Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008785.1 Hibiscus syriacus cultivar Beakdansim tig00111917_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: 1341157
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:916114 original size:3 final size:3
Alignment explanation
Indices: 916097--916136 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
916087 TTATATACAT
* *
916097 TAA TAG TAA -AA TAA TAA TAA TTA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
916137 GTTAGAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:918595 original size:179 final size:179
Alignment explanation
Indices: 918295--918656 Score: 724
Period size: 179 Copynumber: 2.0 Consensus size: 179
918285 CTCTTGGTTC
918295 TGGGGAAATTCAAAAGCAATGCGCACTGGTGGAGGTACACGAGGGGGAGGTGGCACAAGACGACA
1 TGGGGAAATTCAAAAGCAATGCGCACTGGTGGAGGTACACGAGGGGGAGGTGGCACAAGACGACA
918360 ACAAGATACTAATTCAGGCGGTGGGAGCAAAAGATGGAAGAAATGATATTTTAAAGGAATTTCCT
66 ACAAGATACTAATTCAGGCGGTGGGAGCAAAAGATGGAAGAAATGATATTTTAAAGGAATTTCCT
918425 CTATGGGAAGGGAGCTTAGGATCAAAGGCGGTGGAAGATACGGATTTTA
131 CTATGGGAAGGGAGCTTAGGATCAAAGGCGGTGGAAGATACGGATTTTA
918474 TGGGGAAATTCAAAAGCAATGCGCACTGGTGGAGGTACACGAGGGGGAGGTGGCACAAGACGACA
1 TGGGGAAATTCAAAAGCAATGCGCACTGGTGGAGGTACACGAGGGGGAGGTGGCACAAGACGACA
918539 ACAAGATACTAATTCAGGCGGTGGGAGCAAAAGATGGAAGAAATGATATTTTAAAGGAATTTCCT
66 ACAAGATACTAATTCAGGCGGTGGGAGCAAAAGATGGAAGAAATGATATTTTAAAGGAATTTCCT
918604 CTATGGGAAGGGAGCTTAGGATCAAAGGCGGTGGAAGATACGGATTTTA
131 CTATGGGAAGGGAGCTTAGGATCAAAGGCGGTGGAAGATACGGATTTTA
918653 TGGG
1 TGGG
918657 CCTTACAAAC
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 183 1.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (179 bp):
TGGGGAAATTCAAAAGCAATGCGCACTGGTGGAGGTACACGAGGGGGAGGTGGCACAAGACGACA
ACAAGATACTAATTCAGGCGGTGGGAGCAAAAGATGGAAGAAATGATATTTTAAAGGAATTTCCT
CTATGGGAAGGGAGCTTAGGATCAAAGGCGGTGGAAGATACGGATTTTA
Found at i:924985 original size:104 final size:104
Alignment explanation
Indices: 924805--925014 Score: 375
Period size: 104 Copynumber: 2.0 Consensus size: 104
924795 ATAATGTTCC
924805 TTCTTTCTTTTCCAGCACCAAATTTTGTGATATGGTTAATAGTACTAAGAACCTAAAAATAATCC
1 TTCTTTCTTTTCCAGCACCAAATTTTGTGATATGGTTAATAGTACTAAGAACCTAAAAATAATCC
*
924870 AGCAGGAACTTATGGGCCTTATGAAGTAAGAAACCCATT
66 AGCAGGAACTTATGGACCTTATGAAGTAAGAAACCCATT
* * *
924909 TTCTTTCTTTTCCAGTACCAAATTTTGTGATATGGTTAATAGTACTAAGGATCTAAAAATAATCC
1 TTCTTTCTTTTCCAGCACCAAATTTTGTGATATGGTTAATAGTACTAAGAACCTAAAAATAATCC
*
924974 AGCAGGAACTTATGGACCTTTTGAAGTAAGAAACCCATT
66 AGCAGGAACTTATGGACCTTATGAAGTAAGAAACCCATT
925013 TT
1 TT
925015 TAGTACAAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (104 bp):
TTCTTTCTTTTCCAGCACCAAATTTTGTGATATGGTTAATAGTACTAAGAACCTAAAAATAATCC
AGCAGGAACTTATGGACCTTATGAAGTAAGAAACCCATT
Found at i:925459 original size:15 final size:15
Alignment explanation
Indices: 925410--925464 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
925400 TTAATTTTTT
925410 AATTTAATTACT-TA
1 AATTTAATTACTCTA
925424 AATTTCAAATTACTC-A
1 AATTT--AATTACTCTA
*
925440 TAATTTAATCACTCTA
1 -AATTTAATTACTCTA
925456 AATTTAATT
1 AATTTAATT
925465 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 5 0.15
15 15 0.44
16 9 0.26
17 5 0.15
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAATTACTCTA
Found at i:927297 original size:194 final size:193
Alignment explanation
Indices: 926968--927354 Score: 765
Period size: 194 Copynumber: 2.0 Consensus size: 193
926958 GAAAGATACC
926968 GAATTCTATCTGGTCTCCAATCGTACATGTGGCACTCTACACGAATGAAAATGATTCACTTGGAC
1 GAATTCTATCTGGTCTCCAATCGTACATGTGGCACTCTACACGAATGAAAATGATTCACTTGGAC
927033 ATACACAGCAGCCACAAAAATCAAACAGAATAATGAAAATGAAAAGTAATCCACCATAGACAGCA
66 ATACACAGCAGCCACAAAAATCAAACAGAATAATGAAAATGAAAAGTAATCCACCATAGACAGCA
927098 TTAGGTAAAACAAGCTTTCAGGGCTTAACATTAAGCGCATTGGTTCCAAGCAATTGAGGTTCAG
131 TTAGGT-AAACAAGCTTTCAGGGCTTAACATTAAGCGCATTGGTTCCAAGCAATTGAGGTTCAG
927162 GAATTCTATCTGGTCTCCAATCGTACATGTGGCACTCTACACGAATGAAAATGATTCACTTGGAC
1 GAATTCTATCTGGTCTCCAATCGTACATGTGGCACTCTACACGAATGAAAATGATTCACTTGGAC
927227 ATACACAGCAGCCACAAAAATCAAACAGAATAATGAAAATGAAAAGTAATCCACCATAGACAGCA
66 ATACACAGCAGCCACAAAAATCAAACAGAATAATGAAAATGAAAAGTAATCCACCATAGACAGCA
927292 TTAGGTAAACAAGCTTTCAGGGCTTAACATTAAGCGCATTGGTTCCAAGCAATTGAGGTTCAG
131 TTAGGTAAACAAGCTTTCAGGGCTTAACATTAAGCGCATTGGTTCCAAGCAATTGAGGTTCAG
927355 CCATGGATGG
Statistics
Matches: 193, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
193 57 0.30
194 136 0.70
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (193 bp):
GAATTCTATCTGGTCTCCAATCGTACATGTGGCACTCTACACGAATGAAAATGATTCACTTGGAC
ATACACAGCAGCCACAAAAATCAAACAGAATAATGAAAATGAAAAGTAATCCACCATAGACAGCA
TTAGGTAAACAAGCTTTCAGGGCTTAACATTAAGCGCATTGGTTCCAAGCAATTGAGGTTCAG
Found at i:928803 original size:16 final size:15
Alignment explanation
Indices: 928774--928824 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
928764 TTGTGCTTTT
* *
928774 ATTATATTAGATTAA
1 ATTATTTTAAATTAA
*
928789 GATTATTTTACATTAA
1 -ATTATTTTAAATTAA
928805 ATTATATTTAAATTAA
1 ATTAT-TTTAAATTAA
928821 ATTA
1 ATTA
928825 AATCGATTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (15 bp):
ATTATTTTAAATTAA
Found at i:932175 original size:63 final size:63
Alignment explanation
Indices: 932075--932224 Score: 194
Period size: 64 Copynumber: 2.3 Consensus size: 63
932065 GCACTAGGGT
* * * * * *
932075 GTGCATCGGTGCACAAATCTCCTTCGATGTTTCAAAATAACCAG-GGTGCATTGATGCATGTCTT
1 GTGCATCGGTGCACTAA--TGCATCGATGTTTCAAAATAACCAGTGGTGCATCGATGCATGGCTG
**
932139 GTGCATCGGTGCACTGAATGCATCGATGTTTCAAAATATTCAGTGGTGCATCGATGCATGGCTG
1 GTGCATCGGTGCACT-AATGCATCGATGTTTCAAAATAACCAGTGGTGCATCGATGCATGGCTG
932203 GTGCATCGGTGCACTAATGCAT
1 GTGCATCGGTGCACTAATGCAT
932225 TCGAAATTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 28 0.37
64 46 0.61
65 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (63 bp):
GTGCATCGGTGCACTAATGCATCGATGTTTCAAAATAACCAGTGGTGCATCGATGCATGGCTG
Found at i:932235 original size:63 final size:63
Alignment explanation
Indices: 932105--932261 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 63
932095 CCTTCGATGT
** * * * **
932105 TTCAAAATAACCAGGGTGCATTGATGCATGTCTTGTGCATCGGTGCACTGAATGCATCGATGT
1 TTCAAAATATTCAGGGTGCATCGATGCATGGCTGGTGCATCGGTGCACTGAATGCATCGATAA
932168 TTCAAAATATTCAGTGGTGCATCGATGCATGGCTGGTGCATCGGTGCACT-AATGCATTCGA-AA
1 TTCAAAATATTCAG-GGTGCATCGATGCATGGCTGGTGCATCGGTGCACTGAATGCA-TCGATAA
** * *
932231 TTCAATTTAATTAAGAGTGCATCGATGCATG
1 TTCAAAAT-ATTCAGGGTGCATCGATGCATG
932262 AACTAGTGCA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
63 39 0.49
64 41 0.51
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
TTCAAAATATTCAGGGTGCATCGATGCATGGCTGGTGCATCGGTGCACTGAATGCATCGATAA
Found at i:938278 original size:22 final size:21
Alignment explanation
Indices: 938236--938275 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
938226 AAGACTATTT
*
938236 TCATTTTTCTATTTTGAAATA
1 TCATTTTTATATTTTGAAATA
938257 TCATTTTTATATTTTGAAA
1 TCATTTTTATATTTTGAAA
938276 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
TCATTTTTATATTTTGAAATA
Found at i:941684 original size:22 final size:23
Alignment explanation
Indices: 941640--941693 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
941630 TTGCTTGTTC
*
941640 ATATTTTCTTTTTAGTTAGCTTA
1 ATATTTTCTTTTTACTTAGCTTA
**
941663 ATATTTT-TTTTTACTTTTCTTA
1 ATATTTTCTTTTTACTTAGCTTA
941685 AT-TTTTCTT
1 ATATTTTCTT
941694 AATTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 16 0.59
23 7 0.26
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.69
Consensus pattern (23 bp):
ATATTTTCTTTTTACTTAGCTTA
Found at i:952584 original size:65 final size:66
Alignment explanation
Indices: 952449--952586 Score: 158
Period size: 65 Copynumber: 2.1 Consensus size: 66
952439 AATAACCAGG
* ** * *
952449 GTGCATCAGTTCACTAAATGCATTCGATGTTTCAAAATATTCAGGAGTGCATCGATGCATGGCTT
1 GTGCATCAGTGCACTAAATGCATTCGAAATTTCAAAATATTCAAGAGTGCATCGATGCATGACTT
952514 A
66 A
* **
952515 -TGCATCGGTGCACTAAATGCATTCGAAATTT-AATTTAATT-AAGAGTGCATCGATGCATGAAC
1 GTGCATCAGTGCACTAAATGCATTCGAAATTTCAAAAT-ATTCAAGAGTGCATCGATGCATG-AC
952577 -TA
64 TTA
952579 GTGCATCA
1 GTGCATCA
952587 ATTCATCCCT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
64 23 0.38
65 37 0.62
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (66 bp):
GTGCATCAGTGCACTAAATGCATTCGAAATTTCAAAATATTCAAGAGTGCATCGATGCATGACTT
A
Found at i:958335 original size:15 final size:16
Alignment explanation
Indices: 958315--958349 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
958305 AAACACAACC
958315 AATAAT-ATCTAAAAT
1 AATAATAATCTAAAAT
*
958330 AATAATAATCTAAATT
1 AATAATAATCTAAAAT
958346 AATA
1 AATA
958350 TAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAATAATCTAAAAT
Found at i:959279 original size:15 final size:15
Alignment explanation
Indices: 959247--959294 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
959237 TCAAATACAT
*
959247 AAATAACAATAAAATA
1 AAATAA-AATAAATTA
*
959263 AAATAAAACAAATTA
1 AAATAAAATAAATTA
* *
959278 AATTAAATTAAATTA
1 AAATAAAATAAATTA
959293 AA
1 AA
959295 GATTACCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATAAAATAAATTA
Found at i:960336 original size:13 final size:13
Alignment explanation
Indices: 960318--960342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
960308 AGAACAGGCG
960318 CAAAATTTAAAGA
1 CAAAATTTAAAGA
960331 CAAAATTTAAAG
1 CAAAATTTAAAG
960343 TCACGAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAAATTTAAAGA
Found at i:961147 original size:21 final size:20
Alignment explanation
Indices: 961110--961148 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
961100 TGGTATTCTC
* *
961110 TTTTTTTATGGTTGTTGGCT
1 TTTTTTTATAGTGGTTGGCT
961130 TTTTCTTTATAGTGGTTGG
1 TTTT-TTTATAGTGGTTGG
961149 AGTTTGGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.08, C:0.05, G:0.26, T:0.62
Consensus pattern (20 bp):
TTTTTTTATAGTGGTTGGCT
Found at i:961538 original size:3 final size:3
Alignment explanation
Indices: 961525--961570 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
961515 AATAGGCTTG
961525 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
961571 AAGGGGAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:962309 original size:255 final size:256
Alignment explanation
Indices: 961694--962917 Score: 1682
Period size: 256 Copynumber: 4.8 Consensus size: 256
961684 ATCTCAAGTG
* * * * *
961694 AGACTGTCAGATGACACGAAGGATTTACTCATCATGCTCGAAAGACTTACTGATGGCTCGAATGA
1 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
961759 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA
66 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA
*
961824 AATTTCATTTTCTCAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
131 AATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
* * * * **
961889 ATGAAAGCATCTTGCGCAAATGTCTTATAGATGGCTCGAATCACTTATCATCTTGCTCGAA
196 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAA
* * * * * * * * *
961950 AGACTGACAGATAACCTGAAGGATTTACTCATCATTCTCGAAAGACTTATTGACGGCTCAAATGA
1 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* *
962015 CTTACCAATTTTGGAAATAGTTTACTAGGTAAAAAACTTTGGAAATCACTTTCTTACTTTTCAAA
66 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA
* * * *
962080 TATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATTGCTTTCTCGTCTTTCAAATTAT
131 AATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
*
962145 ATGAAAGCATCTTGCCCGAA-GTCTTATAGATGGCTC-AGAGGACTTATCATCTTGCTCGAA
196 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGA-AGGACTTATCATCTTGCTCGAA
* * * * *
962205 AAACTGACAGATGACCTGAAGGATTTAATCATCATTCTTGAAAGATTTACTGATGGCCCGAAGGA
1 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* *
962270 CTTACCAATTTTGGTAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAA
66 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA
* ** *
962335 AATTTCATTTTCTGAAAATGCTAAATGAGAAACTTTGAAAATCATTTTCTCATTTTTTAAATTAT
131 AATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
* * * * * *
962400 CATAAAAGCATCTTGCCCGATGATCTTGTAAATGGCCCGAAGGTCTTATCATCTTGCTCGAA
196 -ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAA
* * * * * *
962462 AGACTTACATATGACCCCAAAGAATTTAATCATCGTGCTCGAAAGACTTACTGATGGCCCGAAAG
1 AGACTGACAGATGA-CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
** *
962527 ACTTAAGAA-TTTGGAAATAGTTTACAAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
65 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
* * * *
962591 ACATTTCATTTTCTGAAAATGCTAAATTAGAAACTTTGAAAATTGCTTTCTCATTTTTCAATTTA
130 AAATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAA---A
* * * ** * *
962656 TCATATGAAAGTATCTTACATGAAGGTTTTATAGATGGCCCGAATGACTTATCAT-TCTGCTCGA
192 TTATATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCT-TGCTCGA
962720 A
256 A
*
962721 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCTAAGGA
1 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* * * ** *
962786 CTTAACAATTATAGAAATAGTTTACTATATAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAA
66 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA
* * *
962851 AATTTAATTTTCTAAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAATTAT
131 AATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
962916 AT
196 AT
962918 AAAAATAACT
Statistics
Matches: 853, Mismatches: 105, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
254 1 0.00
255 209 0.25
256 222 0.26
257 151 0.18
258 104 0.12
259 162 0.19
260 4 0.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (256 bp):
AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAA
AATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTAT
ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAA
Found at i:962760 original size:42 final size:42
Alignment explanation
Indices: 962688--962790 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
962678 AAGGTTTTAT
*
962688 AGATGGCCCGAATGACTT-ATCATTCTGCTCGAAAGACTGAC
1 AGATGGCCCGAAGGACTTAATCATTCTGCTCGAAAGACTGAC
* * *
962729 AGATGACCCGAAGGATTTAATCA-TCATGCTCGAAAGACTTAC
1 AGATGGCCCGAAGGACTTAATCATTC-TGCTCGAAAGACTGAC
* *
962771 TGATGGCCCTAAGGACTTAA
1 AGATGGCCCGAAGGACTTAA
962791 CAATTATAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
41 17 0.33
42 35 0.67
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
AGATGGCCCGAAGGACTTAATCATTCTGCTCGAAAGACTGAC
Found at i:965008 original size:3 final size:3
Alignment explanation
Indices: 965000--965084 Score: 74
Period size: 3 Copynumber: 29.7 Consensus size: 3
964990 TATGTTATAT
965000 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT- TTCC TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC
* * * *
965043 TT- TTC TTC TTC -TC TTT TTA TTC -TC TTT TTC TTT TTC TATC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TT
965085 GAATATGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
2 12 0.18
3 51 0.75
4 5 0.07
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:965048 original size:13 final size:15
Alignment explanation
Indices: 964999--965060 Score: 67
Period size: 13 Copynumber: 4.1 Consensus size: 15
964989 ATATGTTATA
964999 TTTCTTCTTCTTCTTCT
1 TTTCTTCTTC-TCTT-T
*
965016 TCTTCTTCTTCT-TCT
1 T-TTCTTCTTCTCTTT
965031 TTTCTT-TTC-CTTT
1 TTTCTTCTTCTCTTT
965044 TTTCTTCTTCTCTTT
1 TTTCTTCTTCTCTTT
965059 TT
1 TT
965061 ATTCTCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 11 0.28
14 8 0.21
15 8 0.21
16 1 0.03
17 2 0.05
18 9 0.23
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCTTCTTCTCTTT
Found at i:965048 original size:27 final size:26
Alignment explanation
Indices: 965013--965084 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 26
965003 TTCTTCTTCT
* *
965013 TCTTCTTCTTCTTCTTCTTTTCTTTTC
1 TCTTTTTCTTCTTCTTCTTTT-TATTC
965040 -CTTTTTTCTTCTTC-TCTTTTTATTC
1 TC-TTTTTCTTCTTCTTCTTTTTATTC
*
965065 TCTTTTTCTTTTTCTATCTT
1 TCTTTTTCTTCTTCT-TCTT
965085 GAATATGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 15 0.39
26 8 0.21
27 15 0.39
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (26 bp):
TCTTTTTCTTCTTCTTCTTTTTATTC
Found at i:968528 original size:15 final size:16
Alignment explanation
Indices: 968500--968532 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
968490 TCAAATGCAT
*
968500 AAATAATAATAAAATA
1 AAATAATAACAAAATA
968516 AAATAA-AACAAAATA
1 AAATAATAACAAAATA
968531 AA
1 AA
968533 TTTAAGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATAATAACAAAATA
Found at i:970469 original size:3 final size:3
Alignment explanation
Indices: 970461--970498 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
970451 GATCAATTGC
970461 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
970499 GTTTTTACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:971529 original size:18 final size:19
Alignment explanation
Indices: 971506--971549 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
971496 CAGTAATCAT
*
971506 ATTCC-CTGGTAATCTTGC
1 ATTCCACTGGTAATCTTAC
971524 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
971544 ATTCCA
1 ATTCCA
971550 TGAACCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 5 0.22
20 15 0.65
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:971536 original size:20 final size:20
Alignment explanation
Indices: 971511--971548 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
971501 ATCATATTCC
*
971511 CTGGTAATCTTGCATTCCCA
1 CTGGTAATCTTACATTCCCA
971531 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
971549 ATGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:971958 original size:106 final size:106
Alignment explanation
Indices: 971772--972005 Score: 362
Period size: 106 Copynumber: 2.2 Consensus size: 106
971762 CTAGAAATCG
*
971772 CTGTGAAGTTGAAATTAACTCTGAAATTAGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTT
1 CTGTGAAGTTGAAATTAACTCTGAAATTAGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCATT
*
971837 GTGAAGTTGAACTTGTGTTGTCCCGAGTCTAACATCATTCGA
66 GTGAAGTTGAACTTGTGTTGTCCCGAGTCCAACATCATT-GA
** *
971879 -TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCATT
1 CTGTGAAGTTGAAATTAACTCTGAAATTAGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCATT
** * * *
971943 GTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTTA
66 GTGAAGTTGAACTTGTGTTGTCCCGAGTCCAACATCATTGA
971984 CTGTGAAGTTGAAATTAACTCT
1 CTGTGAAGTTGAAATTAACTCT
972006 AGCTAAAATC
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
105 1 0.01
106 113 0.99
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (106 bp):
CTGTGAAGTTGAAATTAACTCTGAAATTAGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCATT
GTGAAGTTGAACTTGTGTTGTCCCGAGTCCAACATCATTGA
Found at i:972037 original size:14 final size:14
Alignment explanation
Indices: 972018--972044 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
972008 CTAAAATCTG
972018 TCTGGAATCTTGAC
1 TCTGGAATCTTGAC
972032 TCTGGAATCTTGA
1 TCTGGAATCTTGA
972045 AGTTTCGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (14 bp):
TCTGGAATCTTGAC
Found at i:979935 original size:18 final size:18
Alignment explanation
Indices: 979904--979945 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
979894 AATGTGTTAG
* *
979904 ATAAACAAGGTAAAGAAA
1 ATAAAAAAGATAAAGAAA
*
979922 ATAAAAAAGATAAAGAGA
1 ATAAAAAAGATAAAGAAA
979940 ATAAAA
1 ATAAAA
979946 TAAAAGGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (18 bp):
ATAAAAAAGATAAAGAAA
Found at i:980013 original size:2 final size:2
Alignment explanation
Indices: 980006--980061 Score: 75
Period size: 2 Copynumber: 30.0 Consensus size: 2
979996 AAGTAATAAT
*
980006 TA TA TA TA TA -A TA TA TA TA TA -A TA -A TA AA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
980044 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
980062 CATCAAAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
1 4 0.08
2 44 0.92
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:980206 original size:41 final size:38
Alignment explanation
Indices: 980142--980217 Score: 107
Period size: 41 Copynumber: 1.9 Consensus size: 38
980132 TCACTTCACC
*
980142 GAAAGTGGGGGCTTTAGTCAGAAATAAGACAAAAAGAG
1 GAAAGTGGGGGCTTTAGTCAGAAATAAAACAAAAAGAG
*
980180 GAAAGTGGGAGAGACTTTAGTTAGAAATAAAACAAAAA
1 GAAAGTGGG-G-G-CTTTAGTCAGAAATAAAACAAAAA
980218 ATAGGCCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 9 0.27
39 1 0.03
40 1 0.03
41 22 0.67
ACGTcount: A:0.49, C:0.07, G:0.28, T:0.17
Consensus pattern (38 bp):
GAAAGTGGGGGCTTTAGTCAGAAATAAAACAAAAAGAG
Found at i:980379 original size:2 final size:2
Alignment explanation
Indices: 980333--980363 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
980323 TAATAAAATA
980333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
980364 AAGTTATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:980521 original size:85 final size:84
Alignment explanation
Indices: 980403--980567 Score: 203
Period size: 85 Copynumber: 2.0 Consensus size: 84
980393 AAATAATCAA
* * *
980403 ATAAAAATAATTAAGAATATATATATATTAATAATAG-GTATATAAATAAACTATTAAAAGTATA
1 ATAAAAATAATTAAGAATATATATATAGTAATAATAGACT-TATAAATAAAATATT-AAAG-A-A
980467 AAATATATATATATATATAACTAG
62 AAATATATATATATA-ATAACTAG
* * *
980491 ATAAAGATAATT-A-AA-ATATATATAGTAATAATAGACTTATAAGTAAAATATTAAAGAAATAT
1 ATAAAAATAATTAAGAATATATATATAGTAATAATAGACTTATAAATAAAATATTAAAGAAAAAT
980553 ATATATATATAATAA
66 ATATATATATAATAA
980568 AAAATATAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
81 4 0.06
82 15 0.21
83 1 0.01
84 4 0.06
85 31 0.44
86 3 0.04
87 1 0.01
88 11 0.16
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (84 bp):
ATAAAAATAATTAAGAATATATATATAGTAATAATAGACTTATAAATAAAATATTAAAGAAAAAT
ATATATATATAATAACTAG
Found at i:980610 original size:2 final size:2
Alignment explanation
Indices: 980603--980629 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
980593 AATAATTTAA
980603 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
980630 CGTATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:980666 original size:17 final size:18
Alignment explanation
Indices: 980633--980668 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
980623 ATATATACGT
*
980633 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
980651 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
980668 A
1 A
980669 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:982302 original size:33 final size:30
Alignment explanation
Indices: 982259--982334 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
982249 TATTAAGGTA
* * *
982259 TATTTTATTATATTTAGTATTTTTTTAGTAATT
1 TATTTAATTATATTTA--A-TTGTTTAATAATT
982292 TATTTAATTAT-TTTAATTGTTTAATAATT
1 TATTTAATTATATTTAATTGTTTAATAATT
982321 TATTTAATTA-ATTT
1 TATTTAATTATATTT
982335 TTTTTGCAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 24 0.62
30 1 0.03
32 4 0.10
33 10 0.26
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (30 bp):
TATTTAATTATATTTAATTGTTTAATAATT
Found at i:985210 original size:42 final size:42
Alignment explanation
Indices: 985156--985255 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
985146 AGACGCGGTA
* *
985156 CCTGCCCCGCGCTATATATAATTATGAAGGTCAGGCACGGCC
1 CCTGACCCGCGCTATATATAATTATAAAGGTCAGGCACGGCC
* * *
985198 CCTGTCTCGCGCTATATATAATTATAAAGGTCAGGCGCGGCC
1 CCTGACCCGCGCTATATATAATTATAAAGGTCAGGCACGGCC
985240 CCTGACCCGCGCTATA
1 CCTGACCCGCGCTATA
985256 CCCTACATGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (42 bp):
CCTGACCCGCGCTATATATAATTATAAAGGTCAGGCACGGCC
Found at i:988063 original size:14 final size:14
Alignment explanation
Indices: 988031--988064 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
988021 TTTTATGAAT
988031 TTAATTTCTCTATA
1 TTAATTTCTCTATA
* *
988045 ATAATTTCTCTGTA
1 TTAATTTCTCTATA
988059 TTAATT
1 TTAATT
988065 CAATTAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (14 bp):
TTAATTTCTCTATA
Found at i:991124 original size:32 final size:32
Alignment explanation
Indices: 991088--991151 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
991078 CATCTACAGA
991088 ACATTGTATGACATCAAAAATCAAGTAGGAAT
1 ACATTGTATGACATCAAAAATCAAGTAGGAAT
*
991120 ACATTGTATGACGTCAAAAATCAAGTAGGAAT
1 ACATTGTATGACATCAAAAATCAAGTAGGAAT
991152 GCTCAGTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (32 bp):
ACATTGTATGACATCAAAAATCAAGTAGGAAT
Found at i:996025 original size:20 final size:21
Alignment explanation
Indices: 996000--996051 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
995990 TTTTCCCAAT
*
996000 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
996020 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
996041 TCGCAATGCGA
1 TCGCAATGCGA
996052 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:996065 original size:20 final size:20
Alignment explanation
Indices: 996040--996133 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
996030 AATTGGGAAA
996040 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
996060 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
996080 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
996101 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
996121 TTCGCAACGCGAT
1 ATCGCAATGCGAT
996134 TTACATAGCG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.03
20 46 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:996746 original size:19 final size:19
Alignment explanation
Indices: 996724--996888 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
996714 GAAACCAAAA
*
996724 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
996743 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
996762 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
996781 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
996795 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
996814 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
996828 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
996847 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
996867 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
996887 TC
1 TC
996889 AACCAAAAGA
Statistics
Matches: 118, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
14 19 0.16
16 4 0.03
17 4 0.03
19 59 0.50
20 31 0.26
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:996804 original size:38 final size:38
Alignment explanation
Indices: 996724--996888 Score: 143
Period size: 33 Copynumber: 4.6 Consensus size: 38
996714 GAAACCAAAA
* * *
996724 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATG
*
996762 TCGCGTTGCGATTTTTATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATG
* **
996797 T--CGTCGCGATAGTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATG
** *
996830 T--CGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATTA
1 TCGCGTTGCGATTTTCATTT-CGCGTTGCGATTCTCA-TG
*
996868 TCTCGTTGCGATTTTCATTTC
1 TCGCGTTGCGATTTTCATTTC
996889 AACCAAAAGA
Statistics
Matches: 110, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
33 45 0.41
34 15 0.14
35 1 0.01
38 33 0.30
39 1 0.01
40 15 0.14
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATG
Found at i:996815 original size:33 final size:33
Alignment explanation
Indices: 996778--996863 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
996768 TGCGATTTTT
996778 ATTTCGCGTTGCGATTCTCTCGTCGCGATAGTC
1 ATTTCGCGTTGCGATTCTCTCGTCGCGATAGTC
*
996811 ATTTCGCGTTGCGATTCTCTCGTTGCGATAGTC
1 ATTTCGCGTTGCGATTCTCTCGTCGCGATAGTC
996844 ATTTCCGCGTTGCGATTCTC
1 ATTT-CGCGTTGCGATTCTC
996864 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.38
Consensus pattern (33 bp):
ATTTCGCGTTGCGATTCTCTCGTCGCGATAGTC
Found at i:1000676 original size:19 final size:19
Alignment explanation
Indices: 1000654--1000804 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
1000644 CGAAATTAAA
1000654 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1000673 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1000688 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
1000706 TTTGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
1000720 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1000739 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1000754 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
1000772 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
1000791 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1000805 AGACATTAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 31
0.64 0.15 0.21
Matches are distributed among these distances:
14 28 0.30
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1000695 original size:33 final size:32
Alignment explanation
Indices: 1000658--1000784 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
1000648 ATTAAATTCG
1000658 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
1000691 CGTTGCGATTTTCATTTTGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
1000724 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
1000757 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1000785 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1000732 original size:66 final size:66
Alignment explanation
Indices: 1000651--1000783 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
1000641 ACGCGAAATT
* *
1000651 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTTGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1000716 G
66 G
*
1000717 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1000782 G
66 G
1000783 A
1 A
1000784 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:1003303 original size:24 final size:24
Alignment explanation
Indices: 1003271--1003324 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1003261 CTGAAACATC
* *
1003271 ATCAAAATCTGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
*
1003295 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1003319 ATCAAA
1 ATCAAA
1003325 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1004093 original size:20 final size:20
Alignment explanation
Indices: 1004068--1004118 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1004058 TGTATTATCT
*
1004068 CGTTGCAAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
1004088 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
1004108 CGTTGCGAAAG
1 CGTTGCGAAAG
1004119 GCAATCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:1004369 original size:19 final size:20
Alignment explanation
Indices: 1004331--1004380 Score: 93
Period size: 19 Copynumber: 2.5 Consensus size: 20
1004321 ATTCATTTGA
1004331 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
1004351 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
1004370 CTATCGCAACG
1 CTATCGCAACG
1004381 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:1004447 original size:19 final size:19
Alignment explanation
Indices: 1004406--1004470 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
1004396 GAAATGAAAA
1004406 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
1004422 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1004439 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1004458 TCGCATTGCGATT
1 TCGCATTGCGATT
1004471 CTCTCGTTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.25
16 3 0.07
17 3 0.07
19 27 0.61
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1004501 original size:20 final size:20
Alignment explanation
Indices: 1004476--1004514 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1004466 CGATTCTCTC
1004476 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
1004496 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
1004515 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:1004616 original size:14 final size:14
Alignment explanation
Indices: 1004597--1004633 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1004587 CATCAATTAA
1004597 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1004611 ACAAATCATCTTTT
1 ACAAATCAACATTT
1004625 ACAAATCAA
1 ACAAATCAA
1004634 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1006522 original size:20 final size:20
Alignment explanation
Indices: 1006499--1006566 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
1006489 GAAACTTAAA
1006499 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
1006519 ATCGCAATGC-AGAAATGGCT
1 ATCGCAACGCGA-AAATGACT
* **
1006539 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
1006558 ATCGCAACG
1 ATCGCAACG
1006567 ATAAAATCGC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1006574 original size:14 final size:13
Alignment explanation
Indices: 1006555--1006612 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 13
1006545 ATGCGAAATG
1006555 AAAATCGCAACGA
1 AAAATCGCAACGA
1006568 TAAAATCGCAATGCGA
1 -AAAATCGCAA--CGA
1006584 AATGAGATCGCAACGA
1 AA--A-ATCGCAACGA
1006600 CAAAATCGCAACG
1 -AAAATCGCAACG
1006613 CGAAACACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 19 0.50
15 3 0.08
16 6 0.16
17 3 0.08
18 7 0.18
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (13 bp):
AAAATCGCAACGA
Found at i:1006599 original size:32 final size:33
Alignment explanation
Indices: 1006539--1006617 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
1006529 AGAAATGGCT
*
1006539 ATCGCAATGCGAAATGAAAATCGCAACGATAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1006572 ATCGCAATGCGAAATG-AGATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1006604 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
1006618 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 27 0.63
33 16 0.37
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1006646 original size:19 final size:18
Alignment explanation
Indices: 1006624--1006719 Score: 82
Period size: 19 Copynumber: 5.7 Consensus size: 18
1006614 GAAACACAAA
1006624 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
1006643 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
1006659 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
* *
1006675 TTGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
1006691 TCG--TTGCGATCTTCATT
1 TCGCATTGCGAT-TTCATT
1006708 TCGCATTGCGAT
1 TCGCATTGCGAT
1006720 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 16 0.26
15 2 0.03
16 10 0.16
17 4 0.07
18 12 0.20
19 17 0.28
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:1006665 original size:14 final size:14
Alignment explanation
Indices: 1006646--1006700 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1006636 TTTCATTTCG
1006646 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1006660 CGTTGCGATTTCATTTT
1 CGTTGCGA-TT--TTGT
*
1006677 GCATTGCGATTTTGT
1 -CGTTGCGATTTTGT
1006692 CGTTGCGAT
1 CGTTGCGAT
1006701 CTTCATTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 16 0.48
15 5 0.15
17 5 0.15
18 7 0.21
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1006714 original size:33 final size:32
Alignment explanation
Indices: 1006629--1006719 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
1006619 ACAAATCGCA
*
1006629 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
*
1006662 TTGCGATTTCATTTTGCATTGCGATTTTGTCG
1 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
1006694 TTGCGATCTTCATTTCGCATTGCGAT
1 TTGCGAT-TTCATTTCGCATTGCGAT
1006720 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 31 0.57
33 23 0.43
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCATTGCGATTTTGTCG
Found at i:1006738 original size:20 final size:19
Alignment explanation
Indices: 1006704--1006758 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1006694 TTGCGATCTT
*
1006704 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1006723 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1006743 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1006759 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1007266 original size:18 final size:18
Alignment explanation
Indices: 1007240--1007284 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1007230 GTCGATCAGA
*
1007240 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1007258 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1007276 TGATGGCTC
1 TGATGGCTC
1007285 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:1008630 original size:20 final size:20
Alignment explanation
Indices: 1008605--1008646 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1008595 ATAGTTTCTA
1008605 AAAATGAAAATCGCAACACG
1 AAAATGAAAATCGCAACACG
** *
1008625 AAAATGACTATCGCAACGCG
1 AAAATGAAAATCGCAACACG
1008645 AA
1 AA
1008647 TTTGACTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAATGAAAATCGCAACACG
Found at i:1008652 original size:20 final size:20
Alignment explanation
Indices: 1008614--1008662 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1008604 AAAAATGAAA
*
1008614 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1008634 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1008654 ATCGCAACG
1 ATCGCAACG
1008663 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1008949 original size:22 final size:22
Alignment explanation
Indices: 1008924--1008967 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1008914 GATGAAGATA
1008924 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1008946 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1008968 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1009174 original size:20 final size:20
Alignment explanation
Indices: 1009149--1009200 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1009139 ATTATGTATT
1009149 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
* *
1009169 ATCGCGTTGCGAAAGTCGGT
1 ATCGCGTTGCGAAAGTCAGA
*
1009189 ATCTCGTTGCGA
1 ATCGCGTTGCGA
1009201 TTTTGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:1009234 original size:20 final size:20
Alignment explanation
Indices: 1009209--1009262 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1009199 GATTTTGTAT
1009209 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
1009229 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
1009249 TATCGCATTGCGAT
1 TATCGCATTGCGAT
1009263 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:1009234 original size:61 final size:61
Alignment explanation
Indices: 1009128--1009265 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
1009118 CGCTTTGAAA
* * * * *
1009128 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCGGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
1009189 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
1009250 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
1009266 CCCAATTCGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1009281 original size:61 final size:61
Alignment explanation
Indices: 1009128--1009283 Score: 152
Period size: 61 Copynumber: 2.6 Consensus size: 61
1009118 CGCTTTGAAA
* ** * * * * *
1009128 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCGGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * ** * * * *
1009189 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
1009250 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
1009284 TTACTTATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 76 0.97
62 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1014775 original size:37 final size:38
Alignment explanation
Indices: 1014725--1014805 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
1014715 ATTCATATAT
*
1014725 TCGGGTTGGG-TTTTTTAAGTGTGATATCCGGGTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATCCGGGTCGAG
* *
1014762 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATCCGGGTCGAG
1014800 TCGGGT
1 TCGGGT
1014806 TCGAGTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 9 0.22
38 31 0.77
ACGTcount: A:0.11, C:0.11, G:0.40, T:0.38
Consensus pattern (38 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATCCGGGTCGAG
Found at i:1014840 original size:222 final size:218
Alignment explanation
Indices: 1014539--1014953 Score: 679
Period size: 222 Copynumber: 1.9 Consensus size: 218
1014529 TTTTGGTAAG
* *
1014539 GTCGGATCGAGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAA
1 GTCGGATCGAGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAA
* *
1014604 ACCGGACCGACCCGAAAATATATATAATTCAGGTCGGGT-TGGATTAAGTCACTGTTTTCATTAA
66 ACCAGACCGACCCGAAAATATATATAATTCAGGTCGGGTCT-GATTAAGTCACTATTTTCATTAA
*
1014668 ATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGTTGGATTTCTAATTCATATATTCGGGTTG
130 ATAAAAATAATTTTTTATTATTTCGGGTCGGGTC----GGATTTCTAATTCATATATTCGGGTCG
1014733 GGTTTTTTAAGTGTGATATCCGGGTCGA
191 GGTTTTTTAAGTGTGATATCCGGGTCGA
* *
1014761 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAA
1 GTCGGATCGAGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAA
* * * *
1014826 ACCAGACTGACCCGAAAATATATATAATTCGGGTCGGGTCTGATTAAGTCATTATTTTTATTAAA
66 ACCAGACCGACCCGAAAATATATATAATTCAGGTCGGGTCTGATTAAGTCACTATTTTCATTAAA
1014891 TAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGT
131 TAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGT
1014954 CGGATAAAAC
Statistics
Matches: 181, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
218 29 0.16
222 151 0.83
223 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (218 bp):
GTCGGATCGAGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAA
ACCAGACCGACCCGAAAATATATATAATTCAGGTCGGGTCTGATTAAGTCACTATTTTCATTAAA
TAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTTT
TTTAAGTGTGATATCCGGGTCGA
Found at i:1014981 original size:222 final size:220
Alignment explanation
Indices: 1014435--1015016 Score: 656
Period size: 222 Copynumber: 2.6 Consensus size: 220
1014425 ACTTATCATA
* * * *
1014435 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGGTTTTTAATTCATATATT
1 TATTAAATAAAAATAATTTTTTATTA-TT----TCGGGTCGGGTCGGATTTCTAATTCATATATT
* * *
1014500 CGGGTTGGGTCGGGTCGGGTGAAACTTTATTTT--GGT-AAGGTCGGATCGAGTTTTTTTAAGTG
61 C-----GGGTCGGGTCGGATAAAACTTTATTTTCGGGTCGAGGTCGGATCGAGTTTTTTTAAGTG
* * *
1014562 TGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATAT
121 TGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAAACCAGACCGACCCGAAAATATAT
*
1014627 ATAATTCAGGTCGGGTTGGATTAAGTCACTGTTTT
186 ATAATTCAGGTCGGGTTGGATTAAGTCACTATTTT
*
1014662 CATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGTTGGATTTCTAATTCATATATTC
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTC----GGATTTCTAATTCATATATTC
* ** ** * * * * * *
1014727 GGGTTGGGT--TTTTTAAGTGTGATATCCGGGTCGA-GTCGGGTCGGGTTTTTTTAAGTGTGATA
62 GGGTCGGGTCGGATAAAACT-TTATTTTCGGGTCGAGGTCGGATCGAGTTTTTTTAAGTGTGATA
*
1014789 TTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAAACCAGACTGACCCGAAAATATATATAAT
126 TTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAAACCAGACCGACCCGAAAATATATATAAT
* *
1014854 TCGGGTCGGGTCT-GATTAAGTCATTATTTT
191 TCAGGTCGGGT-TGGATTAAGTCACTATTTT
1014884 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
*
1014949 CGGGTCGGATAAAACTTTATTTT--GTTCG-GGTC-G---G-G-TTTTTTAAGTGTGATATTCGG
66 CGGGTCGGATAAAACTTTATTTTCGGGTCGAGGTCGGATCGAGTTTTTTTAAGTGTGATATTCGG
*
1015005 GTCGAGTCGGGT
131 GTCGGGTCGGGT
1015017 CGGGTTTTTT
Statistics
Matches: 307, Mismatches: 36, Indels: 40
0.80 0.09 0.10
Matches are distributed among these distances:
211 32 0.10
212 1 0.00
213 1 0.00
216 1 0.00
217 7 0.02
218 29 0.09
219 8 0.03
220 8 0.03
221 8 0.03
222 166 0.54
223 2 0.01
226 21 0.07
227 23 0.07
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (220 bp):
TATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
CGGGTCGGATAAAACTTTATTTTCGGGTCGAGGTCGGATCGAGTTTTTTTAAGTGTGATATTCGG
GTCGGGTCGGGTTCGAGTTTAGGATGAAAAAAACCAGACCGACCCGAAAATATATATAATTCAGG
TCGGGTTGGATTAAGTCACTATTTT
Found at i:1015065 original size:43 final size:38
Alignment explanation
Indices: 1014974--1015059 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
1014964 TTTATTTTGT
1014974 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
*
1015011 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGTGTC-AGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGA-G
1015049 TCGGGTCGGGT
1 TCGGGTCGGGT
1015060 CGGGTTCGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
37 11 0.24
38 35 0.76
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (38 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:1016386 original size:26 final size:28
Alignment explanation
Indices: 1016325--1016387 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
1016315 ATATAATAAA
1016325 ATTTAATAAAATAATAAATTATTAATTT
1 ATTTAATAAAATAATAAATTATTAATTT
* *
1016353 ATTATAATACAATAA-AATATT-TTACTTT
1 ATT-TAATAAAATAATAA-ATTATTAATTT
1016381 -TTTAATA
1 ATTTAATA
1016388 GAATTTGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 5 0.16
27 2 0.06
28 11 0.35
29 13 0.42
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTAATAAAATAATAAATTATTAATTT
Found at i:1019777 original size:46 final size:46
Alignment explanation
Indices: 1019724--1019818 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
1019714 CCATTCTTTG
* * *
1019724 AGTTGTAAAAATATTATTGACACGACTTTCTCTGAGTTATTTAATC
1 AGTTGTAAAAATATCATTGACACAACTTTCTCCGAGTTATTTAATC
*
1019770 AGTTGTAAAAATATCATTGACATAACTTTCTCCGAGTTATTTAATC
1 AGTTGTAAAAATATCATTGACACAACTTTCTCCGAGTTATTTAATC
1019816 AGT
1 AGT
1019819 CTCTTTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (46 bp):
AGTTGTAAAAATATCATTGACACAACTTTCTCCGAGTTATTTAATC
Found at i:1022128 original size:21 final size:21
Alignment explanation
Indices: 1022104--1022154 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1022094 TTAAGGGTAA
*
1022104 TATCGATACCTGTTGAAGAGG
1 TATCGATACCTATTGAAGAGG
1022125 TATCGATACCTATTGAAGAGG
1 TATCGATACCTATTGAAGAGG
1022146 TATCGATAC
1 TATCGATAC
1022155 TGTAAGGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (21 bp):
TATCGATACCTATTGAAGAGG
Found at i:1022827 original size:21 final size:21
Alignment explanation
Indices: 1022782--1022827 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1022772 GGGTTTAATG
* * * *
1022782 TGGTCTTTCGGGATAATTATG
1 TGGTCATTCGGGACAAATATA
1022803 TGGTCATTCGGGACAAATATA
1 TGGTCATTCGGGACAAATATA
1022824 TGGT
1 TGGT
1022828 ACTTCGGTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (21 bp):
TGGTCATTCGGGACAAATATA
Found at i:1022855 original size:23 final size:23
Alignment explanation
Indices: 1022828--1022905 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
1022818 AATATATGGT
*
1022828 ACTTCGGTGCAAACCTATTTGGC
1 ACTTCGGTGCAAACCTATGTGGC
1022851 ACTTCGGTGCAAACCTATGTGGTC
1 ACTTCGGTGCAAACCTATGTGG-C
* *
1022875 A-TTCGGGGC-AA-TTATGTGGC
1 ACTTCGGTGCAAACCTATGTGGC
1022895 ACTTCGGTGCA
1 ACTTCGGTGCA
1022906 GATTACGAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 2 0.04
21 14 0.29
22 2 0.04
23 28 0.58
24 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (23 bp):
ACTTCGGTGCAAACCTATGTGGC
Found at i:1028717 original size:20 final size:22
Alignment explanation
Indices: 1028663--1028722 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 22
1028653 TATAAAATTA
1028663 TTAAGGGTAGTATCGATACTTG
1 TTAAGGGTAGTATCGATACTTG
*
1028685 TTGAA--GAAGTATCGATAC-TG
1 TT-AAGGGTAGTATCGATACTTG
1028705 -TAAGGGTAGTATCGATAC
1 TTAAGGGTAGTATCGATAC
1028723 CTAAAGGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 14 0.42
21 12 0.36
22 2 0.06
23 2 0.06
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (22 bp):
TTAAGGGTAGTATCGATACTTG
Found at i:1028729 original size:20 final size:20
Alignment explanation
Indices: 1028692--1028741 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1028682 TTGTTGAAGA
* *
1028692 AGTATCGATACTGTAAGGGT
1 AGTATCGATACTGAAAGGAT
1028712 AGTATCGATACCT-AAAGGAT
1 AGTATCGATA-CTGAAAGGAT
*
1028732 GGTATCGATA
1 AGTATCGATA
1028742 TCATCTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTGAAAGGAT
Found at i:1029437 original size:21 final size:21
Alignment explanation
Indices: 1029345--1029446 Score: 57
Period size: 21 Copynumber: 4.8 Consensus size: 21
1029335 GTCGAGGGTT
* *
1029345 TTATGTGGTCATTCGGGATAA
1 TTATGTGGTCCTTCGGGACAA
* *
1029366 TTATGTAGTCATTCGGGACAA
1 TTATGTGGTCCTTCGGGACAA
* * * *
1029387 ATATTTAG-CACTTTGGTG-CAAA
1 TTATGTGGTC-CTTCGG-GAC-AA
*
1029409 CCTATGTGGTCCTTCGGGACAA
1 -TTATGTGGTCCTTCGGGACAA
1029431 TTATGTGG-CACTTCGG
1 TTATGTGGTC-CTTCGG
1029447 TGGAAATTAC
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.03
21 43 0.68
22 6 0.10
23 11 0.17
24 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGACAA
Found at i:1033000 original size:21 final size:21
Alignment explanation
Indices: 1032936--1033000 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
1032926 AAAACCCGAC
1032936 GGATGTATCGATGCACATTCAA
1 GGATGTATCGATGCACATTC-A
* *
1032958 GGAGTGCATCGGTGCATC-TTCA
1 GGA-TGTATCGATGCA-CATTCA
*
1032980 TGATGTATCGATGCACATTCA
1 GGATGTATCGATGCACATTCA
1033001 AAGGGATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.40
22 6 0.17
23 13 0.37
24 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (21 bp):
GGATGTATCGATGCACATTCA
Found at i:1033032 original size:45 final size:44
Alignment explanation
Indices: 1032937--1033037 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 44
1032927 AAACCCGACG
* ** *
1032937 GATGTATCGATGCACATTCAAGGAGTGCATCGGTGCATCTTCAT
1 GATGTATCGATGCACATTCAAGGAGTACATCGACGCAGCTTCAT
1032981 GATGTATCGATGCACATTCAAAGG-GATACATCGACGCAGCTTCAT
1 GATGTATCGATGCACATTC-AAGGAG-TACATCGACGCAGCTTCAT
1033026 -AGTGTATCGATG
1 GA-TGTATCGATG
1033038 AATTATGCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 21 0.42
45 29 0.58
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
GATGTATCGATGCACATTCAAGGAGTACATCGACGCAGCTTCAT
Found at i:1038832 original size:20 final size:20
Alignment explanation
Indices: 1038807--1038848 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1038797 TGTATCGGTA
1038807 CACTGGGGTGTGCATAGGTG
1 CACTGGGGTGTGCATAGGTG
*
1038827 CACTGGGGTGTGCATCGGTG
1 CACTGGGGTGTGCATAGGTG
1038847 CA
1 CA
1038849 TAAATCTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.43, T:0.24
Consensus pattern (20 bp):
CACTGGGGTGTGCATAGGTG
Found at i:1038968 original size:65 final size:64
Alignment explanation
Indices: 1038835--1039023 Score: 208
Period size: 65 Copynumber: 2.9 Consensus size: 64
1038825 TGCACTGGGG
* *
1038835 TGTGCATCGGTGCAT-AAATCTACTTCGATATTTTGA-AATAGC-TGGGGTGCATCGATGCATGG
1 TGTGCATCGGTGCATAAAATC-AATTCGATATTTTAATAATA-CAT-GGGTGCATCGATGCATGG
1038897 CT
63 CT
1038899 TGTGCATCGGTGCATAAAATCAATTCGATATTTTAATAATACATGGAGTGCATCGATGCATGG-T
1 TGTGCATCGGTGCATAAAATCAATTCGATATTTTAATAATACATGG-GTGCATCGATGCATGGCT
* * * * * * *
1038963 ATGTGCATCGGTACACAAAATCTATTCGAT-GTTCAATTAAAACAAGGGTGCATCGATGCAT
1 -TGTGCATCGGTGCATAAAATCAATTCGATATTTTAA-TAATACATGGGTGCATCGATGCAT
1039024 TGATTTATGC
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
64 50 0.45
65 60 0.55
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (64 bp):
TGTGCATCGGTGCATAAAATCAATTCGATATTTTAATAATACATGGGTGCATCGATGCATGGCT
Found at i:1039035 original size:65 final size:64
Alignment explanation
Indices: 1038879--1039043 Score: 197
Period size: 65 Copynumber: 2.5 Consensus size: 64
1038869 GAAATAGCTG
* * * * * * *
1038879 GGGTGCATCGATGCATGGCTTGTGCATCGGTGCATAAAATCAATTCGATATTTTAATAATACAT
1 GGGTGCATCGATGCATGGTTTGTGCATCGGTACACAAAATCAATTCGATAGTTCAATAAAACAA
* *
1038943 GGAGTGCATCGATGCATGGTATGTGCATCGGTACACAAAATCTATTCGAT-GTTCAATTAAAACA
1 GG-GTGCATCGATGCATGGTTTGTGCATCGGTACACAAAATCAATTCGATAGTTCAA-TAAAACA
1039007 A
64 A
* *
1039008 GGGTGCATCGATGCATTGATTTATGCATCGGTACAC
1 GGGTGCATCGATGCA-TGGTTTGTGCATCGGTACAC
1039044 TTACCTAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 19 0.22
65 67 0.78
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
GGGTGCATCGATGCATGGTTTGTGCATCGGTACACAAAATCAATTCGATAGTTCAATAAAACAA
Found at i:1040604 original size:16 final size:16
Alignment explanation
Indices: 1040583--1040616 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1040573 TTCTCTGTGG
1040583 GCGTCGTCGGCTTAAT
1 GCGTCGTCGGCTTAAT
1040599 GCGTCGTCGGCTTAAT
1 GCGTCGTCGGCTTAAT
1040615 GC
1 GC
1040617 ATCGACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.29
Consensus pattern (16 bp):
GCGTCGTCGGCTTAAT
Found at i:1042959 original size:54 final size:54
Alignment explanation
Indices: 1042877--1043296 Score: 578
Period size: 54 Copynumber: 7.8 Consensus size: 54
1042867 GTACTATAGA
* * *
1042877 CACTATGTGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACCGTTCATG
1 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGTTCAGG
* **
1042931 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAAAAATTGTTCAGG
1 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGTTCAGG
* * * *
1042985 CACTAGGTGTGCAACCCACAAAATTCATCATAAATTAATGAACAACCGTTCAGG
1 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGTTCAGG
1043039 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGTTCAGG
1 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGTTCAGG
* *
1043093 CTCTAAGTGTGCAACCTACTA-AATTCATCATAAGTTGATGAACAACCGTTCAGG
1 CACTAAGTGTGCAACCCAC-AGAATTCATCATAAGTTGATGAACAACCGTTCAGG
** * *
1043147 CACTAAGTGTGCTGCCCATAGAATTCATCATAAGTTGATAAACAACCGTTCAGG
1 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGTTCAGG
**
1043201 CACTAAGTGTGCAACCCACAGAATTCATCATGTGTTGATGAACAACCGTAT-AGG
1 CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGT-TCAGG
** * *
1043255 CACTCTGTGTGCGAA-CCA-AGAAATTCATAATAAGTTTATGAA
1 CACTAAGTGTGC-AACCCACAG-AATTCATCATAAGTTGATGAA
1043297 TTTCCGCATG
Statistics
Matches: 324, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
53 3 0.01
54 317 0.98
55 4 0.01
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (54 bp):
CACTAAGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGTTCAGG
Found at i:1042964 original size:27 final size:27
Alignment explanation
Indices: 1042883--1042965 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
1042873 TAGACACTAT
*
1042883 GTGTGCAACCCACGGAATTCATCATAA
1 GTGTGCAACCCACAGAATTCATCATAA
* *
1042910 GTTGATG-AA-CAACCG--TTCATGCACTAA
1 G-TG-TGCAACCCACAGAATTCAT-CA-TAA
1042937 GTGTGCAACCCACAGAATTCATCATAA
1 GTGTGCAACCCACAGAATTCATCATAA
1042964 GT
1 GT
1042966 TGATGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
25 7 0.16
26 6 0.14
27 18 0.41
28 6 0.14
29 7 0.16
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (27 bp):
GTGTGCAACCCACAGAATTCATCATAA
Found at i:1043337 original size:56 final size:56
Alignment explanation
Indices: 1043272--1043379 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
1043262 TGTGCGAACC
1043272 AAGAAATTCATAATAAGTTTATGAATTTCCGCATGGACACTATGTGTACAAAAACT
1 AAGAAATTCATAATAAGTTTATGAATTTCCGCATGGACACTATGTGTACAAAAACT
* *
1043328 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATGTGTACAAA
1 AAGAAATTCATAATAAGTTTATGAATTTCCGCATGGACACTATGTGTACAAA
1043380 CTATAGAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (56 bp):
AAGAAATTCATAATAAGTTTATGAATTTCCGCATGGACACTATGTGTACAAAAACT
Found at i:1043575 original size:45 final size:45
Alignment explanation
Indices: 1043487--1043575 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
1043477 GCATTAAATA
* * * *
1043487 CATGAAAGGATGCCATAAATGAAATTCATAACAGTTCATTAAAGG
1 CATGAAAGGATGCCATAAATGAAAATAATAACAATTCACTAAAGG
* *
1043532 CATGAAAGGATGCCCTAAATGAAAATAATGAATAATT-ACTAAAG
1 CATGAAAGGATGCCATAAATGAAAATAAT-AACAATTCACTAAAG
1043576 AATAATGGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 32 0.86
46 5 0.14
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (45 bp):
CATGAAAGGATGCCATAAATGAAAATAATAACAATTCACTAAAGG
Found at i:1046141 original size:17 final size:17
Alignment explanation
Indices: 1046116--1046148 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1046106 TCTTTTCAAG
*
1046116 TTTTCATTTTTATTTTA
1 TTTTAATTTTTATTTTA
1046133 TTTTAATTTTTATTTT
1 TTTTAATTTTTATTTT
1046149 TAAACATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTAATTTTTATTTTA
Found at i:1048051 original size:31 final size:31
Alignment explanation
Indices: 1048015--1048073 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1048005 AACTTAAAAG
* *
1048015 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1048046 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1048074 CATACAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1048418 original size:22 final size:23
Alignment explanation
Indices: 1048393--1048437 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1048383 TTATATTTTA
1048393 AAATC-TTAATTATTAAACAATG
1 AAATCATTAATTATTAAACAATG
** *
1048415 AAATCATTTTTTATTAAGCAATG
1 AAATCATTAATTATTAAACAATG
1048438 TGGTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (23 bp):
AAATCATTAATTATTAAACAATG
Found at i:1048574 original size:20 final size:20
Alignment explanation
Indices: 1048526--1048587 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
1048516 AACTTAAATC
*
1048526 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
1048546 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
1048564 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
1048583 AAAAT
1 AAAAT
1048588 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:1048663 original size:63 final size:63
Alignment explanation
Indices: 1048582--1048736 Score: 226
Period size: 63 Copynumber: 2.5 Consensus size: 63
1048572 TTATATGATA
**
1048582 TAAAATTAAATATCTATAATATAATATTAAAATTTAATATTTAATTTATTTAAAAAATCAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATAATATTTAATTTATTTAAAAAATCAATAT
* * *
1048646 TAAAATTAATTTTTATAATATAATATTAAAAAATAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATAATATTTAATTTATTTAAAAAATCAATAT
*
1048709 TAAAATTAAAATC-A-AATATAATA-TAAAA
1 TAAAATTAATATCTATAATATAATATTAAAA
1048737 TTAAATATAA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
60 5 0.06
61 9 0.11
62 1 0.01
63 61 0.73
64 7 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (63 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATAATATTTAATTTATTTAAAAAATCAATAT
Found at i:1048743 original size:12 final size:12
Alignment explanation
Indices: 1048698--1048748 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
1048688 ATTTATTTAA
1048698 AAAATT-AATATT
1 AAAATTAAATA-T
1048710 AAAATTAAA-AT
1 AAAATTAAATAT
*
1048721 CAAA-TATAATAT
1 AAAATTA-AATAT
1048733 AAAATTAAATAT
1 AAAATTAAATAT
1048745 AAAA
1 AAAA
1048749 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:1060280 original size:2 final size:2
Alignment explanation
Indices: 1060273--1060298 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1060263 CAAGTAGTTG
1060273 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
1060299 GTGTATGATG
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:1061560 original size:28 final size:28
Alignment explanation
Indices: 1061493--1061562 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
1061483 CAATTGAATG
*
1061493 ATGCCACGTGTCATTGGTGCCATGTATC
1 ATGCCACGTGTCACTGGTGCCATGTATC
*
1061521 ATGCCACATGTCACTGGTGCCATGTATC
1 ATGCCACGTGTCACTGGTGCCATGTATC
*
1061549 ATGCCATGTGTCAC
1 ATGCCACGTGTCAC
1061563 CATTCGATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (28 bp):
ATGCCACGTGTCACTGGTGCCATGTATC
Found at i:1064633 original size:13 final size:13
Alignment explanation
Indices: 1064611--1064665 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
1064601 TCTATATAAA
1064611 CAATTAATCAAAT
1 CAATTAATCAAAT
*
1064624 CAATTTATCAAAT
1 CAATTAATCAAAT
* * *
1064637 TAACTAACCAAAT
1 CAATTAATCAAAT
* *
1064650 CAGTTGATCAAAT
1 CAATTAATCAAAT
1064663 CAA
1 CAA
1064666 CTACTGAAAT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (13 bp):
CAATTAATCAAAT
Found at i:1064679 original size:26 final size:26
Alignment explanation
Indices: 1064619--1064668 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1064609 AACAATTAAT
* * *
1064619 CAAATCAATTTATCAAATTAACTAAC
1 CAAATCAGTTGATCAAATCAACTAAC
1064645 CAAATCAGTTGATCAAATCAACTA
1 CAAATCAGTTGATCAAATCAACTA
1064669 CTGAAATCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (26 bp):
CAAATCAGTTGATCAAATCAACTAAC
Found at i:1065389 original size:14 final size:14
Alignment explanation
Indices: 1065370--1065425 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
1065360 CGTTCGTGAA
1065370 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
1065384 CGTTCGGTTATG-T
1 CGTTCGATTATGTT
*
1065397 --TT-GTTTATGTT
1 CGTTCGATTATGTT
1065408 CGTTCGATTATGTT
1 CGTTCGATTATGTT
1065422 CGTT
1 CGTT
1065426 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:1065404 original size:24 final size:24
Alignment explanation
Indices: 1065377--1065446 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
1065367 GAACGTTCGA
*
1065377 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
1065401 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
1065425 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
1065447 AACTCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:1066185 original size:10 final size:10
Alignment explanation
Indices: 1066170--1066244 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
1066160 GGGTCTCCAA
1066170 CGTTTATGTT
1 CGTTTATGTT
1066180 CGTTTATGTT
1 CGTTTATGTT
1066190 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
1066201 ATGTTCGTGTT
1 -CGTTTATGTT
1066212 CGTTTATGTT
1 CGTTTATGTT
1066222 CG----TGTT
1 CGTTTATGTT
1066228 CGTTTATGTT
1 CGTTTATGTT
1066238 CGTTTAT
1 CGTTTAT
1066245 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:1066201 original size:16 final size:16
Alignment explanation
Indices: 1066176--1066240 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
1066166 CCAACGTTTA
1066176 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1066192 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
1066208 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1066224 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1066240 T
1 T
1066241 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1074277 original size:89 final size:88
Alignment explanation
Indices: 1074127--1074299 Score: 301
Period size: 89 Copynumber: 2.0 Consensus size: 88
1074117 ACACACCCTT
*
1074127 TTATAGCCAAGTTACCTTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
1074192 ATTAATTGGAATTTAATATCCTC
66 ATTAATTGAAATTAAATATCCTC
*
1074215 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
1074280 AATTAATTGAAATTAAATAT
65 AATTAATTGAAATTAAATAT
1074300 TCAGGATTAT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
88 29 0.36
89 51 0.64
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (88 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATATCCTC
Found at i:1081344 original size:14 final size:13
Alignment explanation
Indices: 1081290--1081336 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
1081280 TATTTAGTAC
*
1081290 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
1081303 TGTTTATTGGACT
1 TTTTTATTGTAAT
1081316 TTTTTATTGTAAT
1 TTTTTATTGTAAT
1081329 TTTTTATT
1 TTTTTATT
1081337 TATCATTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:1084935 original size:13 final size:13
Alignment explanation
Indices: 1084917--1084941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1084907 TAATCGAGAG
1084917 GAGATGTGAGGAA
1 GAGATGTGAGGAA
1084930 GAGATGTGAGGA
1 GAGATGTGAGGA
1084942 GTTACCCCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.48, T:0.16
Consensus pattern (13 bp):
GAGATGTGAGGAA
Found at i:1085912 original size:77 final size:78
Alignment explanation
Indices: 1085773--1085919 Score: 188
Period size: 77 Copynumber: 1.9 Consensus size: 78
1085763 GATTTTTTTA
* * * * *
1085773 TAATAAAAATATTAACATTTCAGATCACAACTTACTTTCTTAGTGAACCATAATATTTTTGGGCG
1 TAATAAAAATATTAACATTCCAAATCACAACATACTTTCTTAGTGAACCATAACATTCTTGGGCG
1085838 CAACCCATTTGAT
66 CAACCCATTTGAT
* * ** * *
1085851 TAATAAAAATATTAATATTCCAAATCGCAACATA-TTTCTTAGTGAATTATGACATTCTTGGGTG
1 TAATAAAAATATTAACATTCCAAATCACAACATACTTTCTTAGTGAACCATAACATTCTTGGGCG
1085915 CAACC
66 CAACC
1085920 GTATTTCTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
77 29 0.50
78 29 0.50
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (78 bp):
TAATAAAAATATTAACATTCCAAATCACAACATACTTTCTTAGTGAACCATAACATTCTTGGGCG
CAACCCATTTGAT
Found at i:1086352 original size:259 final size:261
Alignment explanation
Indices: 1085768--1086390 Score: 719
Period size: 259 Copynumber: 2.4 Consensus size: 261
1085758 CTTTCGATTT
* * * *
1085768 TTTTA-TAATAAAAATATTAACATTTCAGATCACAACTTA-CTTTCTTAGTGAACCATAATATTT
1 TTTTATTAATAAAAATATTAACATTTCATATCACAA-TTATC-TTCTGAGTGAACCATAACATTC
* *
1085831 TTGGGCGCAACCCATTTGATTAATAAAAATATTAATATTCCAAATCGCAACATATTTCTTAGTGA
64 TTGGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAATCGCAACATATTTCTTAGTGA
** * * ** *
1085896 ATTATGACATTCTTGGGTGCAACCGTATTTCTTATATATAATTATAACATTTTAAGCTTTAACTT
129 ACCATGAAATTCTTCGACGCAACCGTATTTCTTATATATAA-TATAACAGTTTAAGCTTTAACTT
* ***** *
1085961 ATTTTCTTATCGTGGGAAAATCCAAGGCATTGTCGGCTTAAACTCTGATAATATTTTAGGCACAA
193 ATTTTCTTATCGTGGAAAAATCCAAGGCATCAAAAGCTTAAACTCTGATAACATTTTAGGCACAA
*
1086026 CTCA
258 CCCA
* * *
1086030 TTTTATTAATAAAAATATTAATATTTCATATCTCAATCTAT-TTCTGAGTGAACTATAACATTCT
1 TTTTATTAATAAAAATATTAACATTTCATATCACAAT-TATCTTCTGAGTGAACCATAACATTCT
* * *
1086094 TGGACACAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAA
65 TGGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAATCGCAACATATTTCTTAGTGAA
* **
1086159 CCATGATAATT-TTCGACGCAATCGTATTTCTTA-AT-T-A-ATAACAGTTTCTGCTTTTAAACT
130 CCATGA-AATTCTTCGACGCAACCGTATTTCTTATATATAATATAACAGTTTAAGC-TTT-AACT
* * * *
1086219 TATTTTCTTATCGTGGAAAAATCTAAGGC-TCCAAAAGCTTAAATTTTGATAACATTTTAGGCGC
192 TATTTTCTTATCGTGGAAAAATCCAAGGCAT-CAAAAGCTTAAACTCTGATAACATTTTAGGCAC
1086283 AACCCA
256 AACCCA
* * * *
1086289 TTTTATTAATGAGAATATTAACATTCCATATCACAATATATCTT-TGAGTGAACCATGACATTCT
1 TTTTATTAATAAAAATATTAACATTTCATATCACAAT-TATCTTCTGAGTGAACCATAACATTCT
* **
1086353 TGGGCGTAACATATTTTATTAAT-AAAATATTAACATTC
65 TGGGCGCAACCCATTTTATTAATAAAAATATTAACATTC
1086391 TATATCACGA
Statistics
Matches: 306, Mismatches: 47, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
257 11 0.04
258 19 0.06
259 132 0.43
260 3 0.01
261 2 0.01
262 107 0.35
263 32 0.10
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (261 bp):
TTTTATTAATAAAAATATTAACATTTCATATCACAATTATCTTCTGAGTGAACCATAACATTCTT
GGGCGCAACCCATTTTATTAATAAAAATATTAACATTCCAAATCGCAACATATTTCTTAGTGAAC
CATGAAATTCTTCGACGCAACCGTATTTCTTATATATAATATAACAGTTTAAGCTTTAACTTATT
TTCTTATCGTGGAAAAATCCAAGGCATCAAAAGCTTAAACTCTGATAACATTTTAGGCACAACCC
A
Found at i:1088309 original size:18 final size:18
Alignment explanation
Indices: 1088286--1088330 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1088276 GTAAAATAAA
* *
1088286 TCAACGGTTGGTCAACAT
1 TCAACGGCTGGTCAACAG
*
1088304 TCAACGCCTGGTCAACAG
1 TCAACGGCTGGTCAACAG
1088322 TCAACGGCT
1 TCAACGGCT
1088331 TACCCAGGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (18 bp):
TCAACGGCTGGTCAACAG
Found at i:1095061 original size:16 final size:17
Alignment explanation
Indices: 1095040--1095091 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
1095030 CAACTAATTT
1095040 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
1095056 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
1095071 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
1095088 AATT
1 AATT
1095092 TATTTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:1102440 original size:35 final size:35
Alignment explanation
Indices: 1102397--1102515 Score: 132
Period size: 36 Copynumber: 3.3 Consensus size: 35
1102387 ATCAAGCTGA
1102397 TAATTCCTTATATAGGTTCAACACCGATCAGTTGG
1 TAATTCCTTATATAGGTTCAACACCGATCAGTTGG
** * ** *
1102432 CGATTCCTTATTACAGGTTCAA-ATATGATCAATTTGG
1 TAATTCCTTA-TATAGGTTCAACA-CCGATC-AGTTGG
* *
1102469 TAATTCCTTATGTAGGTTCAACACCGATCAGCTGG
1 TAATTCCTTATATAGGTTCAACACCGATCAGTTGG
1102504 TAATTCCTTATA
1 TAATTCCTTATA
1102516 GACCTAAGGC
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
35 24 0.37
36 27 0.42
37 14 0.22
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (35 bp):
TAATTCCTTATATAGGTTCAACACCGATCAGTTGG
Found at i:1104332 original size:44 final size:46
Alignment explanation
Indices: 1104211--1104337 Score: 177
Period size: 48 Copynumber: 2.8 Consensus size: 46
1104201 TATAAAATCC
1104211 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAAAAATA
** *
1104257 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTA-CCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTATCAAAAATA
* *
1104304 CTTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1104338 GTATGCTTAC
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
44 24 0.32
46 12 0.16
47 11 0.15
48 27 0.36
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (46 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAAAAATA
Found at i:1119057 original size:29 final size:30
Alignment explanation
Indices: 1118975--1119057 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
1118965 CCATATTGCA
* * *
1118975 AAACTTTTTAAAA-TTACAATTTGGTCCCT
1 AAACTTTTCAAAATTTACAATTTGATCACT
* * *
1119004 AAACTTTTTCAAAGTTTATACTTTGATCACT
1 AAAC-TTTTCAAAATTTACAATTTGATCACT
*
1119035 AAAC-TTTCAAAATTTACATTTTG
1 AAACTTTTCAAAATTTACAATTTG
1119058 GTTACTAGAC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 20 0.47
30 7 0.16
31 16 0.37
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (30 bp):
AAACTTTTCAAAATTTACAATTTGATCACT
Found at i:1120577 original size:72 final size:72
Alignment explanation
Indices: 1120460--1120600 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
1120450 AAGTCTCTTT
* *
1120460 AGGTTCAGTTCTGATCAAGCTTGTAATTCCTTATATAGGTTCAACACCAATCAACTTGTAATTCC
1 AGGTTCAGTTCTGACCAAGCTTGTAATTCCTTATATAGGTTCAACACCAATCAACTGGTAATTCC
1120525 TTATTGC
66 TTATTGC
* * * *
1120532 AGGTTTAGTTCTGACCAAGC-TGTTAATTCTTTATATAGGTTCAACATCGATCAACTGGTAATTC
1 AGGTTCAGTTCTGACCAAGCTTG-TAATTCCTTATATAGGTTCAACACCAATCAACTGGTAATTC
1120596 CTTAT
65 CTTAT
1120601 GGACTTATGG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
71 2 0.03
72 60 0.97
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (72 bp):
AGGTTCAGTTCTGACCAAGCTTGTAATTCCTTATATAGGTTCAACACCAATCAACTGGTAATTCC
TTATTGC
Found at i:1120595 original size:35 final size:36
Alignment explanation
Indices: 1120472--1120600 Score: 113
Period size: 35 Copynumber: 3.6 Consensus size: 36
1120462 GTTCAGTTCT
* *
1120472 GATCAAGCTTGTAATTCCTTATATAGGTTCAACACC
1 GATCAAGCTGGTAATTCCTTATATAGGTTCAACATC
* * * **
1120508 AATCAA-CTTGTAATTCCTTAT-TGCAGGTT-TAGTTC
1 GATCAAGCTGGTAATTCCTTATAT--AGGTTCAACATC
* * *
1120543 TGACCAAGCTGTTAATTCTTTATATAGGTTCAACATC
1 -GATCAAGCTGGTAATTCCTTATATAGGTTCAACATC
1120580 GATCAA-CTGGTAATTCCTTAT
1 GATCAAGCTGGTAATTCCTTAT
1120601 GGACTTATGG
Statistics
Matches: 71, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
34 1 0.01
35 30 0.42
36 24 0.34
37 15 0.21
38 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (36 bp):
GATCAAGCTGGTAATTCCTTATATAGGTTCAACATC
Found at i:1122982 original size:35 final size:34
Alignment explanation
Indices: 1122925--1122997 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
1122915 TAATAATATG
* * *
1122925 TATTTTATTTAATAATTCTTTTATATGATATCATT
1 TATTTTATCTAATAAATATTTTAT-TGATATCATT
* * *
1122960 TATTTTATCTATTAAATATTTTATTTATATTATT
1 TATTTTATCTAATAAATATTTTATTGATATCATT
1122994 TATT
1 TATT
1122998 ACCTCATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 12 0.38
35 20 0.62
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (34 bp):
TATTTTATCTAATAAATATTTTATTGATATCATT
Found at i:1127847 original size:22 final size:22
Alignment explanation
Indices: 1127815--1127860 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1127805 CCGAAGTAAC
* *
1127815 ATTCATAATAAACATTATATAT
1 ATTCATAATAAAAATCATATAT
*
1127837 ATTCATGATAAAAATCATATAT
1 ATTCATAATAAAAATCATATAT
1127859 AT
1 AT
1127861 AATAACCATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTCATAATAAAAATCATATAT
Found at i:1132989 original size:35 final size:35
Alignment explanation
Indices: 1132880--1133006 Score: 105
Period size: 35 Copynumber: 3.6 Consensus size: 35
1132870 CTGTTTCAAC
* * * *
1132880 TCGATTAAACTAGTAATT-CTTATATAGTTTCAGA
1 TCGATCAAACTGGTAATTCCTTATATAGGTTCCGA
* * * * * * *
1132914 CCAATCGAACTGGTAATTCATTACGACAGGTT-CAA
1 TCGATCAAACTGGTAATTCCTTA-TATAGGTTCCGA
1132949 CTCGATCAAACTGGTAATTCCTTATATAGGTTCCGA
1 -TCGATCAAACTGGTAATTCCTTATATAGGTTCCGA
* *
1132985 TCGATCGAATTGGTAATTCCTT
1 TCGATCAAACTGGTAATTCCTT
1133007 GACCCTTGGG
Statistics
Matches: 69, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
34 13 0.19
35 30 0.43
36 26 0.38
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (35 bp):
TCGATCAAACTGGTAATTCCTTATATAGGTTCCGA
Found at i:1137386 original size:71 final size:70
Alignment explanation
Indices: 1137269--1137406 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 70
1137259 AGTCTCTATT
*
1137269 GGTTCAGCTCGATCAAACTGGTAATTCTTATATAGCTTCAGATCGATCGAATTAGTAATTCCTTA
1 GGTTCAGCTCGATCAAACTGGTAATTCTTATATAGCTTCAGATCGATCGAACTAGTAATTCCTTA
1137334 CGACA
66 CGACA
* * *
1137339 GGTTCAGCTC-AGTCAAGCTGGTAATTCCTTATATAGGTTCAGATCGATCGAACTGGTAATTCCT
1 GGTTCAGCTCGA-TCAAACTGGTAATT-CTTATATAGCTTCAGATCGATCGAACTAGTAATTCCT
1137403 TACG
64 TACG
1137407 GATCTAAGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 1 0.02
70 23 0.37
71 38 0.61
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (70 bp):
GGTTCAGCTCGATCAAACTGGTAATTCTTATATAGCTTCAGATCGATCGAACTAGTAATTCCTTA
CGACA
Found at i:1137395 original size:35 final size:35
Alignment explanation
Indices: 1137269--1137404 Score: 152
Period size: 35 Copynumber: 3.9 Consensus size: 35
1137259 AGTCTCTATT
* *
1137269 GGTTCAGCTCGATCAAACTGGTAATT-CTTATATA
1 GGTTCAGATCGATCGAACTGGTAATTCCTTATATA
* * * * *
1137303 GCTTCAGATCGATCGAATTAGTAATTCCTTACGACA
1 GGTTCAGATCGATCGAACTGGTAATTCCTTA-TATA
*
1137339 GGTTCAGCTC-AGTC-AAGCTGGTAATTCCTTATATA
1 GGTTCAGATCGA-TCGAA-CTGGTAATTCCTTATATA
1137374 GGTTCAGATCGATCGAACTGGTAATTCCTTA
1 GGTTCAGATCGATCGAACTGGTAATTCCTTA
1137405 CGGATCTAAG
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
34 21 0.26
35 34 0.41
36 27 0.33
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (35 bp):
GGTTCAGATCGATCGAACTGGTAATTCCTTATATA
Done.