Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 325 of 349
Found at i:108080413 original size:3 final size:3
Alignment explanation
Indices: 108080359--108080397 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
108080349 AAAGTAACTT
*
108080359 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA -AGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
108080398 AATGAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:108083250 original size:134 final size:134
Alignment explanation
Indices: 108083010--108083280 Score: 542
Period size: 134 Copynumber: 2.0 Consensus size: 134
108083000 AACAAATCCC
108083010 TTTAATTATAGGCTAAATAATAGAAAGATAGTTTTACTAGTACTTTTAGTCCTCGTGGATACGAT
1 TTTAATTATAGGCTAAATAATAGAAAGATAGTTTTACTAGTACTTTTAGTCCTCGTGGATACGAT
108083075 ATTTTGAGACTCACTATAGCTATACTACTAATCGATAGGTGCGTTTGCCTTAGTCAAAATATTAG
66 ATTTTGAGACTCACTATAGCTATACTACTAATCGATAGGTGCGTTTGCCTTAGTCAAAATATTAG
108083140 TTAG
131 TTAG
108083144 TTTAATTATAGGCTAAATAATAGAAAGATAGTTTTACTAGTACTTTTAGTCCTCGTGGATACGAT
1 TTTAATTATAGGCTAAATAATAGAAAGATAGTTTTACTAGTACTTTTAGTCCTCGTGGATACGAT
108083209 ATTTTGAGACTCACTATAGCTATACTACTAATCGATAGGTGCGTTTGCCTTAGTCAAAATATTAG
66 ATTTTGAGACTCACTATAGCTATACTACTAATCGATAGGTGCGTTTGCCTTAGTCAAAATATTAG
108083274 TTAG
131 TTAG
108083278 TTT
1 TTT
108083281 CATGACCTAC
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 137 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (134 bp):
TTTAATTATAGGCTAAATAATAGAAAGATAGTTTTACTAGTACTTTTAGTCCTCGTGGATACGAT
ATTTTGAGACTCACTATAGCTATACTACTAATCGATAGGTGCGTTTGCCTTAGTCAAAATATTAG
TTAG
Found at i:108085328 original size:3 final size:3
Alignment explanation
Indices: 108085315--108085388 Score: 52
Period size: 3 Copynumber: 25.7 Consensus size: 3
108085305 CTTAACCCTT
*
108085315 TTA TGA TTA TTA TTGA TTA TTA -TA TT- TTA TT- TCT- TTA TTA TTTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA
* *
108085359 TTA AT- TTA TTG TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
108085389 TATTTATTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
2 9 0.16
3 42 0.74
4 6 0.11
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:108085354 original size:28 final size:26
Alignment explanation
Indices: 108085321--108085402 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 26
108085311 CCTTTTATGA
108085321 TTATTATTGATTATTATATTTTATTTCT
1 TTATTATT-ATTATT-TATTTTATTTCT
*
108085349 TTATTATTTATTAATTTATTGTTA-TT-A
1 TTATTA-TTATT-ATTTATT-TTATTTCT
108085376 TTATTATT-TTATTTA-TTTATTTCT
1 TTATTATTATTATTTATTTTATTTCT
108085400 TTA
1 TTA
108085403 CTACTATTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
22 3 0.06
23 3 0.06
24 8 0.17
25 2 0.04
26 2 0.04
27 6 0.13
28 15 0.32
29 8 0.17
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (26 bp):
TTATTATTATTATTTATTTTATTTCT
Found at i:108087093 original size:5 final size:5
Alignment explanation
Indices: 108087083--108087119 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
108087073 CCATTGAGTC
108087083 TATTT TATTT TATTT TATTT TATTT TATTTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TA-TTT TATTT T
108087120 TCTTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:108087103 original size:15 final size:16
Alignment explanation
Indices: 108087083--108087132 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
108087073 CCATTGAGTC
108087083 TATTTTATTTTA-TTT
1 TATTTTATTTTATTTT
108087098 TATTTTATTTTATTTT
1 TATTTTATTTTATTTT
*
108087114 TATTTT-TCTTATTATT
1 TATTTTATTTTATT-TT
108087130 TAT
1 TAT
108087133 ATTTTCCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 18 0.56
16 14 0.44
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTATTTTATTTT
Found at i:108092624 original size:12 final size:12
Alignment explanation
Indices: 108092607--108092645 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
108092597 AAGCAAACCA
108092607 TAAATAGTTAAT
1 TAAATAGTTAAT
108092619 TAAATAGTTAAT
1 TAAATAGTTAAT
*
108092631 TAAATAGTTACT
1 TAAATAGTTAAT
108092643 TAA
1 TAA
108092646 GGTTGAGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (12 bp):
TAAATAGTTAAT
Found at i:108094320 original size:20 final size:20
Alignment explanation
Indices: 108094295--108094341 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
108094285 GGACTCGCAT
108094295 GCCCATGTATCATGGGGCAC
1 GCCCATGTATCATGGGGCAC
108094315 GCCCATGTATCATGGGGCAC
1 GCCCATGTATCATGGGGCAC
108094335 GCCCATG
1 GCCCATG
108094342 CCCTTCAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (20 bp):
GCCCATGTATCATGGGGCAC
Found at i:108097994 original size:19 final size:20
Alignment explanation
Indices: 108097970--108098014 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
108097960 AGATTTATTT
108097970 AATTAAAATATAG-TAATTA
1 AATTAAAATATAGTTAATTA
108097989 AATTAAAATATAGTTAATTA
1 AATTAAAATATAGTTAATTA
*
108098009 AGTTAA
1 AATTAA
108098015 TTGGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
AATTAAAATATAGTTAATTA
Found at i:108101224 original size:55 final size:55
Alignment explanation
Indices: 108101152--108101277 Score: 216
Period size: 55 Copynumber: 2.3 Consensus size: 55
108101142 TTTAGATAGT
*
108101152 TGAGATTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
1 TGAGACTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
* * *
108101207 TGCGACTGAAAGGGTATTATGTTGCGTAAACATTTAGTGAACTTGTGTTGAGCAG
1 TGAGACTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
108101262 TGAGACTGAAAGGGTA
1 TGAGACTGAAAGGGTA
108101278 ACTTAGGTAG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.32
Consensus pattern (55 bp):
TGAGACTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
Found at i:108108318 original size:40 final size:40
Alignment explanation
Indices: 108108183--108108362 Score: 168
Period size: 41 Copynumber: 4.4 Consensus size: 40
108108173 ATTCGATATC
* * * **
108108183 TCGCACACCAAGTGCCAAAGCATAGCCGAAGCTATTATAAT
1 TCGCACACTAAGTGCCATA-TATAGCCGAAGCTATTCCAAT
* * *
108108224 CTCGCACACTAAATGCC-TTTCATAGCCGAAGCT-TTCTCAACC
1 -TCGCACACTAAGTGCCATAT-ATAGCCGAAGCTATTC-CAA-T
*
108108266 TCGCAAACTAAGTGCCATATATAGCCGAAGCTATTCCAAT
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCCAAT
** * *
108108306 TCGCACACTAAGTGCTTTATATAGTCGAAGCTATCTCGAAT
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCAAT
108108347 T-GCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
108108363 AACATAGTCG
Statistics
Matches: 113, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
40 45 0.40
41 49 0.43
42 19 0.17
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCCAAT
Found at i:108110016 original size:152 final size:152
Alignment explanation
Indices: 108109815--108110184 Score: 420
Period size: 152 Copynumber: 2.4 Consensus size: 152
108109805 ACATTAGATA
* * * * * * *
108109815 TGCCCTGCATTAGTCGAATAAATCAACAAAGATTTATACCCAATGCTAGTCCGATTAACTAACAA
1 TGCCCAGCACTAGTCGAATAAATCGACAAAGATTTATGCCCAGTGCTAGTCGGATAAACTAACAA
* * * * * ** * *
108109880 TGTTAATTGAGTGCCGAACATTAGTTGAAA-AAATCGACAAAGATTTGCGCCCAACGCTAATTGG
66 TATTAACTGAGTACCCAACACTAG-CCAAAGAAATCAACAAAGATTTGCGCCCAACGCTAATCGG
108109944 ATAAACCGAC-ATTATTAACTGGG
130 ATAAACCGACGA-TATTAACTGGG
* * * **
108109967 TGCCCAGCACTAGTCGAATAAATCGAGAAAGATTTGTGCCCAGTGCTAGTCGGATAAACCAATGA
1 TGCCCAGCACTAGTCGAATAAATCGACAAAGATTTATGCCCAGTGCTAGTCGGATAAACTAACAA
* * * * * *
108110032 TATTAACTGTGTACCCAGCACTAGCCAAAGAAATCAACAAATATTTGTGCCCAGCGCTAGTCGGA
66 TATTAACTGAGTACCCAACACTAGCCAAAGAAATCAACAAAGATTTGCGCCCAACGCTAATCGGA
* *
108110097 TAAACTGACGATATTAACTGTG
131 TAAACCGACGATATTAACTGGG
* * *
108110119 TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTACGCCCAGCGCTAGTCGGATAAACTAACAA
1 TGCCCAGCACTAGTCGAATAAATCGACAAAGATTTATGCCCAGTGCTAGTCGGATAAACTAACAA
108110184 T
66 T
108110185 CACATACATA
Statistics
Matches: 179, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
151 3 0.02
152 175 0.98
153 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (152 bp):
TGCCCAGCACTAGTCGAATAAATCGACAAAGATTTATGCCCAGTGCTAGTCGGATAAACTAACAA
TATTAACTGAGTACCCAACACTAGCCAAAGAAATCAACAAAGATTTGCGCCCAACGCTAATCGGA
TAAACCGACGATATTAACTGGG
Found at i:108110178 original size:76 final size:76
Alignment explanation
Indices: 108109815--108110181 Score: 360
Period size: 76 Copynumber: 4.8 Consensus size: 76
108109805 ACATTAGATA
* * * * * * ** * * *
108109815 TGCCCTGCATTAGTCGAATAAATCAACAAAGATTTATACCCAATGCTAGTCCGATTAACTAACAA
1 TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGTGCCCAGCGCTAGTCGGATAAACTAACGA
* * *
108109880 TGTTAATTGAG
66 TATTAACTGTG
* * * * * * * * **
108109891 TGCCGAACATTAGTTGAAA-AAATCGACAAAGATTTGCGCCCAACGCTAATTGGATAAACCGAC-
1 TGCCCAGCACTAG-TCAAATAAATCGACAAAGATTTGTGCCCAGCGCTAGTCGGATAAACTAACG
*
108109954 ATTATTAACTGGG
65 A-TATTAACTGTG
* * * * *
108109967 TGCCCAGCACTAGTCGAATAAATCGAGAAAGATTTGTGCCCAGTGCTAGTCGGATAAACCAATGA
1 TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGTGCCCAGCGCTAGTCGGATAAACTAACGA
108110032 TATTAACTGTG
66 TATTAACTGTG
* * * * * *
108110043 TACCCAGCACTAGCCAAAGAAATCAACAAATATTTGTGCCCAGCGCTAGTCGGATAAACTGACGA
1 TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGTGCCCAGCGCTAGTCGGATAAACTAACGA
108110108 TATTAACTGTG
66 TATTAACTGTG
**
108110119 TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTACGCCCAGCGCTAGTCGGATAAACTAAC
1 TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGTGCCCAGCGCTAGTCGGATAAACTAAC
108110182 AATCACATAC
Statistics
Matches: 235, Mismatches: 52, Indels: 8
0.80 0.18 0.03
Matches are distributed among these distances:
75 4 0.02
76 227 0.97
77 4 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGTGCCCAGCGCTAGTCGGATAAACTAACGA
TATTAACTGTG
Found at i:108111599 original size:17 final size:18
Alignment explanation
Indices: 108111569--108111603 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
108111559 CCAAAACCAA
108111569 AATAAAACAAAAAATAAT
1 AATAAAACAAAAAATAAT
*
108111587 AATAAAAC-CAAAATAAT
1 AATAAAACAAAAAATAAT
108111604 TTAAAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
AATAAAACAAAAAATAAT
Found at i:108111969 original size:23 final size:22
Alignment explanation
Indices: 108111943--108111985 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
108111933 GAAATGATGT
*
108111943 AAAAAAAGAAAAGACTGAAATAC
1 AAAAAAA-AAAACACTGAAATAC
*
108111966 AAAAAAAAAACCACTGAAAT
1 AAAAAAAAAAACACTGAAAT
108111986 TGAAAGGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.70, C:0.12, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAAAAAAACACTGAAATAC
Found at i:108124598 original size:159 final size:161
Alignment explanation
Indices: 108124298--108124607 Score: 385
Period size: 159 Copynumber: 1.9 Consensus size: 161
108124288 GTTTTCTTTC
*
108124298 ATTCATTCGAACAAATCTTATTATATAGGAAATAAGGTCATGACCTTCCTTTAAATTTCCATATT
1 ATTCATTCGAACAAATCTTATTATACAGGAAAT-AGGTCATGACCTTCCTTTAAATTTCCATATT
* * * ** * * * *
108124363 TTACCCTTAGATGGTCATTATGAACAATCCCAAATTCATTGGGACATCGTGACCTCCTTAAATAA
65 TTACCCTTAGATAGTAATTATGAACAATCCCAAATCCATTAAGACATCATCAACTCCTTAAACAA
**
108124428 TAGTTGCGATCTCCTTCAAATATTTGTCTTCT
130 TAGTTAAGATCTCCTTCAAATATTTGTCTTCT
** * * *
108124460 ATTCATTCGAACAGTTCTTATTATACATG-AAT-GGTCATGACCTTTCTTTAAATTTTCATATTT
1 ATTCATTCGAACAAATCTTATTATACAGGAAATAGGTCATGACCTTCCTTTAAATTTCCATATTT
* *
108124523 TACACC-TA-ATTAGTAATTATGAACAATCTCAAATCCATTAAGACATCATCAACTTCTTAAACA
66 TAC-CCTTAGA-TAGTAATTATGAACAATCCCAAATCCATTAAGACATCATCAACTCCTTAAACA
*
108124586 ATGGTTAAGATCTCCTTCAAAT
129 ATAGTTAAGATCTCCTTCAAAT
108124608 GTTGACAAAT
Statistics
Matches: 126, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
158 1 0.01
159 95 0.75
160 2 0.02
161 3 0.02
162 25 0.20
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (161 bp):
ATTCATTCGAACAAATCTTATTATACAGGAAATAGGTCATGACCTTCCTTTAAATTTCCATATTT
TACCCTTAGATAGTAATTATGAACAATCCCAAATCCATTAAGACATCATCAACTCCTTAAACAAT
AGTTAAGATCTCCTTCAAATATTTGTCTTCT
Found at i:108125161 original size:80 final size:80
Alignment explanation
Indices: 108125028--108125182 Score: 292
Period size: 80 Copynumber: 1.9 Consensus size: 80
108125018 CCTGTAGGGA
108125028 ATTCATTCTCTATTCACTTTGGATAACTCATTCATCTTTTCCAATGTCGAACTCAACAAAAAAGA
1 ATTCATTCTCTATTCACTTTGGATAACTCATTCATCTTTTCCAATGTCGAACTCAACAAAAAAGA
108125093 AAGCTTTGATAACTC
66 AAGCTTTGATAACTC
* *
108125108 ATTCATTCTCTATTCACTTTGGATAACTCATTCATCTTTTCTAATGTCGAACTCAACAAAAGAGA
1 ATTCATTCTCTATTCACTTTGGATAACTCATTCATCTTTTCCAATGTCGAACTCAACAAAAAAGA
108125173 AAGCTTTGAT
66 AAGCTTTGAT
108125183 TCACGATTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (80 bp):
ATTCATTCTCTATTCACTTTGGATAACTCATTCATCTTTTCCAATGTCGAACTCAACAAAAAAGA
AAGCTTTGATAACTC
Found at i:108125427 original size:20 final size:20
Alignment explanation
Indices: 108125382--108125429 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
108125372 AATTAGATTT
*
108125382 ATTTAAATTAAAAATATTAA
1 ATTTAAATTAAAAATATAAA
*
108125402 ATTTAAATTAAGAATA-AAA
1 ATTTAAATTAAAAATATAAA
108125421 ATATTAAAT
1 AT-TTAAAT
108125430 ATTTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATTTAAATTAAAAATATAAA
Found at i:108125493 original size:21 final size:21
Alignment explanation
Indices: 108125468--108125514 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
108125458 TTGATTGACC
*
108125468 GTTGACCAACTATTGATCGAT
1 GTTGACCAACTATTGATCAAT
* * *
108125489 GTTGACTAATTGTTGATCAAT
1 GTTGACCAACTATTGATCAAT
108125510 GTTGA
1 GTTGA
108125515 TCGACATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (21 bp):
GTTGACCAACTATTGATCAAT
Found at i:108125698 original size:20 final size:19
Alignment explanation
Indices: 108125670--108125721 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
108125660 TATAATTATA
*
108125670 AATTTTAAAAATTCAAAAT
1 AATTATAAAAATTCAAAAT
*
108125689 AATATATAAAAATTGAAAAT
1 AAT-TATAAAAATTCAAAAT
**
108125709 TGTTATAAAAATT
1 AATTATAAAAATT
108125722 TTAAAAGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (19 bp):
AATTATAAAAATTCAAAAT
Found at i:108125803 original size:34 final size:34
Alignment explanation
Indices: 108125765--108125830 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
108125755 AAAACCTTGA
*
108125765 AATTTAAATACTTTTTTAGAATTTTATAAAAATT
1 AATTTAAATAATTTTTTAGAATTTTATAAAAATT
108125799 AATTTAAATAATTTTTTAGAATTTTATAAAAA
1 AATTTAAATAATTTTTTAGAATTTTATAAAAA
108125831 AATCTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (34 bp):
AATTTAAATAATTTTTTAGAATTTTATAAAAATT
Found at i:108125838 original size:23 final size:23
Alignment explanation
Indices: 108125812--108125862 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
108125802 TTAAATAATT
*
108125812 TTTTAGAA-TTTTATAAAAAAATC
1 TTTTAAAACTTTT-TAAAAAAATC
* *
108125835 TTTTAAAACTTTTTTAAAATATC
1 TTTTAAAACTTTTTAAAAAAATC
108125858 TTTTA
1 TTTTA
108125863 CAGTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTAAAACTTTTTAAAAAAATC
Found at i:108125848 original size:34 final size:34
Alignment explanation
Indices: 108125765--108125850 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 34
108125755 AAAACCTTGA
*
108125765 AATTTAAATACTTTTTTAGAATTTTATAAAAATT
1 AATTTAAATACTTTTTTAGAATTTTATAAAAAAT
*
108125799 AATTTAAATAATTTTTTAGAATTTTATAAAAAAAT
1 AATTTAAATACTTTTTTAGAATTTTAT-AAAAAAT
**
108125834 CTTTTAAA-ACTTTTTTA
1 AATTTAAATACTTTTTTA
108125851 AAATATCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 34 0.74
35 12 0.26
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (34 bp):
AATTTAAATACTTTTTTAGAATTTTATAAAAAAT
Found at i:108134506 original size:2 final size:2
Alignment explanation
Indices: 108134501--108134528 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
108134491 CTTAAAAAAA
108134501 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
108134529 CTTGATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108136717 original size:25 final size:25
Alignment explanation
Indices: 108136648--108136743 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
108136638 GACACACCAT
* * *
108136648 AGCTCGTATGAGCTTCCCGCTATAC
1 AGCTCGCATGAGCTTCCCGTTATTC
* *
108136673 AGCTCGCATGAGTTTTCCGTTATTC
1 AGCTCGCATGAGCTTCCCGTTATTC
* *
108136698 AGCTCGCATGAGCTTCCCGTAATTT
1 AGCTCGCATGAGCTTCCCGTTATTC
* * *
108136723 AGCTTGGAGGAGCTTCCCGTT
1 AGCTCGCATGAGCTTCCCGTT
108136744 TACAGTTCGT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCGTTATTC
Found at i:108138325 original size:49 final size:49
Alignment explanation
Indices: 108138268--108138364 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
108138258 TATTTGTATG
*
108138268 ATCCTTAGAATTCTTTGCATAAAATGTTCTTTCTAAATGGATTTCAAGC
1 ATCCTTAGAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAGC
108138317 ATCCTTAGAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAG
1 ATCCTTAGAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAG
108138365 TATGCTTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (49 bp):
ATCCTTAGAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAGC
Found at i:108139075 original size:20 final size:19
Alignment explanation
Indices: 108139050--108139102 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
108139040 AAACATGTTT
**
108139050 TAAATGTGTTTTAATTTATC
1 TAAATGT-TTTTAATCAATC
108139070 TAAATGTTTTTGAATCAATC
1 TAAATGTTTTT-AATCAATC
108139090 TAAATGTTTTTAA
1 TAAATGTTTTTAA
108139103 GTGTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (19 bp):
TAAATGTTTTTAATCAATC
Found at i:108144467 original size:24 final size:24
Alignment explanation
Indices: 108144440--108144519 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
108144430 AAATTAAGGG
108144440 TTAATTTTAATTTTTGAATATTAT
1 TTAATTTTAATTTTTGAATATTAT
* * * *
108144464 TTAATTTTTTCATTTATGTAATTTTAA
1 TTAA--TTTTAATTTTTG-AATATTAT
*
108144491 TTAATTGTAATTTTTGAATATTAT
1 TTAATTTTAATTTTTGAATATTAT
108144515 TTAAT
1 TTAAT
108144520 ACTTTTTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 15 0.34
25 9 0.20
26 10 0.23
27 10 0.23
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (24 bp):
TTAATTTTAATTTTTGAATATTAT
Found at i:108144468 original size:18 final size:17
Alignment explanation
Indices: 108144445--108144519 Score: 73
Period size: 18 Copynumber: 4.4 Consensus size: 17
108144435 AAGGGTTAAT
108144445 TTTAATTTTTGAATATTA
1 TTTAATTTTTGAAT-TTA
**
108144463 TTTAATTTTTTCATTTA
1 TTTAATTTTTGAATTTA
* *
108144480 TGTAA-TTTT-AATTAA
1 TTTAATTTTTGAATTTA
108144495 TTGTAATTTTTGAATATTA
1 TT-TAATTTTTGAAT-TTA
108144514 TTTAAT
1 TTTAAT
108144520 ACTTTTTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
15 5 0.11
16 7 0.15
17 11 0.24
18 19 0.41
19 4 0.09
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.61
Consensus pattern (17 bp):
TTTAATTTTTGAATTTA
Found at i:108144541 original size:24 final size:24
Alignment explanation
Indices: 108144463--108144564 Score: 75
Period size: 25 Copynumber: 4.1 Consensus size: 24
108144453 TTGAATATTA
*
108144463 TTTAATT-TTTTCATTTATGTAAT
1 TTTAATTATTTTTATTTATGTAAT
* * * *
108144486 TTTAATTAATTGTAATTTTTGAATATT
1 TTTAATT-ATTTTTATTTATG--TAAT
108144513 ATTTAA-TACTTTTTATTTATGTAAT
1 -TTTAATTA-TTTTTATTTATGTAAT
*
108144538 TTTAATTATTTTGTATTT-TATAAT
1 TTTAATTATTTT-TATTTATGTAAT
108144562 TTT
1 TTT
108144565 TTATAACAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
23 7 0.11
24 17 0.27
25 19 0.31
26 1 0.02
27 13 0.21
28 5 0.08
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (24 bp):
TTTAATTATTTTTATTTATGTAAT
Found at i:108144556 original size:52 final size:51
Alignment explanation
Indices: 108144440--108144545 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
108144430 AAATTAAGGG
*
108144440 TTAATTTTAATTTTTGAATATTATTTAATTTTTTCATTTATGTAATTTTAA
1 TTAATTGTAATTTTTGAATATTATTTAATTTTTTCATTTATGTAATTTTAA
108144491 TTAATTGTAATTTTTGAATATTATTTAATACTTTTT-ATTTATGTAATTTTAA
1 TTAATTGTAATTTTTGAATATTATTTAAT--TTTTTCATTTATGTAATTTTAA
108144543 TTA
1 TTA
108144546 TTTTGTATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
51 28 0.54
52 19 0.37
53 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (51 bp):
TTAATTGTAATTTTTGAATATTATTTAATTTTTTCATTTATGTAATTTTAA
Found at i:108148738 original size:45 final size:45
Alignment explanation
Indices: 108148688--108148791 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
108148678 GTAGCAGTAG
* * *
108148688 CAGTAACAGTAACAGTATTCAACACACAAATTG-CTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTC-AAATCGGTAA
* **
108148733 CAGTAACGGTAACAGTATTTGACACACAAAGTGTCAAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
108148778 CAGTAACAGTAACA
1 CAGTAACAGTAACA
108148792 ATAGTCGGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
Found at i:108149799 original size:5 final size:6
Alignment explanation
Indices: 108149777--108149838 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
108149767 AAATCTCTAG
* ** *
108149777 TTTTTCC TTTTTC TTTTTC TTTTTG TTTTTC TTTTTC TTTCCC TTTTGC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
108149826 TTTCTC TTTTTC T
1 TTTTTC TTTTTC T
108149839 CCCCTGTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
6 41 0.89
7 5 0.11
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:108150140 original size:33 final size:32
Alignment explanation
Indices: 108150082--108150144 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
108150072 ATTATTTAAT
108150082 TAATAAATATCTCTTAATTATAATAATAATAAA
1 TAATAAATATCTCTTAATTATAATAA-AATAAA
108150115 TAATAAATATCTAC-TAATT-TAAATAAAATA
1 TAATAAATATCT-CTTAATTAT-AATAAAATA
108150145 TTATAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.18
33 22 0.79
34 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAAATATCTCTTAATTATAATAAAATAAA
Found at i:108153060 original size:34 final size:33
Alignment explanation
Indices: 108152966--108153099 Score: 119
Period size: 34 Copynumber: 3.9 Consensus size: 33
108152956 TTTAAAAAAC
** *
108152966 TAAACCCTAATTTAATTAATTTTAACCCT-AAACCC
1 TAAACCCTAATTTAATTAA-TTT-A-TTTAAAACCA
** *
108153001 TAAACTTTAATTTAATTTAATTTATTTAAAACTCT
1 TAAACCCTAATTTAA-TTAATTTATTTAAAAC-CA
*
108153036 TAAACCCTAATTTACTTAATTTATTTAAAAACCA
1 TAAACCCTAATTTAATTAATTTATTT-AAAACCA
*
108153070 TAAACCTTAATTTAATTAATTT-TTATAAAA
1 TAAACCCTAATTTAATTAATTTATT-TAAAA
108153100 TAACACTAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
33 7 0.08
34 38 0.46
35 34 0.41
36 4 0.05
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTATTTAAAACCA
Found at i:108153119 original size:36 final size:34
Alignment explanation
Indices: 108152956--108153119 Score: 116
Period size: 34 Copynumber: 4.7 Consensus size: 34
108152946 TAATATTATT
*
108152956 TTTAAAAAAC-TAAACCCTAATTTAATTAATTTTA
1 TTTAAAAAACATAAACCTTAATTTAATTAA-TTTA
***** * * *
108152990 ACCCTAAACCCTAAACTTTAATTTAATTTAATTTA
1 TTTAAAAAACATAAACCTTAATTTAA-TTAATTTA
** * * *
108153025 TTTAAAACTCTTAAACCCTAATTTACTTAATTTA
1 TTTAAAAAACATAAACCTTAATTTAATTAATTTA
*
108153059 TTTAAAAACCATAAACCTTAATTTAATTAATTT-
1 TTTAAAAAACATAAACCTTAATTTAATTAATTTA
* *
108153092 TTATAAAATAACACTAAATCTTGATTTA
1 TT-TAAAA-AACA-TAAACCTTAATTTA
108153120 TTTTTAAAAT
Statistics
Matches: 98, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
33 2 0.02
34 45 0.46
35 35 0.36
36 16 0.16
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.41
Consensus pattern (34 bp):
TTTAAAAAACATAAACCTTAATTTAATTAATTTA
Found at i:108157390 original size:24 final size:24
Alignment explanation
Indices: 108157358--108157407 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
108157348 TTTTCGGATT
108157358 TTCATAACTTTCTTCTTATTCTTC
1 TTCATAACTTTCTTCTTATTCTTC
*
108157382 TTCATAACTTTCTTGTTATTCTTC
1 TTCATAACTTTCTTCTTATTCTTC
108157406 TT
1 TT
108157408 GAATTAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (24 bp):
TTCATAACTTTCTTCTTATTCTTC
Found at i:108160460 original size:43 final size:43
Alignment explanation
Indices: 108160412--108160604 Score: 219
Period size: 43 Copynumber: 4.5 Consensus size: 43
108160402 ATTACCGAGA
* *
108160412 TGTGATTACATGTAAGACCATGACTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
108160455 TGTGATTACATGTAAAACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
108160498 TGTGATTACGTGTAAGACTATGTTTGGGATATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
** * * * *
108160542 T-CAATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
108160583 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
108160605 ATCTAGGATA
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 118 0.94
44 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:108162071 original size:18 final size:19
Alignment explanation
Indices: 108162026--108162071 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
108162016 AGGGACATTG
*
108162026 TGATTTATGTGAAACTGAA
1 TGATTTATGAGAAACTGAA
* *
108162045 TCATATATGAGAAA-TGAA
1 TGATTTATGAGAAACTGAA
108162063 TGATTTATG
1 TGATTTATG
108162072 TTGTGATTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (19 bp):
TGATTTATGAGAAACTGAA
Found at i:108164789 original size:49 final size:50
Alignment explanation
Indices: 108164692--108164806 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 50
108164682 TACGAGTATG
* * ** *
108164692 TAATCGGGAAGCTCATGTGAGCTATATAACAGGAAGCTCTTGCGAGCCAAT
1 TAATCGGGAAGCTCATATGAGCCATATAACAGGAAGCTCAAGAGAGCC-AT
* *
108164743 T-ATCGAGAAGCTCATATGAGCCATA-AACGGGAAGCTCAAGAGAGCCAT
1 TAATCGGGAAGCTCATATGAGCCATATAACAGGAAGCTCAAGAGAGCCAT
*
108164791 TAATTGGGAAGCTCAT
1 TAATCGGGAAGCTCAT
108164807 GAGAGCGAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 3 0.06
49 29 0.54
50 21 0.39
51 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (50 bp):
TAATCGGGAAGCTCATATGAGCCATATAACAGGAAGCTCAAGAGAGCCAT
Found at i:108164824 original size:25 final size:24
Alignment explanation
Indices: 108164749--108164837 Score: 65
Period size: 25 Copynumber: 3.6 Consensus size: 24
108164739 CAATTATCGA
*
108164749 GAAGCTCAT-ATGAGC-CATAAACGG
1 GAAGCTCATGA-GAGCAAATAAA-GG
* * * *
108164773 GAAGCTCAAGAGAGCCATTAATTGG
1 GAAGCTCATGAGAGCAAATAA-AGG
108164798 GAAGCTCATGAGAGCGAAATAAAGG
1 GAAGCTCATGAGAGC-AAATAAAGG
* *
108164823 GAACCTCGTGAGAGC
1 GAAGCTCATGAGAGC
108164838 CATGATATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 12 0.24
25 35 0.69
26 4 0.08
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (24 bp):
GAAGCTCATGAGAGCAAATAAAGG
Found at i:108166626 original size:18 final size:18
Alignment explanation
Indices: 108166605--108166714 Score: 134
Period size: 18 Copynumber: 6.1 Consensus size: 18
108166595 AGTCACTCTT
108166605 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
108166623 TAAC-GATAAATTATTCAG
1 TAACAG-TCAGTTATTCAG
* *
108166641 TAACAGTCAATTATTTAG
1 TAACAGTCAGTTATTCAG
*
108166659 TAACAGTCAGTTATCCAG
1 TAACAGTCAGTTATTCAG
108166677 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
*
108166695 TAGA-AGCCAGTTATTCAG
1 TA-ACAGTCAGTTATTCAG
108166713 TA
1 TA
108166715 CCTTTATTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
17 1 0.01
18 77 0.96
19 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:108166897 original size:54 final size:51
Alignment explanation
Indices: 108166830--108166948 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
108166820 CTGTAACGGT
* * *
108166830 AACAATAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAGTA-AGGT--ACAGAGTACCTCATCAGAACAAATCCGG
* * * *
108166884 AACAGTAATAGTAACAGTAAGGTACGGAGTACCTCTTCAGAACGAATCCGG
1 AACAGTAACAGTAACAGTAAGGTACAGAGTACCTCATCAGAACAAATCCGG
108166935 AACAGTAACAGTAA
1 AACAGTAACAGTAA
108166949 GGCGACACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.65
53 3 0.05
54 17 0.30
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (51 bp):
AACAGTAACAGTAACAGTAAGGTACAGAGTACCTCATCAGAACAAATCCGG
Found at i:108169021 original size:128 final size:130
Alignment explanation
Indices: 108168841--108169101 Score: 483
Period size: 131 Copynumber: 2.0 Consensus size: 130
108168831 CAAATGTCAC
108168841 TATCTAATTTGTTTACTACACAAAAAATCTTACAATTTAATTATTTTATCTAATAAATATCTTTT
1 TATCTAATTTGTTTACTACACAAAAAATCTTACAATTTAATTATTTTATCTAATAAATATCTTTT
108168906 ACTAATT-A-AAAATATCACAAATATATATATTTCTATTAATACACTTGTATTAAATCACTACAC
66 ACTAATTAATAAAATATCACAAATATATATATTTCTATTAATACACTTGTATTAAATCACTAC-C
108168969 A
130 A
108168970 TATCTAATTTGTTTACTACAC-AAAAATCTTACAATTTAATTATTTTATCTAATAAATATCTTTT
1 TATCTAATTTGTTTACTACACAAAAAATCTTACAATTTAATTATTTTATCTAATAAATATCTTTT
108169034 ACTAATTAAATAAAATATCACAAATATATATATTTCTATTAATACACTTGTATTAAATCACTACC
66 ACTAATT-AATAAAATATCACAAATATATATATTTCTATTAATACACTTGTATTAAATCACTACC
108169099 A
130 A
108169100 TA
1 TA
108169102 CATTTGTCTT
Statistics
Matches: 129, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
128 50 0.39
129 21 0.16
130 5 0.04
131 53 0.41
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.42
Consensus pattern (130 bp):
TATCTAATTTGTTTACTACACAAAAAATCTTACAATTTAATTATTTTATCTAATAAATATCTTTT
ACTAATTAATAAAATATCACAAATATATATATTTCTATTAATACACTTGTATTAAATCACTACCA
Found at i:108172770 original size:76 final size:76
Alignment explanation
Indices: 108172644--108172795 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
108172634 TTTTAGGGAT
108172644 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
1 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
108172709 TTTTGCCAAGC
66 TTTTGCCAAGC
*
108172720 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGCTATTAAAATTATTACGATTGTT
1 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
108172785 TTTTGCCAAGC
66 TTTTGCCAAGC
108172796 GATGGCAACT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (76 bp):
TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
TTTTGCCAAGC
Found at i:108176143 original size:41 final size:41
Alignment explanation
Indices: 108176098--108176175 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
108176088 TAAAAAACAA
*
108176098 AGCATTAGCGACGCTTTTGGTAAAACGCTGCTAAAAGCCAG
1 AGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAGCCAG
** *
108176139 AGCATTAGCGGTGCTTTTGGTAAAATGCCGCTAAAAG
1 AGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAG
108176176 TCATATAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (41 bp):
AGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAGCCAG
Found at i:108176541 original size:21 final size:20
Alignment explanation
Indices: 108176504--108176546 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
108176494 ATTATAGTTT
108176504 AGGGTTTACGTTATATGGTTA
1 AGGGTTTACGTT-TATGGTTA
*
108176525 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTT-ACGTTTATG-GTTA
108176547 CTATTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (20 bp):
AGGGTTTACGTTTATGGTTA
Found at i:108176605 original size:21 final size:21
Alignment explanation
Indices: 108176581--108176624 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
108176571 GTTTAAGTGT
108176581 GGTTTAAGG-GTT-GGGGTTTAA
1 GGTTT-AGGTGTTAGGGG-TTAA
108176602 GGTTTAGGTGTTAGGGGTTAA
1 GGTTTAGGTGTTAGGGGTTAA
108176623 GG
1 GG
108176625 GTTCATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 14 0.67
22 4 0.19
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.36
Consensus pattern (21 bp):
GGTTTAGGTGTTAGGGGTTAA
Found at i:108176606 original size:32 final size:32
Alignment explanation
Indices: 108176551--108176612 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
108176541 GAGTTACTAT
* *
108176551 TTTAAGGTTTAGGGATTATGGTTTAAGTGTGG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* * *
108176583 TTTAAGGGTTGGGGTTTAAGGTTTAGGTGT
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGT
108176613 TAGGGGTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (32 bp):
TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
Found at i:108179591 original size:235 final size:235
Alignment explanation
Indices: 108179180--108179650 Score: 942
Period size: 235 Copynumber: 2.0 Consensus size: 235
108179170 TAGGGATCAA
108179180 ATTTACTTTTACCAGCAACGAATTCCATCATTCTTCATTATCACTACATCAAAGCAGTAAGTGTT
1 ATTTACTTTTACCAGCAACGAATTCCATCATTCTTCATTATCACTACATCAAAGCAGTAAGTGTT
108179245 GTTTCAGTTCGCTTTCTGTACACTTCTTGCTTTGATTTTTGCTAAATTTAGAATCTCATATCCAT
66 GTTTCAGTTCGCTTTCTGTACACTTCTTGCTTTGATTTTTGCTAAATTTAGAATCTCATATCCAT
108179310 TTTCTTTAATTACTTGAGTAAGTTTTGTTAGTTTATAATTTTGTTTGAAAGAACATTTCAAGAAT
131 TTTCTTTAATTACTTGAGTAAGTTTTGTTAGTTTATAATTTTGTTTGAAAGAACATTTCAAGAAT
108179375 TAGTAAATGGAACTTCAAATATTTGTTTGTGAATTTTGTT
196 TAGTAAATGGAACTTCAAATATTTGTTTGTGAATTTTGTT
108179415 ATTTACTTTTACCAGCAACGAATTCCATCATTCTTCATTATCACTACATCAAAGCAGTAAGTGTT
1 ATTTACTTTTACCAGCAACGAATTCCATCATTCTTCATTATCACTACATCAAAGCAGTAAGTGTT
108179480 GTTTCAGTTCGCTTTCTGTACACTTCTTGCTTTGATTTTTGCTAAATTTAGAATCTCATATCCAT
66 GTTTCAGTTCGCTTTCTGTACACTTCTTGCTTTGATTTTTGCTAAATTTAGAATCTCATATCCAT
108179545 TTTCTTTAATTACTTGAGTAAGTTTTGTTAGTTTATAATTTTGTTTGAAAGAACATTTCAAGAAT
131 TTTCTTTAATTACTTGAGTAAGTTTTGTTAGTTTATAATTTTGTTTGAAAGAACATTTCAAGAAT
108179610 TAGTAAATGGAACTTCAAATATTTGTTTGTGAATTTTGTT
196 TAGTAAATGGAACTTCAAATATTTGTTTGTGAATTTTGTT
108179650 A
1 A
108179651 ATAGGCTTAA
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 236 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (235 bp):
ATTTACTTTTACCAGCAACGAATTCCATCATTCTTCATTATCACTACATCAAAGCAGTAAGTGTT
GTTTCAGTTCGCTTTCTGTACACTTCTTGCTTTGATTTTTGCTAAATTTAGAATCTCATATCCAT
TTTCTTTAATTACTTGAGTAAGTTTTGTTAGTTTATAATTTTGTTTGAAAGAACATTTCAAGAAT
TAGTAAATGGAACTTCAAATATTTGTTTGTGAATTTTGTT
Found at i:108182161 original size:21 final size:21
Alignment explanation
Indices: 108182135--108182182 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
108182125 TCAACTTAGA
*
108182135 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
108182156 GCGGAGGCAGCAACGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
108182177 GCGGAG
1 GCGGAG
108182183 CAGAATAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAACGAGGGAG
Found at i:108182543 original size:43 final size:43
Alignment explanation
Indices: 108182479--108182619 Score: 210
Period size: 43 Copynumber: 3.3 Consensus size: 43
108182469 GGGCAAATTC
* *
108182479 GCGGCGTTTTTTAAAAGAGCGCCGCGAAAGGTCCTGGTCGTTA
1 GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
*
108182522 GCGGCATTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
1 GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
* * *
108182565 GCGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCCTGGTCTTTA
1 GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
* *
108182608 TCGGCTTTTTTT
1 GCGGCGTTTTTT
108182620 CGAAAAAACG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCTGGTCTTTA
Found at i:108189403 original size:26 final size:26
Alignment explanation
Indices: 108189366--108189471 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
108189356 GTACAAATTA
108189366 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
108189392 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
108189418 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
108189444 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
108189470 AT
1 AT
108189472 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:108191379 original size:32 final size:34
Alignment explanation
Indices: 108191318--108191382 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 34
108191308 CTATGGGCCA
*
108191318 TATTGTTATCTGAATAATGGGCTAAGGCCCAGTT
1 TATTGTAATCTGAATAATGGGCTAAGGCCCAGTT
**
108191352 TATTGTAATCTGAA-AA-GGGCTCTGGCCCAGT
1 TATTGTAATCTGAATAATGGGCTAAGGCCCAGT
108191383 ACCACTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 2 0.07
34 13 0.46
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (34 bp):
TATTGTAATCTGAATAATGGGCTAAGGCCCAGTT
Found at i:108192210 original size:17 final size:17
Alignment explanation
Indices: 108192170--108192210 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
108192160 GTGGAATGGG
*
108192170 TTTACAAAAACAAAGAT
1 TTTATAAAAACAAAGAT
108192187 TTT-TAAAAACGAAA-AT
1 TTTATAAAAAC-AAAGAT
108192203 TTTATAAA
1 TTTATAAA
108192211 GATGCGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (17 bp):
TTTATAAAAACAAAGAT
Found at i:108196465 original size:26 final size:26
Alignment explanation
Indices: 108196428--108196507 Score: 142
Period size: 26 Copynumber: 3.1 Consensus size: 26
108196418 GTACAAATTA
108196428 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
108196454 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
108196480 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
108196506 AT
1 AT
108196508 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:108213865 original size:61 final size:62
Alignment explanation
Indices: 108213769--108213885 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 62
108213759 CAGGCATTTT
*
108213769 TTTATTCTACTTATGCTTCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
1 TTTATTCTACTTATGCATCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
* * *
108213831 TTTATTCT-CTTATGCATCTGGTTT-AAGTAACTGGATTCTGTTATTTCTTTGATAT
1 TTTATTCTACTTATGCATCT-ATTTGAAGTAACTGGATTCTGTTATGTCTTTAATAT
108213886 GGCTTTTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 39 0.78
62 11 0.22
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (62 bp):
TTTATTCTACTTATGCATCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
Found at i:108222475 original size:17 final size:17
Alignment explanation
Indices: 108222455--108222488 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
108222445 GACATTTATT
108222455 TATTTCAAATTAATTGG
1 TATTTCAAATTAATTGG
* *
108222472 TATTTTAGATTAATTGG
1 TATTTCAAATTAATTGG
108222489 GCTGGTTGGA
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:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (17 bp):
TATTTCAAATTAATTGG
Found at i:108234716 original size:11 final size:12
Alignment explanation
Indices: 108234700--108234728 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
108234690 TGCCACGTTC
108234700 TATCTTTCCA-T
1 TATCTTTCCATT
108234711 TATCTTTCCATT
1 TATCTTTCCATT
108234723 TATCTT
1 TATCTT
108234729 CTTTATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:108235148 original size:14 final size:14
Alignment explanation
Indices: 108235126--108235167 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
108235116 AAAGTGATAA
108235126 AAAAGTACAAAAAAT
1 AAAA-TACAAAAAAT
108235141 AAAATACAAAAAA-
1 AAAATACAAAAAAT
*
108235154 AAAATAAAAAAAAT
1 AAAATACAAAAAAT
108235168 TCTGTGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 9 0.36
15 4 0.16
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (14 bp):
AAAATACAAAAAAT
Found at i:108235157 original size:13 final size:13
Alignment explanation
Indices: 108235124--108235166 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
108235114 AAAAAGTGAT
*
108235124 AAAAAAGTACAAA
1 AAAAAAATACAAA
108235137 AAATAAAATACAAA
1 AAA-AAAATACAAA
108235151 AAAAAAATA-AAA
1 AAAAAAATACAAA
108235163 AAAA
1 AAAA
108235167 TTCTGTGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 7 0.25
13 9 0.32
14 12 0.43
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (13 bp):
AAAAAAATACAAA
Found at i:108243966 original size:21 final size:21
Alignment explanation
Indices: 108243940--108243982 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
108243930 ATGACTTTCG
108243940 ACTAAGTGCATCAGCAACTAC
1 ACTAAGTGCATCAGCAACTAC
108243961 ACTAAGTGCATCAGCAACTAC
1 ACTAAGTGCATCAGCAACTAC
108243982 A
1 A
108243983 TTAGCTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.19
Consensus pattern (21 bp):
ACTAAGTGCATCAGCAACTAC
Found at i:108251618 original size:17 final size:17
Alignment explanation
Indices: 108251596--108251630 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
108251586 CTAGAACACA
108251596 AGTTTTGCATCTTATTC
1 AGTTTTGCATCTTATTC
*
108251613 AGTTTTGTATCTTATTC
1 AGTTTTGCATCTTATTC
108251630 A
1 A
108251631 ATTTGGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.54
Consensus pattern (17 bp):
AGTTTTGCATCTTATTC
Found at i:108255209 original size:52 final size:52
Alignment explanation
Indices: 108255100--108255259 Score: 182
Period size: 52 Copynumber: 3.1 Consensus size: 52
108255090 TGACGGAAAA
* * * * *
108255100 GATGTGATATATGATTCCGTATAAGACCATAGCCAGGCTATGGAATCAGTAC
1 GATGTGATATATGATTCCGTATAAGACCATAGCTAGGGTATGGCATCGGTAT
* *
108255152 AATGTGAT-TCATG-TTCCTGTATAAGACCATAGCTAGGGTATGGCATCGGTGT
1 GATGTGATAT-ATGATTCC-GTATAAGACCATAGCTAGGGTATGGCATCGGTAT
* *
108255204 GATGTGATAATGTGATTCCGTATAAGACCATATCT-GGGATATGGCATCGGTAT
1 GATGTGAT-ATATGATTCCGTATAAGACCATAGCTAGGG-TATGGCATCGGTAT
108255257 GAT
1 GAT
108255260 ATGTGATCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
51 5 0.05
52 48 0.53
53 33 0.36
54 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (52 bp):
GATGTGATATATGATTCCGTATAAGACCATAGCTAGGGTATGGCATCGGTAT
Found at i:108255277 original size:46 final size:52
Alignment explanation
Indices: 108255165--108255303 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 52
108255155 GTGATTCATG
108255165 TTCCTGTATAAGACCATAGCTAGGGTATGGCATCGGTGTGATGTGATAATGTGA
1 TTCC-GTATAAGACCATAGCTAGGGTATGGCATCGGTGTGA-GTGATAATGTGA
*
108255219 TTCCGTATAAGACCATATCT-GGGATATGGCATC-G-GT-A-TGAT-ATGTGA
1 TTCCGTATAAGACCATAGCTAGGG-TATGGCATCGGTGTGAGTGATAATGTGA
* * *
108255266 -TCCGTGTAAGACCATGGC-AGGGCTATGGCTTCGGTGTG
1 TTCCGTATAAGACCATAGCTAGGG-TATGGCATCGGTGTG
108255304 TAATGTGTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
46 26 0.35
47 7 0.09
48 6 0.08
50 1 0.01
51 2 0.03
52 4 0.05
53 24 0.32
54 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (52 bp):
TTCCGTATAAGACCATAGCTAGGGTATGGCATCGGTGTGAGTGATAATGTGA
Found at i:108256075 original size:20 final size:20
Alignment explanation
Indices: 108256050--108256107 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
108256040 TGCCCATGGG
108256050 CAGGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
* *
108256070 CAGGCCACACGGGCGTGTTC
1 CAGGCCACATGGGCATGTTC
*
108256090 CAGACCACATGGGCATGT
1 CAGGCCACATGGGCATGT
108256108 GCCCCTAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGCCACATGGGCATGTTC
Found at i:108258799 original size:20 final size:20
Alignment explanation
Indices: 108258745--108258789 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
108258735 ATATCAATAT
*
108258745 TTTTATACAAGTATCGATAA
1 TTTTATAAAAGTATCGATAA
108258765 TTTTATAAAAGTATCGATAA
1 TTTTATAAAAGTATCGATAA
108258785 TTTTA
1 TTTTA
108258790 AATCAGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (20 bp):
TTTTATAAAAGTATCGATAA
Found at i:108264111 original size:24 final size:24
Alignment explanation
Indices: 108264060--108264111 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 24
108264050 TATTATCTAT
108264060 ATATATATTATTAATTATTTGTAC
1 ATATATATTATTAATTATTTGTAC
108264084 ATAT-TA-TA-T-ATTATTTGTAC
1 ATATATATTATTAATTATTTGTAC
108264104 ATATATAT
1 ATATATAT
108264112 ACTTTCATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 15 0.58
21 3 0.12
22 2 0.08
23 2 0.08
24 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATATATTATTAATTATTTGTAC
Found at i:108264421 original size:19 final size:18
Alignment explanation
Indices: 108264397--108264433 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
108264387 TTTAAAACTA
108264397 TTATTAAATATCATATTTT
1 TTATTAAATAT-ATATTTT
*
108264416 TTATTATATATATATTTT
1 TTATTAAATATATATTTT
108264434 GTTAACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTAAATATATATTTT
Found at i:108276471 original size:210 final size:210
Alignment explanation
Indices: 108276158--108276961 Score: 1090
Period size: 210 Copynumber: 3.8 Consensus size: 210
108276148 TAAGCCGCAG
* *
108276158 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCATATCGAAGATGACAGATCTTATCTCTT
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTT
* * *
108276223 TGTATTCGGGGGGGAGCAGATCAAAGATGTAACTGATTTGACTTTCACGTGTTTACGATGAAGCA
66 TGTATTCGGCGGGGAGCAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* *
108276288 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
108276353 GATGGGAGGCAGACA
196 GATGGGAGGCAGACA
* * *
108276368 CATAGCAGATCTCACCTTTAGATGTTTATGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTT
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTT
* * * * *
108276433 TGTATTCGGCGGGGAGCAGATCGAAGAAATAGCTGATTTGGCTTTCATGTGCTTACGATGAAGCA
66 TGTATTCGGCGGGGAGCAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
108276498 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
*
108276563 GATGGAAGGCAGACA
196 GATGGGAGGCAGACA
*
108276578 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTT
* * *
108276643 CGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATAAAGCA
66 TGTATTCGGCGGGGAGCAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* * * *
108276708 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
* * *
108276773 AAT-AGAGAGCAGATA
196 GATGGGAG-GCAGACA
* * *
108276788 CATAGCAGATCTGACCTTCAGATGATTA-GACTGAAA-CAAGATCCAAGAT----GAT-TTACCA
1 CATAGCAGATCTCACCTTCAGATGTTTACG-CT-AAAGC-AGATCCAAGATGACAGATCTTATC-
* * * ** * * * *
108276846 TCCTTGTGCTT--ACAAGGAGTAAATCAAAGACATAGCTGATTT-AGTTTTCACGTGTTTACGAT
62 TCTTTGT-ATTCGGCGGGGAGCAGATCAAAGATATAGCTGATTTGA-CTTTCACGTGTTTACGAT
* * *
108276908 GAAGCAAATCTAAAATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
125 GAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
108276962 AAGTAGATTT
Statistics
Matches: 533, Mismatches: 54, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
205 1 0.00
206 94 0.18
207 7 0.01
208 2 0.00
209 3 0.01
210 412 0.77
211 14 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTT
TGTATTCGGCGGGGAGCAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
GATGGGAGGCAGACA
Found at i:108278913 original size:17 final size:18
Alignment explanation
Indices: 108278886--108278929 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
108278876 TATATATTTT
108278886 TATTA-ATTATTTGTACA
1 TATTATATTATTTGTACA
108278903 TATTATATATTATTTGTACA
1 TA-T-TATATTATTTGTACA
108278923 TA-TATAT
1 TATTATAT
108278930 ACTTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.29
18 1 0.04
19 2 0.08
20 14 0.58
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATATTATTTGTACA
Found at i:108278914 original size:20 final size:19
Alignment explanation
Indices: 108278891--108278930 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
108278881 ATTTTTATTA
108278891 ATTATTTGTACATATTATAT
1 ATTATTTGTACATA-TATAT
108278911 ATTATTTGTACATATATAT
1 ATTATTTGTACATATATAT
108278930 A
1 A
108278931 CTTTCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTATTTGTACATATATAT
Found at i:108279238 original size:19 final size:18
Alignment explanation
Indices: 108279214--108279253 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
108279204 TTTAAAATTA
*
108279214 TTATTAAATATCTTATTTT
1 TTATTAAATAT-ATATTTT
*
108279233 TTATTATATATATATTTT
1 TTATTAAATATATATTTT
108279251 TTA
1 TTA
108279254 ACAATTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTAAATATATATTTT
Found at i:108312607 original size:3 final size:3
Alignment explanation
Indices: 108312599--108312634 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
108312589 TCTAGTTGTA
108312599 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
108312635 ATTTTTCTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:108325719 original size:27 final size:27
Alignment explanation
Indices: 108325701--108325770 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
108325691 ATTAGTCATT
* *
108325701 TTACCCTCCAGGGGTAAATCGGTAGTC
1 TTACCCTACAGGGGTAAATCAGTAGTC
*
108325728 TTACCCTACAGGGGTAAATCGGTAGTC
1 TTACCCTACAGGGGTAAATCAGTAGTC
108325755 TTACCCTACAGGGGTA
1 TTACCCTACAGGGGTA
108325771 TTTTAGTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (27 bp):
TTACCCTACAGGGGTAAATCAGTAGTC
Found at i:108329509 original size:30 final size:29
Alignment explanation
Indices: 108329473--108329533 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
108329463 AAACGGAAGT
108329473 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
108329503 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
108329532 TT
1 TT
108329534 CGACTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:108331184 original size:25 final size:25
Alignment explanation
Indices: 108331150--108331199 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
108331140 AATATTTTTG
108331150 TTAACTTTGTACAGGGGTAGCACAT
1 TTAACTTTGTACAGGGGTAGCACAT
*
108331175 TTAACTTTGTATAGGGGTAGCACAT
1 TTAACTTTGTACAGGGGTAGCACAT
108331200 ACTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (25 bp):
TTAACTTTGTACAGGGGTAGCACAT
Found at i:108331247 original size:11 final size:11
Alignment explanation
Indices: 108331231--108331256 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108331221 TCTAACAAAT
108331231 TAACTAACAAC
1 TAACTAACAAC
108331242 TAACTAACAAC
1 TAACTAACAAC
108331253 TAAC
1 TAAC
108331257 AGATTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (11 bp):
TAACTAACAAC
Found at i:108340669 original size:30 final size:31
Alignment explanation
Indices: 108340608--108340671 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
108340598 ACTTAACAAG
*
108340608 CAAATGCTTCTAAAATAATAATAATAATTAA
1 CAAATGCTTCTAAAATAATAAGAATAATTAA
108340639 CAAATGCCTT-TAAAATAATAAGAA-AATTAA
1 CAAATG-CTTCTAAAATAATAAGAATAATTAA
108340669 CAA
1 CAA
108340672 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 9 0.29
31 19 0.61
32 3 0.10
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAAGAATAATTAA
Found at i:108341029 original size:21 final size:21
Alignment explanation
Indices: 108341003--108341046 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
108340993 TTCGTTGGTG
108341003 TTGTTTACTACTGTTTTGCTA
1 TTGTTTACTACTGTTTTGCTA
* *
108341024 TTGTTTATTATTGTTTTGCTA
1 TTGTTTACTACTGTTTTGCTA
108341045 TT
1 TT
108341047 ATATTGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.64
Consensus pattern (21 bp):
TTGTTTACTACTGTTTTGCTA
Found at i:108343446 original size:16 final size:15
Alignment explanation
Indices: 108343408--108343447 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
108343398 TAGTTAAAAC
108343408 TATTTTTTTATATAT
1 TATTTTTTTATATAT
*
108343423 TA-TTTTTTATGTAT
1 TATTTTTTTATATAT
108343437 TATTTATTTTA
1 TATTT-TTTTA
108343448 AAAATTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 13 0.59
15 4 0.18
16 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTTTTTATATAT
Found at i:108343633 original size:18 final size:18
Alignment explanation
Indices: 108343598--108343631 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
108343588 TGTTTTCTAT
*
108343598 TGGTTCATTATTTATTTA
1 TGGTTCATTATTCATTTA
108343616 TGGTT-ATTATTCATTT
1 TGGTTCATTATTCATTT
108343632 TAAACATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
TGGTTCATTATTCATTTA
Found at i:108344471 original size:33 final size:32
Alignment explanation
Indices: 108344434--108344516 Score: 78
Period size: 33 Copynumber: 2.6 Consensus size: 32
108344424 CGAAACTTGT
* *
108344434 TATATTTTTGTTTCATATTGTTTAATATTTTCA
1 TATATTCTTGTTTCATATTATTTAAT-TTTTCA
* **
108344467 TATATTCTTGAGTTCATATTATTTTGTTTTTCA
1 TATATTCTTG-TTTCATATTATTTAATTTTTCA
* *
108344500 TAT-GTGTTGTTTCATAT
1 TATATTCTTGTTTCATAT
108344517 GTATATTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 7 0.17
32 4 0.10
33 18 0.44
34 12 0.29
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.61
Consensus pattern (32 bp):
TATATTCTTGTTTCATATTATTTAATTTTTCA
Found at i:108345050 original size:131 final size:130
Alignment explanation
Indices: 108344817--108345074 Score: 338
Period size: 131 Copynumber: 2.0 Consensus size: 130
108344807 CGATTACTCA
* * *
108344817 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATATTTGGCAATTCGAAAATCATACCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGACATTTGGCAATCCGAAAATCATACCCTATCG
* * *
108344882 TGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTT-GGAATTTCGCTCATGT
66 TGCTGGGTTGCAATCTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGG-ATTTCACTCATGT
108344946 C
130 C
* ** * ** * *
108344947 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGACGTTTGGCAATCCGGGGAATCTTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGACATTTGGCAATCC-GAAAATCATACCCTATC
* * *
108345012 GTGCTGGGTTGCAATCTCCTGTTTGTTCCAAATAATCGAATATTCCTTTAGGATTTCACTCAT
65 GTGCTGGGTTGCAATCTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGGATTTCACTCAT
108345075 TCTAAAATAA
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
130 40 0.37
131 67 0.61
132 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTCGACATTTGGCAATCCGAAAATCATACCCTATCG
TGCTGGGTTGCAATCTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGGATTTCACTCATGTC
Found at i:108356533 original size:29 final size:30
Alignment explanation
Indices: 108356469--108356535 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
108356459 TGTATTAATT
* *
108356469 TATAATTTTATTATTTTTTAAGTGACTTAA
1 TATAATTTTATTAATTTTTAAGTGACTAAA
* *
108356499 CATAATTTTTTTAATTTTT-AG-GACTAAA
1 TATAATTTTATTAATTTTTAAGTGACTAAA
108356527 GTATAATTT
1 -TATAATTT
108356536 AACCATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 6 0.19
29 9 0.29
30 16 0.52
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (30 bp):
TATAATTTTATTAATTTTTAAGTGACTAAA
Found at i:108367246 original size:27 final size:27
Alignment explanation
Indices: 108367216--108367268 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
108367206 GTTCATATCA
*
108367216 TCGGCTTGGTTCTCAGGGTACTAATCC
1 TCGGCTTGGTTCTCAGAGTACTAATCC
108367243 TCGGCTTGGTTCTCAGAGTACTAATC
1 TCGGCTTGGTTCTCAGAGTACTAATC
108367269 TATTGTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (27 bp):
TCGGCTTGGTTCTCAGAGTACTAATCC
Found at i:108371740 original size:27 final size:27
Alignment explanation
Indices: 108371692--108371849 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
108371682 GCGAGGCTGC
* *
108371692 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
108371719 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
108371745 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
108371772 CAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
108371799 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
108371826 TAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
108371850 AGACGCTTCC
Statistics
Matches: 117, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:108371782 original size:54 final size:54
Alignment explanation
Indices: 108371710--108371849 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
108371700 GTGACGAAGT
*
108371710 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
108371764 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
108371818 CACCAGATTAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
108371850 AGACGCTTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:108373503 original size:26 final size:26
Alignment explanation
Indices: 108373472--108373579 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
108373462 TGAAATACCC
*
108373472 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
108373498 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
108373524 ATCATGGAATATTTACCTAATCGATT
1 ATCATGGAACATTTACCTAACCCATT
108373550 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108373576 ATCA
1 ATCA
108373580 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108374598 original size:24 final size:26
Alignment explanation
Indices: 108374568--108374636 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 26
108374558 CGAGCTAAAT
108374568 AGTAAGCTCATACGAGCTGAGA-A-C
1 AGTAAGCTCATACGAGCTGAGATATC
* * *
108374592 AGTAAGCTCTTACGAGTTGATATATC
1 AGTAAGCTCATACGAGCTGAGATATC
* *
108374618 GGTAAGCTTATACGAGCTG
1 AGTAAGCTCATACGAGCTG
108374637 TGGTGATCCC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 19 0.53
25 1 0.03
26 16 0.44
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (26 bp):
AGTAAGCTCATACGAGCTGAGATATC
Found at i:108376340 original size:13 final size:13
Alignment explanation
Indices: 108376318--108376352 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
108376308 ACACAGTTTA
*
108376318 TAAAACCATATCT
1 TAAAAACATATCT
108376331 TAAAAACATATCT
1 TAAAAACATATCT
108376344 T-AAAACATA
1 TAAAAACATA
108376353 GGCTCACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAAACATATCT
Found at i:108377001 original size:26 final size:26
Alignment explanation
Indices: 108376963--108377019 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
108376953 ACTAGAGAAT
* *
108376963 CCCCAATTCACAACTTACCTGGCGAA
1 CCCCAATTAACAACTTAACTGGCGAA
* * *
108376989 CCCCAGTTAACAACTTAACTGGTGAG
1 CCCCAATTAACAACTTAACTGGCGAA
108377015 CCCCA
1 CCCCA
108377020 TTTCAATGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.37, G:0.14, T:0.19
Consensus pattern (26 bp):
CCCCAATTAACAACTTAACTGGCGAA
Found at i:108384029 original size:18 final size:18
Alignment explanation
Indices: 108384006--108384040 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
108383996 ATAATTAGTT
108384006 ACCCTAAAACCCTAATCC
1 ACCCTAAAACCCTAATCC
108384024 ACCCTAAAACCCTAATC
1 ACCCTAAAACCCTAATC
108384041 TGAAGTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (18 bp):
ACCCTAAAACCCTAATCC
Found at i:108385630 original size:22 final size:23
Alignment explanation
Indices: 108385583--108385643 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
108385573 TCCATTTTCG
108385583 AAATTCATTTATTCAAAAAATAA
1 AAATTCATTTATTCAAAAAATAA
108385606 AAATTCATTTATTCAAAAAATAA
1 AAATTCATTTATTCAAAAAATAA
108385629 AAATTCATTT-TTCAA
1 AAATTCATTTATTCAA
108385644 GTCATTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTCATTTATTCAAAAAATAA
Found at i:108385733 original size:57 final size:57
Alignment explanation
Indices: 108385660--108385778 Score: 168
Period size: 57 Copynumber: 2.1 Consensus size: 57
108385650 TTCATTTTTT
* *
108385660 CATTTTATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATAATT-CTATTTCTC
1 CATTTTATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAATTCCTATTTCTC
* * **
108385716 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCCTATTTCTC
1 CATTTT-ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAATTCCTATTTCTC
108385774 CATTT
1 CATTT
108385779 CACCATTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 6 0.11
57 35 0.64
58 14 0.25
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (57 bp):
CATTTTATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAATTCCTATTTCTC
Found at i:108391055 original size:12 final size:12
Alignment explanation
Indices: 108391038--108391085 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 12
108391028 TTTAAATATT
108391038 TTAAAAATAATA
1 TTAAAAATAATA
108391050 TTAAAATATAATAA
1 TTAAAA-ATAAT-A
108391064 TTAATAAATTAAATA
1 TTAA-AAA-T-AATA
108391079 TTAAAAA
1 TTAAAAA
108391086 ATAGTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.19
13 5 0.16
14 9 0.29
15 8 0.26
16 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAAAATAATA
Found at i:108391076 original size:43 final size:45
Alignment explanation
Indices: 108391029--108391132 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 45
108391019 ATATAAATTT
*
108391029 TTAAATATTTTAAAAATAATA-TTAA-AATATAAT-AATTAATAAA
1 TTAAATATTTTAAAAATAATAGTTAATAATAGAATCAATTAA-AAA
108391072 TTAAATA--TT-AAAA-AATAGTTAATAATAGAATCAATTAAAAA
1 TTAAATATTTTAAAAATAATAGTTAATAATAGAATCAATTAAAAA
* *
108391113 TTATAATATTTGATAAATAA
1 TTA-AATATTTTAAAAATAA
108391133 AAAGTATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
39 4 0.08
40 8 0.16
41 15 0.30
42 10 0.20
43 7 0.14
44 1 0.02
45 3 0.06
46 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (45 bp):
TTAAATATTTTAAAAATAATAGTTAATAATAGAATCAATTAAAAA
Found at i:108392981 original size:17 final size:18
Alignment explanation
Indices: 108392936--108392988 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
108392926 TATAAATGAA
108392936 ATATAAAATATAGTTAAATT
1 ATATAAAA-ATA-TTAAATT
108392956 AT-T-AAAATATT-AATT
1 ATATAAAAATATTAAATT
*
108392971 ATATAAAAATATAAAATT
1 ATATAAAAATATTAAATT
108392989 TTCACTGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.21
16 3 0.10
17 10 0.34
18 7 0.24
19 1 0.03
20 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATAAAAATATTAAATT
Found at i:108399312 original size:2 final size:2
Alignment explanation
Indices: 108399305--108399331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
108399295 GTGATGGACC
108399305 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
108399332 AGTGATGCTT
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:108399609 original size:21 final size:22
Alignment explanation
Indices: 108399567--108399609 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
108399557 CTACTTATAT
* * *
108399567 TTTTTTTATATTTAGAATTTAA
1 TTTTTTTATATTAAAAAATTAA
108399589 TTTTTTTAT-TTAAAAAATTAA
1 TTTTTTTATATTAAAAAATTAA
108399610 ATCTAATTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTTTATATTAAAAAATTAA
Found at i:108406869 original size:43 final size:43
Alignment explanation
Indices: 108406821--108406919 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
108406811 AAAAAAATGT
108406821 CGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCACAAACGC
1 CGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCACAAACGC
* * *
108406864 CGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCACAAATGC
1 CGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCACAAACGC
*
108406907 CGCTAAAGATCAT
1 CGCTAAAGGTCAT
108406920 AAAATTTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCACAAACGC
Found at i:108412028 original size:46 final size:46
Alignment explanation
Indices: 108411976--108412239 Score: 406
Period size: 46 Copynumber: 5.7 Consensus size: 46
108411966 TGTCATAGTG
* * * *
108411976 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
* * *
108412022 TCTTTCAACCATGGTCTTGCTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
108412068 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
108412114 TCTTTCAACCATGGTCTTA-ATCATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACA-CATTTCATATCAGGTTGCCATGGTA
*
108412160 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
108412206 TCTTTCAGCCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
108412240 AGAGCACACT
Statistics
Matches: 204, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
45 5 0.02
46 198 0.97
47 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:108416090 original size:26 final size:26
Alignment explanation
Indices: 108416061--108416110 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
108416051 AAGAATTAGA
108416061 TAAAATTTGAAATCTTGAAAATTTTT
1 TAAAATTTGAAATCTTGAAAATTTTT
* * *
108416087 TAAAATTTTAATTCTTTAAAATTT
1 TAAAATTTGAAATCTTGAAAATTT
108416111 GAAATTATTT
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:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTTTT
Found at i:108416099 original size:16 final size:16
Alignment explanation
Indices: 108416080--108416110 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108416070 AAATCTTGAA
*
108416080 AATTTTTTAAAATTTT
1 AATTCTTTAAAATTTT
108416096 AATTCTTTAAAATTT
1 AATTCTTTAAAATTT
108416111 GAAATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTCTTTAAAATTTT
Found at i:108416287 original size:16 final size:14
Alignment explanation
Indices: 108416258--108416333 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 14
108416248 TTTAACCTTT
*
108416258 AACCCTTAACCCTAA
1 AACCCCTAACCCT-A
108416273 AACCCCTAACACCTA
1 AACCCCTAAC-CCTA
108416288 AACCCCATAACCCGTA
1 AACCCC-TAACCC-TA
* *
108416304 AACCCCTAACTCTT
1 AACCCCTAACCCTA
*
108416318 AATCCCTAAACCCTA
1 AACCCCT-AACCCTA
108416333 A
1 A
108416334 GTCATAAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
14 7 0.14
15 29 0.57
16 15 0.29
ACGTcount: A:0.38, C:0.42, G:0.01, T:0.18
Consensus pattern (14 bp):
AACCCCTAACCCTA
Found at i:108416874 original size:23 final size:23
Alignment explanation
Indices: 108416840--108416887 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
108416830 TATGATGTTT
108416840 TTTAAGGTTTAGAG-TTTAGGGG
1 TTTAAGGTTTAGAGTTTTAGGGG
*
108416862 TTTAAGGGTTTAGTGTTTTAGGGG
1 TTTAA-GGTTTAGAGTTTTAGGGG
108416886 TT
1 TT
108416888 ATAGATTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 8 0.35
24 10 0.43
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (23 bp):
TTTAAGGTTTAGAGTTTTAGGGG
Found at i:108417053 original size:41 final size:40
Alignment explanation
Indices: 108416941--108417112 Score: 155
Period size: 41 Copynumber: 4.2 Consensus size: 40
108416931 GTTATATGAC
* * * *
108416941 TTTTAGTGGCGTTTTGACCATAAATGCAGCTATTACTCTGGT
1 TTTTAGCGGCGTTTT-ACCA-AAACGCCGCTATTGCTCTGGT
*** * *
108416983 TTTTAGCGGCGTTTTTGGTAAAACACCGCTATTGTTCTGGT
1 TTTTAGCGGCG-TTTTACCAAAACGCCGCTATTGCTCTGGT
* *
108417024 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
1 TTTTAGCGGCGTTTTACCAAAA-CGCCGCTATTGCTCTGGT
* * * **
108417065 TTTTAGCGGCGTTCTACCGAAAACGCCACTAATGCTCTATT
1 TTTTAGCGGCGTTTTACC-AAAACGCCGCTATTGCTCTGGT
108417106 TTTTAGC
1 TTTTAGC
108417113 CGCCATTTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
40 8 0.07
41 81 0.75
42 15 0.14
43 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAACGCCGCTATTGCTCTGGT
Found at i:108418759 original size:177 final size:178
Alignment explanation
Indices: 108418457--108418815 Score: 546
Period size: 177 Copynumber: 2.0 Consensus size: 178
108418447 AATTTAAATT
* * *
108418457 CTCTTTGCATGCAAATGAATTATGGTTTTCTTACATTTGAAAGCCTTCTTTTCTATCTTGATATG
1 CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTGAAAGCCTTCTTTTCTATCTTGATATG
* * * * **
108418522 ATTATTATGTTTAGTTAATCGATAAAGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGTAGGTGTA
66 ATTATTATGTTTAGCTAACCGAGAAAGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGTGTA
** *
108418587 ATCGGTACCAAC-TTTCAAGTATTTTGCTGGTGAGTTTCTAAACTCAAA
131 ATCAATACC-ACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
108418635 CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTG-AAGTCCATT-TTTT-TATCTTGATA
1 CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTGAAAG-CC-TTCTTTTCTATCTTGATA
*
108418697 TGATTATTATGTTTAGCTAACCGAGAATGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGTG
64 TGATTATTATGTTTAGCTAACCGAGAAAGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGTG
108418762 TAATCAATACCACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
129 TAATCAATACCACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
108418812 CTCT
1 CTCT
108418816 ATGTGGTTTT
Statistics
Matches: 165, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
176 2 0.01
177 119 0.72
178 42 0.25
179 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (178 bp):
CTCTCTGCATGCAAATGAATTATGATTTTCTTACACTTGAAAGCCTTCTTTTCTATCTTGATATG
ATTATTATGTTTAGCTAACCGAGAAAGAAGAGGCTCAAGTGATAACAAAAAGCTAAGTAGGTGTA
ATCAATACCACTTTTCAAGTATTTTGCTGGTGAGTTTCTAAAATCAAA
Found at i:108419856 original size:23 final size:23
Alignment explanation
Indices: 108419819--108419867 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
108419809 CCAGTTTCCT
* *
108419819 ATTTAGTTTTATTTTTACTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
* *
108419842 ATTTAGGTTTCTTTTCAGTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
108419865 ATT
1 ATT
108419868 ATAATTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.06, G:0.12, T:0.61
Consensus pattern (23 bp):
ATTTAGGTTTATTTTCACTTGTA
Found at i:108427909 original size:30 final size:30
Alignment explanation
Indices: 108427875--108427942 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
108427865 AAAATTAAAA
108427875 AAATTCTA-ACTTCTCCCCTAATTATATGTG
1 AAATT-TATACTTCTCCCCTAATTATATGTG
**
108427905 AAATTTATTTTTCTCCCCTAATTATATGTG
1 AAATTTATACTTCTCCCCTAATTATATGTG
108427935 AAATTTAT
1 AAATTTAT
108427943 TTTTCACTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.46
Consensus pattern (30 bp):
AAATTTATACTTCTCCCCTAATTATATGTG
Found at i:108427943 original size:30 final size:30
Alignment explanation
Indices: 108427885--108427947 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
108427875 AAATTCTAAC
108427885 TTCTCCCCTAATTATATGTGAAATTTATTT
1 TTCTCCCCTAATTATATGTGAAATTTATTT
108427915 TTCTCCCCTAATTATATGTGAAATTTATTT
1 TTCTCCCCTAATTATATGTGAAATTTATTT
108427945 TTC
1 TTC
108427948 ACTCGTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.51
Consensus pattern (30 bp):
TTCTCCCCTAATTATATGTGAAATTTATTT
Found at i:108428663 original size:21 final size:20
Alignment explanation
Indices: 108428633--108428677 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
108428623 GTTACTGATT
*
108428633 ATTTTTTTTTCTTTCTCTTTC
1 ATTTTATTTTCTTTC-CTTTC
108428654 ATTTTATTTTCTTTCCTTTC
1 ATTTTATTTTCTTTCCTTTC
108428674 -TTTT
1 ATTTT
108428678 CGAATCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 5 0.22
21 14 0.61
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTTATTTTCTTTCCTTTC
Found at i:108428687 original size:26 final size:26
Alignment explanation
Indices: 108428632--108428687 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
108428622 GGTTACTGAT
* * * *
108428632 TATTTTTTTTTCTTTCTCTTTCATTT
1 TATTTTCTTTCCTTTCTCTTTCAATC
108428658 TATTTTCTTTCCTTTCT-TTTCGAATC
1 TATTTTCTTTCCTTTCTCTTTC-AATC
108428684 TATT
1 TATT
108428688 GTTCCTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (26 bp):
TATTTTCTTTCCTTTCTCTTTCAATC
Found at i:108430545 original size:90 final size:90
Alignment explanation
Indices: 108430392--108430572 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 90
108430382 ATCCCATGTT
*
108430392 TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTATTAATTCAAACCAATTAT
1 TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
108430457 TCCATTTTATTTCAAGTCAAATCAG
66 TCCATTTTATTTCAAGTCAAATCAG
*
108430482 TATTATTCCTCTTTTTATACGGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
1 TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
108430547 TCCATTTTATTTCAAGTCAAATCAG
66 TCCATTTTATTTCAAGTCAAATCAG
108430572 T
1 T
108430573 GTGTTTTGAG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.45
Consensus pattern (90 bp):
TATTATTCCTCTTTTTATACAGATATTACCTTGTAATTTTCAACTTACTAATTCAAACCAATTAT
TCCATTTTATTTCAAGTCAAATCAG
Found at i:108433524 original size:29 final size:29
Alignment explanation
Indices: 108433465--108433525 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
108433455 TATAGGGACT
* *
108433465 AAACTGAACAATTCACAAAATTTTAGGTA
1 AAACTGAACAATTCACAAAATTTAAGATA
* *
108433494 AAACTGAACAATT-ATAAAATGTTAATATA
1 AAACTGAACAATTCACAAAAT-TTAAGATA
108433523 AAA
1 AAA
108433526 TATATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (29 bp):
AAACTGAACAATTCACAAAATTTAAGATA
Found at i:108436516 original size:19 final size:21
Alignment explanation
Indices: 108436478--108436519 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
108436468 TTGTAGGAAA
*
108436478 TATTAAAAAATTATATAAAAT
1 TATTAAAAAATAATATAAAAT
108436499 TATT-AAAAATAATA-AAAAT
1 TATTAAAAAATAATATAAAAT
108436518 TA
1 TA
108436520 AGATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TATTAAAAAATAATATAAAAT
Found at i:108444107 original size:141 final size:139
Alignment explanation
Indices: 108443854--108444133 Score: 506
Period size: 141 Copynumber: 2.0 Consensus size: 139
108443844 GAAATGGCTC
*
108443854 TCAAAAACCCGGGAAATACAATCCTGCTATTCCAATAAAAAAGCTGTTTTGTCTCCTTTAAGAAT
1 TCAAAAACCCAGGAAATACAATCCTGCTATTCCAATAAAAAAGCTGTTTTGTCTCCTTTAAGAAT
*
108443919 AATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTGTATTCCCTACAATGCTATTTCCCTATT
66 AATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTCCCTACAATGCTATTTCCCTATT
108443984 AGGAACAAA
131 AGGAACAAA
108443993 TCAAAAACCCAGGAAATACAATCCTGCTATTCCAATAAAAAAAGCTGTTTTTGTCTCCTTTAAGA
1 TCAAAAACCCAGGAAATACAATCCTGCTATTCCAAT-AAAAAAGCTG-TTTTGTCTCCTTTAAGA
* *
108444058 ATAATTTTCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTTCCTACAATGCTATTTCCCTA
64 ATAATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTCCCTACAATGCTATTTCCCTA
108444123 TTAGGAACAAA
129 TTAGGAACAAA
108444134 GCAATGCAGT
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
139 35 0.26
140 10 0.07
141 90 0.67
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (139 bp):
TCAAAAACCCAGGAAATACAATCCTGCTATTCCAATAAAAAAGCTGTTTTGTCTCCTTTAAGAAT
AATTTCCTCTTGCTTGCAAATTATGAGTGATGATTTTCTATTCCCTACAATGCTATTTCCCTATT
AGGAACAAA
Found at i:108450670 original size:19 final size:19
Alignment explanation
Indices: 108450646--108450703 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
108450636 GAATATTAAG
108450646 ATAGCAGGTTCAATACTAT
1 ATAGCAGGTTCAATACTAT
108450665 ATAGCAGGTTCAATACTAT
1 ATAGCAGGTTCAATACTAT
*
108450684 ACAGCAGGTTCAATACTAT
1 ATAGCAGGTTCAATACTAT
108450703 A
1 A
108450704 CCCTTAACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (19 bp):
ATAGCAGGTTCAATACTAT
Found at i:108458482 original size:33 final size:33
Alignment explanation
Indices: 108458440--108458502 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
108458430 AAAAAGAAAA
108458440 TATATATAAGAGAAAATAATAATTCTTTGTCTT
1 TATATATAAGAGAAAATAATAATTCTTTGTCTT
108458473 TATATATAAGAGAAAATAATAATTCTTTGT
1 TATATATAAGAGAAAATAATAATTCTTTGT
108458503 ATTTTTAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (33 bp):
TATATATAAGAGAAAATAATAATTCTTTGTCTT
Found at i:108464255 original size:18 final size:18
Alignment explanation
Indices: 108464232--108464267 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
108464222 GTACGTAATA
108464232 CTTATGATTATATAATGT
1 CTTATGATTATATAATGT
108464250 CTTATGATTATATAATGT
1 CTTATGATTATATAATGT
108464268 GTATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTATGATTATATAATGT
Done.