTTCAAGAATGAAAAATGGGGAAATTTAACTTTTTCCAAATATTGATCTTTCTCAT
3147093 TAAAT
66 TAAAT
3147098 ATTTTATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.40
Consensus pattern (73 bp):
AAAATTCAATTTCAAGAATGAAAAATGGGGAAATTTAACTTTTTCCAAATATTGATCTTTCTCAT
TAAATGAT
Found at i:3152042 original size:22 final size:21
Alignment explanation
Indices: 3152016--3152110 Score: 106
Period size: 19 Copynumber: 4.4 Consensus size: 21
3152006 TATTATGTAC
3152016 TATATATATTTAAAAAATATA
1 TATATATATTTAAAAAATATA
3152037 TA-ATATATTT-AAAAATATA
1 TATATATATTTAAAAAATATA
*
3152056 TATATAT-TTTGAAAAACTATA
1 TATATATATTT-AAAAAATATA
*
3152077 TTATATATTTTCTAAAAATATATA
1 -TATATATATT-TAAAAA-ATATA
3152101 TTATATATAT
1 -TATATATAT
3152111 ATTTTCAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
19 14 0.22
20 12 0.19
21 10 0.16
22 7 0.11
23 7 0.11
24 14 0.22
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (21 bp):
TATATATATTTAAAAAATATA
Found at i:3152044 original size:20 final size:21
Alignment explanation
Indices: 3152019--3152106 Score: 85
Period size: 22 Copynumber: 4.3 Consensus size: 21
3152009 TATGTACTAT
3152019 ATATATTT-AAAAAATATATA
1 ATATATTTCAAAAAATATATA
3152039 ATATATTT--AAAAATATAT-
1 ATATATTTCAAAAAATATATA
* * *
3152057 ATATATTTTGAAAAACTATATT
1 ATATA-TTTCAAAAAATATATA
*
3152079 ATATATTTTCTAAAAATATATA
1 ATATA-TTTCAAAAAATATATA
*
3152101 TTATAT
1 ATATAT
3152107 ATATATTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
18 5 0.09
19 13 0.22
20 8 0.14
21 10 0.17
22 22 0.38
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (21 bp):
ATATATTTCAAAAAATATATA
Found at i:3152130 original size:27 final size:28
Alignment explanation
Indices: 3152073--3152139 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
3152063 TTTGAAAAAC
* * *
3152073 TATATTATATATTTTCTAAAAATATATAT
1 TATA-TATATATTTTCTAAAAACACAAAT
*
3152102 TATATATATATTTTC-AAAACCACAAAT
1 TATATATATATTTTCTAAAAACACAAAT
*
3152129 TACATATATAT
1 TATATATATAT
3152140 ACATGTATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 18 0.55
28 11 0.33
29 4 0.12
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (28 bp):
TATATATATATTTTCTAAAAACACAAAT
Found at i:3164886 original size:2 final size:2
Alignment explanation
Indices: 3164879--3164916 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
3164869 TTTTAAAAAC
*
3164879 TA TA TA TA TA TA TA TA TA TA TA T- TA TA AA TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
3164917 ATAGCAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3168983 original size:15 final size:16
Alignment explanation
Indices: 3168963--3169000 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
3168953 TTGCAATATT
3168963 GATACCC-TAAGTATC
1 GATACCCATAAGTATC
3168978 GATACCCTATAAGTATC
1 GATACCC-ATAAGTATC
3168995 GATACC
1 GATACC
3169001 AAAAACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
17 14 0.67
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
GATACCCATAAGTATC
Found at i:3169690 original size:22 final size:22
Alignment explanation
Indices: 3169652--3169694 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3169642 GGAAAAAAAG
3169652 GAAAATGAGAAAGAAGAATAAAT
1 GAAAATGAGAAAGAAG-ATAAAT
*
3169675 GAAAATGA-TAAGAAGATAAA
1 GAAAATGAGAAAGAAGATAAA
3169695 GAGATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (22 bp):
GAAAATGAGAAAGAAGATAAAT
Found at i:3172812 original size:27 final size:27
Alignment explanation
Indices: 3172782--3172845 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
3172772 ATCGTTATGA
* *
3172782 ATTTGTGATTTATACAGCTTGTGATTG
1 ATTTGTGATCTATACAGCTCGTGATTG
3172809 ATTTGTGATCTATACAGCTCGTGATTG
1 ATTTGTGATCTATACAGCTCGTGATTG
3172836 ATTTGTGATC
1 ATTTGTGATC
3172846 AAAGCAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.45
Consensus pattern (27 bp):
ATTTGTGATCTATACAGCTCGTGATTG
Found at i:3173330 original size:40 final size:40
Alignment explanation
Indices: 3173286--3173435 Score: 264
Period size: 40 Copynumber: 3.8 Consensus size: 40
3173276 AGGACACTAA
*
3173286 GTGTACATGGTGGGCACGACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
*
3173326 GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
*
3173366 GTGTATATGGTGGGCACTACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
*
3173406 ATGTATATGGTGGGCACGACCTTATGTGTA
1 GTGTATATGGTGGGCACGACCTTATGTGTA
3173436 GCACTACGGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
Found at i:3184135 original size:46 final size:45
Alignment explanation
Indices: 3184030--3184136 Score: 115
Period size: 46 Copynumber: 2.4 Consensus size: 45
3184020 GGGTAAGACC
* * *
3184030 TGAGTCACATAGCATCAACATCTTCCAAGTACCTCAGGCGAGGTC
1 TGAGTCACATAGCATCAACACCTTCCAAATACCTCAGGCGAGGTA
* * * * **
3184075 TGGGTCACACAGCATTAACACCTCTCCAAATACCTTAGGCTTGGTA
1 TGAGTCACATAGCATCAACACCT-TCCAAATACCTCAGGCGAGGTA
*
3184121 TGAGTCATATAGCATC
1 TGAGTCACATAGCATC
3184137 GGCACCTTGC
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
45 19 0.40
46 29 0.60
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (45 bp):
TGAGTCACATAGCATCAACACCTTCCAAATACCTCAGGCGAGGTA
Found at i:3200796 original size:23 final size:23
Alignment explanation
Indices: 3200736--3200799 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
3200726 CAGCTCATAT
*
3200736 AAATGCACCAAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
** * *
3200759 ATTTGCGCCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
3200782 AAATGCACCGCAGTGCCA
1 AAATGCACCGAAGTGCCA
3200800 TATAAGATGT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:3206265 original size:23 final size:23
Alignment explanation
Indices: 3206220--3206275 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
3206210 CAGCTCATAT
* * *
3206220 AAATACACCAAAGTGCCATGTAG
1 AAATGCACCGAAGTGCCACGTAG
** *
3206243 ATTTGCACCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
3206266 AAATGCACCG
1 AAATGCACCG
3206276 CAGTTCCATA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:3210783 original size:122 final size:122
Alignment explanation
Indices: 3210613--3210853 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 122
3210603 ATTTGGTACT
* * * * * *
3210613 TTATCACTTCATATCAGAAAAATGTGTATTTCTCATAGGCTCGATAATGCACTATTTCACCAATT
1 TTATCACTTCATATAAGAAAAACGTGTATTTCTCATAGGCTCAATAATGCACCAATTCACCAACT
*
3210678 TTTCAGTTGTCATTTAATCATCTTCAACAACTTTTCAGTGATATATCAACTCAAGCA
66 TTTCAGTGGTCATTTAATCATCTTCAACAACTTTTCAGTGATATATCAACTCAAGCA
* *
3210735 TTATCACTTCATATAAGAAAAACGTGTATTTTTCATAGGCTCAATAATGCACCAATTCTCCAACT
1 TTATCACTTCATATAAGAAAAACGTGTATTTCTCATAGGCTCAATAATGCACCAATTCACCAACT
*
3210800 TTTCAGTGGTCATTTAATCATCTTCATCAACTTTTCAGTGATATATCAACTCAA
66 TTTCAGTGGTCATTTAATCATCTTCAACAACTTTTCAGTGATATATCAACTCAA
3210854 ATCAGAAAAC
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
122 109 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (122 bp):
TTATCACTTCATATAAGAAAAACGTGTATTTCTCATAGGCTCAATAATGCACCAATTCACCAACT
TTTCAGTGGTCATTTAATCATCTTCAACAACTTTTCAGTGATATATCAACTCAAGCA
Found at i:3226405 original size:20 final size:20
Alignment explanation
Indices: 3226380--3226418 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3226370 TTGCATGTTT
3226380 TTCACGTTCTGTCCATATTC
1 TTCACGTTCTGTCCATATTC
3226400 TTCACGTTCTGTCCATATT
1 TTCACGTTCTGTCCATATT
3226419 TTGAATGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.28, G:0.10, T:0.46
Consensus pattern (20 bp):
TTCACGTTCTGTCCATATTC
Found at i:3234487 original size:2 final size:2
Alignment explanation
Indices: 3234480--3234511 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3234470 TTACATATGT
3234480 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3234512 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3235798 original size:8 final size:7
Alignment explanation
Indices: 3235782--3235812 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
3235772 ACTTTTTCCC
3235782 TTTGATT
1 TTTGATT
3235789 TTTGATT
1 TTTGATT
3235796 TTTGTATT
1 TTTG-ATT
3235804 TTTGATT
1 TTTGATT
3235811 TT
1 TT
3235813 CACTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (7 bp):
TTTGATT
Found at i:3235806 original size:15 final size:14
Alignment explanation
Indices: 3235782--3235812 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
3235772 ACTTTTTCCC
3235782 TTTGATTTTTGATT
1 TTTGATTTTTGATT
3235796 TTTGTATTTTTGATT
1 TTTG-ATTTTTGATT
3235811 TT
1 TT
3235813 CACTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (14 bp):
TTTGATTTTTGATT
Found at i:3235821 original size:50 final size:50
Alignment explanation
Indices: 3235724--3235822 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
3235714 AGTTTCAGTA
* * * *
3235724 TTTTTTCCTTTGATTTGTTTATTTATTTATTTTATTTTTATTATTTTTAC
1 TTTTTCCCTTTGATTTGTTGATTTATTTATTTTATTTTCACTATTTTTAC
3235774 TTTTTCCCTTTGATTT-TTGATTT-TTGTATTTTTGATTTTCACT-TTTTTA
1 TTTTTCCCTTTGATTTGTTGATTTATT-TA-TTTT-ATTTTCACTATTTTTA
3235823 TGTTTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 2 0.05
49 8 0.19
50 25 0.60
51 7 0.17
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (50 bp):
TTTTTCCCTTTGATTTGTTGATTTATTTATTTTATTTTCACTATTTTTAC
Found at i:3235939 original size:6 final size:6
Alignment explanation
Indices: 3235918--3235958 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
3235908 CGAATCGAGT
* *
3235918 TTTTAAA TTTTGA TTTAAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
3235959 CACAATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (6 bp):
TTTTAA
Found at i:3236057 original size:26 final size:26
Alignment explanation
Indices: 3236021--3236072 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
3236011 TGCTAATCCT
3236021 TCCTTGACCGTAACCGACTCCCGAAC
1 TCCTTGACCGTAACCGACTCCCGAAC
3236047 TCCTTGACCGTAACCGACTCCCGAAC
1 TCCTTGACCGTAACCGACTCCCGAAC
3236073 CCGACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.19
Consensus pattern (26 bp):
TCCTTGACCGTAACCGACTCCCGAAC
Found at i:3239887 original size:84 final size:84
Alignment explanation
Indices: 3239741--3240790 Score: 1163
Period size: 84 Copynumber: 12.5 Consensus size: 84
3239731 AAAACTATTG
* * *
3239741 GCAGGATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
3239806 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * *
3239825 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGATCTTCAAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
3239890 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * * *
3239909 GCAACATAACTCAAGGCAAGAAGGGCTATTTACCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3239974 GCTCCAAGGCACATCAATT
66 GCTCCAAGGCACATCATTT
* * * * * * *
3239993 GCATCATAGCTCAAGGCAAGAAGGGATATTTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
3240058 ACTCAAAGGCACAAT-ATTT
66 GCTCCAAGGCAC-ATCATTT
* * * * * * * * * *
3240077 GCAGCATAACTTAAGTCGAAAAGGGCTATCTGCCAGCCAAAGACCTACGATTTTGATTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
**
3240142 GCTCTGAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
*** * * * *
3240161 GCAGCATAACTCAAGGCTAGAAGTATTATCTGCTAACCAAAGACCTTCGTGTTTGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
3240226 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * * * *
3240245 GCAGCATAGCTCAAAGCTAGAAGGGCTATCTGCCACCAAAATACTTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3240310 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCACATCATTT
* ** * * * * *
3240329 ACAGCATTGCTCAGGGTTAGAAGGGTTATCTGCCACCAAAAGACCTTCAAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3240394 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * *
3240413 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGGCAACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
3240478 GCTCAAAGGCACAACATTT
66 GCTCCAAGGCACATCATTT
* * * * * * * * * *
3240497 GCAGCATAGCTTAAGTCAAGAAGCGCTATCTTCCAACCAAAGACCCTCGAGTTCGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * *
3240562 GCGTCGAGGGAACATCATTT
66 GC-TCCAAGGCACATCATTT
* * * *
3240582 GCAGCATAACTCAAGGCTAGTAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACT-CGTTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
3240645 TCTCCAAGGCACATTATTT
66 GCTCCAAGGCACATCATTT
* * * * * * * * * *
3240664 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGAGCTTCGAGTTTGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3240729 GCT-CAGAGGCAAATCAAATTT
66 GCTCCA-AGGCACATC--ATTT
* * * *
3240750 ACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAA
3240791 TTATCGAGAT
Statistics
Matches: 812, Mismatches: 146, Indels: 14
0.84 0.15 0.01
Matches are distributed among these distances:
82 42 0.05
83 26 0.03
84 663 0.82
85 43 0.05
86 38 0.05
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (84 bp):
GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTT
Found at i:3242615 original size:9 final size:9
Alignment explanation
Indices: 3242597--3242631 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
3242587 CCTTTGATTG
3242597 TTTA-TTTA
1 TTTATTTTA
3242605 TTTATTTTA
1 TTTATTTTA
3242614 TTTATTTTA
1 TTTATTTTA
3242623 TTTACTTTT
1 TTTA-TTTT
3242632 TTCCCTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 4 0.16
9 17 0.68
10 4 0.16
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3242626 original size:13 final size:14
Alignment explanation
Indices: 3242597--3242625 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3242587 CCTTTGATTG
3242597 TTTATTTA-TTTAT
1 TTTATTTATTTTAT
3242610 TTTATTTATTTTAT
1 TTTATTTATTTTAT
3242624 TT
1 TT
3242626 ACTTTTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:3242787 original size:12 final size:13
Alignment explanation
Indices: 3242765--3242793 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3242755 CGAATCGAGT
3242765 TTTTAAATTTTAA
1 TTTTAAATTTTAA
3242778 TTTT-AATTTTAA
1 TTTTAAATTTTAA
3242790 TTTT
1 TTTT
3242794 CACGATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:3243980 original size:4 final size:4
Alignment explanation
Indices: 3243973--3244229 Score: 272
Period size: 4 Copynumber: 65.5 Consensus size: 4
3243963 TCACACACAT
3243973 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
*
3244021 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCCC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
*
3244069 TCTC TCTC TCTC TCCC TCTC TCTC TCTC TCTC TC-C TCTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * *
3244116 TCCC TCTC -CCC TCCC TCTC CCTC TCCC TCCC TC-C CCTC CCCC TC-C
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * *
3244161 CCTC CCTC TC-C TCTC CCTC CCCC TCCC TCTC CCTC TCCC TCTC CCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * *
3244208 CCTC CCTC TCTC TCTC CCTC TC
1 TCTC TCTC TCTC TCTC TCTC TC
3244230 AAACTTTACC
Statistics
Matches: 220, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
3 12 0.05
4 208 0.95
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (4 bp):
TCTC
Found at i:3243982 original size:6 final size:6
Alignment explanation
Indices: 3243973--3244229 Score: 272
Period size: 6 Copynumber: 43.7 Consensus size: 6
3243963 TCACACACAT
3243973 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
*
3244021 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC CCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
*
3244069 TCTCTC TCTCTC TCCCTC TCTCTC TCTCTC TCTC-C TCTCTC TCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * * *
3244116 TCCCTC TC-CCC TCCCTC TCCCTC TCCCTC CCTC-C CCTCCC CCTC-C
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * * *
3244161 CCTCCC TCTC-C TCTCCC TCCCCC TCCCTC TCCCTC TCCCTC TCCCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * *
3244208 CCTCCC TCTCTC TCTCCC TCTC
1 TCTCTC TCTCTC TCTCTC TCTC
3244230 AAACTTTACC
Statistics
Matches: 228, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
5 24 0.11
6 204 0.89
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (6 bp):
TCTCTC
Done.