Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 127 of 199
Found at i:36680367 original size:20 final size:18
Alignment explanation
Indices: 36680286--36680371 Score: 95
Period size: 20 Copynumber: 4.6 Consensus size: 18
36680276 CTTCCATATC
36680286 AAAAAAGAAAAAG-AAAT
1 AAAAAAGAAAAAGAAAAT
*
36680303 -AAAAAGGAAAAGAAAAT
1 AAAAAAGAAAAAGAAAAT
36680320 AAAGAAAGTAAAAAGAAAAT
1 AAA-AAAG-AAAAAGAAAAT
*
36680340 AAAGAAAGTAAAAAGAACAT
1 AAA-AAAG-AAAAAGAAAAT
36680360 AGAAAAAGAAAA
1 A-AAAAAGAAAA
36680372 TAAAGAAAGT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.18
17 4 0.07
18 2 0.03
19 8 0.13
20 34 0.56
21 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAT
Found at i:36680825 original size:19 final size:20
Alignment explanation
Indices: 36680774--36680825 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
36680764 TTTTTATAAT
* *
36680774 TTTTATAATT-TTTAATTTT
1 TTTTAAAATTATTTAATTTG
**
36680793 TTTTAAAAAAATTTAA-TTG
1 TTTTAAAATTATTTAATTTG
36680812 TTTTAAAATTATTT
1 TTTTAAAATTATTT
36680826 TTATTATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTAAAATTATTTAATTTG
Found at i:36680928 original size:61 final size:61
Alignment explanation
Indices: 36680861--36680987 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
36680851 AAAAAAAAAC
* * *
36680861 TAATTAATTGC-TAGAGTGTCAATCCACATGTATGGCACAGTTCAACAAAGTTAATAAAAGT
1 TAATTAATTGCTTA-AGTGACAATCCACATATATGGCACACTTCAACAAAGTTAATAAAAGT
* * *
36680922 TAATTAATTGCTTACGTGACAATCCACGTATATGGCACACTTCAACATAGTTAATAAAAGT
1 TAATTAATTGCTTAAGTGACAATCCACATATATGGCACACTTCAACAAAGTTAATAAAAGT
36680983 TAATT
1 TAATT
36680988 TTTTCCATCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (61 bp):
TAATTAATTGCTTAAGTGACAATCCACATATATGGCACACTTCAACAAAGTTAATAAAAGT
Found at i:36682698 original size:62 final size:62
Alignment explanation
Indices: 36682556--36682699 Score: 143
Period size: 62 Copynumber: 2.3 Consensus size: 62
36682546 AATTAGGTTC
* *
36682556 CTCCAAAATTTTTAAAAATTATTATTAAACCTTTGAGAAAATTTAAAAATTTCAATTAGACA
1 CTCCAAAATTTTTAAAAATTATTATAAAACCTCTGAGAAAATTTAAAAATTTCAATTAGACA
* * * * * * *
36682618 CTTC-AATTTTTGTTAAAATTTTTCATAAAACCTCT-A-AAATTATTAAAAGTTTTAATTAGAC-
1 CTCCAAAATTTT-TAAAAATTATT-ATAAAACCTCTGAGAAAAT-TTAAAAATTTCAATTAGACA
36682679 CTACCAAAATTTTTAAAAATT
1 CT-CCAAAATTTTTAAAAATT
36682700 CCGACTAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
61 12 0.18
62 38 0.58
63 15 0.23
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (62 bp):
CTCCAAAATTTTTAAAAATTATTATAAAACCTCTGAGAAAATTTAAAAATTTCAATTAGACA
Found at i:36683665 original size:56 final size:55
Alignment explanation
Indices: 36683524--36683668 Score: 175
Period size: 56 Copynumber: 2.6 Consensus size: 55
36683514 TAACTAGCTG
* * * * * * *
36683524 GTGACCAAAAAAGAAAAACCATAAATAAATGGCTATTTTATAACTTTTCATAGTTGG
1 GTGACAAAAAAAG-AAAACCAT-AATGAGTGACCATTTTAAAACTTTTCATAGTTGA
36683581 GTGACAAAAAAA-AACAGACCATAATGAGTGACCATTTTAAAACTTTTCATAGTTGA
1 GTGACAAAAAAAGAA-A-ACCATAATGAGTGACCATTTTAAAACTTTTCATAGTTGA
36683637 GTGACAAAAAAAGAAAACCATAATTGAGTGAC
1 GTGACAAAAAAAGAAAACCATAA-TGAGTGAC
36683669 TGCTAAAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.12
56 50 0.65
57 18 0.23
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (55 bp):
GTGACAAAAAAAGAAAACCATAATGAGTGACCATTTTAAAACTTTTCATAGTTGA
Found at i:36684057 original size:17 final size:19
Alignment explanation
Indices: 36684024--36684058 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
36684014 GTTGTTTGGA
36684024 TATTATATAACTTTTGTTT
1 TATTATATAACTTTTGTTT
36684043 TATTAT-TAA-TTTTGTT
1 TATTATATAACTTTTGTT
36684059 ACTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (19 bp):
TATTATATAACTTTTGTTT
Found at i:36689075 original size:23 final size:24
Alignment explanation
Indices: 36689048--36689092 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36689038 GAAAAATATT
*
36689048 AAATAT-ATATTTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
36689071 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
36689093 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:36689203 original size:9 final size:9
Alignment explanation
Indices: 36689189--36689216 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
36689179 TTTTGTTACA
36689189 ACAATTAAT
1 ACAATTAAT
36689198 ACAATTAAT
1 ACAATTAAT
36689207 ACAATTAAT
1 ACAATTAAT
36689216 A
1 A
36689217 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:36689238 original size:68 final size:66
Alignment explanation
Indices: 36689159--36689300 Score: 230
Period size: 68 Copynumber: 2.1 Consensus size: 66
36689149 TCAAGTTTGT
* * *
36689159 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAACTAAAAATTTGAT
36689224 AAA
64 AAA
36689227 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAACTAAAAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAACTAAAAATTTGATAA
*
36689292 T
66 A
36689293 TTTACTAA
1 TTTACTAA
36689301 CAATTAATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 25 0.36
67 1 0.01
68 44 0.63
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAACTAAAAATTTGATAA
A
Found at i:36689310 original size:16 final size:16
Alignment explanation
Indices: 36689289--36689330 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
36689279 AAAAATTTGA
*
36689289 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
36689305 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
36689321 TAGTTTTAAT
1 TAATTTTAAT
36689331 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:36689314 original size:22 final size:23
Alignment explanation
Indices: 36689304--36689365 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
36689294 TTACTAACAA
* * *
36689304 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
36689326 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
36689349 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
36689366 CAGGCCGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:36692686 original size:7 final size:7
Alignment explanation
Indices: 36692674--36692699 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36692664 ACTAAACGTA
36692674 CAAAACC
1 CAAAACC
36692681 CAAAACC
1 CAAAACC
36692688 CAAAACC
1 CAAAACC
36692695 CAAAA
1 CAAAA
36692700 ATAATGCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAACC
Found at i:36695243 original size:49 final size:47
Alignment explanation
Indices: 36694918--36695564 Score: 935
Period size: 47 Copynumber: 13.6 Consensus size: 47
36694908 CCCTTCGGGA
* * *
36694918 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTC-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36694964 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36695011 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
36695058 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
36695105 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
36695152 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
36695199 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36695248 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36695295 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36695344 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
36695393 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36695442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36695489 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36695538 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
36695565 TATTCAAATA
Statistics
Matches: 576, Mismatches: 16, Indels: 17
0.95 0.03 0.03
Matches are distributed among these distances:
46 42 0.07
47 300 0.52
49 233 0.40
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:36695277 original size:96 final size:96
Alignment explanation
Indices: 36694918--36695564 Score: 974
Period size: 96 Copynumber: 6.8 Consensus size: 96
36694908 CCCTTCGGGA
* *
36694918 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTC-GCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
36694980 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36695011 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
* *
36695073 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATCGGCCATTAGGC
* * * *
36695105 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
* *
36695167 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATCGGCCATTAGGC
36695199 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
36695264 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
36695295 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
36695360 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36695393 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
36695458 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
36695489 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
36695554 ACTTTCACATT
66 ACTTTCACATT
36695565 TATTCAAATA
Statistics
Matches: 522, Mismatches: 21, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
92 2 0.00
93 36 0.07
94 143 0.27
96 244 0.47
97 2 0.00
98 95 0.18
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36696958 original size:85 final size:85
Alignment explanation
Indices: 36696829--36697007 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
36696819 TATTTTATTG
*
36696829 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGATTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGATTT
36696894 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
36696914 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGATTT
36696979 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
36696999 CCCATGCTC
1 CCCATGCTC
36697008 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGATTT
TAGCCATAACATCTTGTCCA
Found at i:36701117 original size:19 final size:20
Alignment explanation
Indices: 36701073--36701117 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
36701063 ATGAAAACTC
36701073 AAAAGAAAAGAAAATTGAGA
1 AAAAGAAAAGAAAATTGAGA
*
36701093 AGAAG-AAAGAAAAATTGA-A
1 AAAAGAAAAG-AAAATTGAGA
36701112 AAAAGA
1 AAAAGA
36701118 GAGTCAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (20 bp):
AAAAGAAAAGAAAATTGAGA
Found at i:36705381 original size:24 final size:24
Alignment explanation
Indices: 36705347--36705408 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
36705337 CCTTTTTGAG
*
36705347 CCATTTCGTACCGAAAATCCCATA
1 CCATTTCGTACCAAAAATCCCATA
* *
36705371 CCATTTTGTACCAAAAATCCGATA
1 CCATTTCGTACCAAAAATCCCATA
*
36705395 CCATTTCATACCAA
1 CCATTTCGTACCAA
36705409 TACCCAATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.27
Consensus pattern (24 bp):
CCATTTCGTACCAAAAATCCCATA
Found at i:36707210 original size:26 final size:26
Alignment explanation
Indices: 36707174--36707235 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
36707164 ACATATTTTC
36707174 TCAAAATTTTACCAAGGGCAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
* * *
36707200 TCAAAATTTTACTATGGGTAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
36707226 TCAAAATTTT
1 TCAAAATTTT
36707236 GTTGGGGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:36707244 original size:26 final size:26
Alignment explanation
Indices: 36707174--36707249 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
36707164 ACATATTTTC
* * *
36707174 TCAAAATTTTACCAAGGGCAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
*
36707200 TCAAAATTTTACTATGGGTAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
** *
36707226 TCAAAATTTTGTTGGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
36707250 AGGGATGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:36713331 original size:15 final size:16
Alignment explanation
Indices: 36713311--36713340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36713301 TGGTGCCTTG
36713311 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
36713326 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
36713341 AGCATATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:36716216 original size:15 final size:15
Alignment explanation
Indices: 36716192--36716221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36716182 TACGGTGTAT
*
36716192 TGGTGCTTGATAACA
1 TGGTGATTGATAACA
36716207 TGGTGATTGATAACA
1 TGGTGATTGATAACA
36716222 CAGTGTCTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (15 bp):
TGGTGATTGATAACA
Found at i:36724621 original size:45 final size:45
Alignment explanation
Indices: 36724530--36724621 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 45
36724520 ACGAAAATAA
* *
36724530 AAATTTCAAAGTTAATTAGAAAATTTCTTCTCAAAAGATTACATT
1 AAATTTCAAAGTTAATTAGAAAATTTCTTCTAAAAAGATTAAATT
*
36724575 AAATTTCAAAGTTAATTAGAAAA-TT-TTCTAAATTAATATTAAATT
1 AAATTTCAAAGTTAATTAGAAAATTTCTTCTAAA--AAGATTAAATT
36724620 AA
1 AA
36724622 TATTACCACG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 6 0.14
44 2 0.05
45 34 0.81
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (45 bp):
AAATTTCAAAGTTAATTAGAAAATTTCTTCTAAAAAGATTAAATT
Found at i:36736055 original size:34 final size:34
Alignment explanation
Indices: 36736017--36736084 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
36736007 TTTCTTATCC
36736017 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
1 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
36736051 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
1 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
36736085 TTCTTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.35, G:0.09, T:0.29
Consensus pattern (34 bp):
ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
Found at i:36756339 original size:37 final size:37
Alignment explanation
Indices: 36756279--36756354 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
36756269 TATTACGAAA
* * *
36756279 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
36756316 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
36756353 TC
1 TC
36756355 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:36756651 original size:49 final size:47
Alignment explanation
Indices: 36756475--36756913 Score: 644
Period size: 47 Copynumber: 9.2 Consensus size: 47
36756465 CCCTTCGGGA
* * * * * *
36756475 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36756522 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
36756569 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36756616 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36756665 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36756712 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36756761 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36756808 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36756856 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36756905 CTTATCACA
1 CTTATCACA
36756914 ATTTAAAATT
Statistics
Matches: 355, Mismatches: 30, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
47 177 0.50
48 44 0.12
49 134 0.38
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36756670 original size:96 final size:95
Alignment explanation
Indices: 36756475--36756915 Score: 670
Period size: 96 Copynumber: 4.6 Consensus size: 95
36756465 CCCTTCGGGA
** * * * * ** * *
36756475 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAATATATACA
*
36756539 CTTTCACATTCATCACATCGGCCATTAAGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
36756569 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
36756634 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
36756665 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ATATATAC
*
36756730 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
36756761 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCCTATTCAC-ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACAATATATAC
36756825 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
36756856 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAAT
36756916 TTAAAATTCA
Statistics
Matches: 322, Mismatches: 19, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
94 44 0.14
95 46 0.14
96 186 0.58
97 46 0.14
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36758599 original size:39 final size:39
Alignment explanation
Indices: 36758545--36758622 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
36758535 CTCTCCCTAA
*
36758545 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
36758584 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
36758623 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:36760236 original size:25 final size:25
Alignment explanation
Indices: 36760208--36760286 Score: 131
Period size: 25 Copynumber: 3.2 Consensus size: 25
36760198 TCATTAGGGT
36760208 TACTGATTTATAGCTCATGAGAGCA
1 TACTGATTTATAGCTCATGAGAGCA
*
36760233 TACTGATTTATAGCACATGAGAGCA
1 TACTGATTTATAGCTCATGAGAGCA
* *
36760258 TACCGATTTATAGCTCGTGAGAGCA
1 TACTGATTTATAGCTCATGAGAGCA
36760283 TACT
1 TACT
36760287 AATCTTTAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (25 bp):
TACTGATTTATAGCTCATGAGAGCA
Found at i:36763328 original size:40 final size:40
Alignment explanation
Indices: 36763181--36763403 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
36763171 TTGAATGCTG
* * * *
36763181 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
36763221 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
36763260 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * **
36763299 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
36763339 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
36763378 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
36763404 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 22 0.14
39 58 0.37
40 66 0.42
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:36763365 original size:79 final size:78
Alignment explanation
Indices: 36763234--36763401 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 78
36763224 GGACTAAGAT
* *
36763234 CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGATACTAAA
1 CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAA
* *
36763299 TCCGGGTTAAGTC
66 ACCGGGCTAAGTC
* ** * * *
36763312 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAG-CCCGAAGGCCATTGTGCGAGATACTA
*
36763376 AAACCGGGCTATGTC
64 AAACCGGGCTAAGTC
36763391 CCGAAGGCATT
1 CCGAAGGCATT
36763402 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 19 0.25
79 50 0.65
80 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:36763421 original size:79 final size:80
Alignment explanation
Indices: 36763257--36763436 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 80
36763247 TGCGAGATAC
* * *
36763257 AAATCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA
1 AAATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCA
** ** *
36763321 TTCGTGCGAGTTGTT
66 TTCGAACGAGGAGCT
* * * *
36763336 AAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 AAATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCA
*
36763400 TTTGAACGAGGAGCT
66 TTCGAACGAGGAGCT
* *
36763415 ATATCC-GGTTAAATCCCGAAGG
1 AAATCCGGGTTAAGTCCCGAAGG
36763437 TACGTGATTT
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
78 14 0.17
79 62 0.74
80 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
AAATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCA
TTCGAACGAGGAGCT
Found at i:36771278 original size:39 final size:39
Alignment explanation
Indices: 36771074--36771296 Score: 193
Period size: 40 Copynumber: 5.6 Consensus size: 39
36771064 TTGAATGCTG
* * * * *
36771074 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
36771114 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
*
36771153 TTCCGGGTTAAG-CCCTGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCC-GAAGG-CATTGTGCGAGATACTAAA
* **
36771194 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
36771234 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
36771273 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36771297 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
39 41 0.26
40 97 0.63
41 16 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:36771316 original size:79 final size:80
Alignment explanation
Indices: 36771154--36771331 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
36771144 AGATACAAAT
* * *
36771154 TCCGGGTTAAG-CCCTGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCC-GAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
36771218 CGTGCGAGTTGTTAAA
65 CGAACGAGGAGCTAAA
* * * * *
36771234 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
36771298 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
36771313 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36771332 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 15 0.19
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:36775284 original size:50 final size:50
Alignment explanation
Indices: 36775182--36775370 Score: 164
Period size: 50 Copynumber: 3.7 Consensus size: 50
36775172 ATGAGATCCA
**
36775182 ATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---A-G--ATGAGAGGTCCC
36775238 ATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCAAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCAAGATGAGAGGTCCC
** * * * * * * * **
36775288 CCGTAAGACCCTGCCTGGGACATGGTATGGGCACCGATATGAAAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCC
* * *
36775338 ATGTAAGACCATATCTAGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
36775371 GTACAGGAGA
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
50 74 0.67
51 1 0.01
52 1 0.01
53 1 0.01
55 1 0.01
56 32 0.29
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCC
Found at i:36775648 original size:20 final size:20
Alignment explanation
Indices: 36775623--36775671 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
36775613 TGAGTTATTT
*
36775623 AAGTAAGCAAGTGAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
36775643 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
36775663 AAG-AAGCAA
1 AAGTAAGCAA
36775672 AGACCACGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:36784472 original size:29 final size:28
Alignment explanation
Indices: 36784420--36784495 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
36784410 TGCGACTTGG
*
36784420 CACACGGCCCACACACGTTCGTGTGTCA
1 CACACGGCCCACACACGGTCGTGTGTCA
* * *
36784448 CACATGGCCCATCACATGGTCGTGTGTTA
1 CACACGGCCCA-CACACGGTCGTGTGTCA
*
36784477 CACACGGCCTACCACACGG
1 CACACGGCCCA-CACACGG
36784496 CCAAGTGGCG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 10 0.26
29 29 0.74
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.18
Consensus pattern (28 bp):
CACACGGCCCACACACGGTCGTGTGTCA
Found at i:36786419 original size:21 final size:23
Alignment explanation
Indices: 36786393--36786434 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
36786383 GGTAGGAATG
36786393 TTTTTGAAAAA-CT-TGCATTGA
1 TTTTTGAAAAAGCTCTGCATTGA
36786414 TTTTTGAAAAAGCTCTGCATT
1 TTTTTGAAAAAGCTCTGCATT
36786435 AACATCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (23 bp):
TTTTTGAAAAAGCTCTGCATTGA
Found at i:36786937 original size:47 final size:47
Alignment explanation
Indices: 36786879--36786973 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
36786869 AATTAGTATT
36786879 TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
1 TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
* *
36786926 TGATAAGATTATGTATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
1 TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
36786973 T
1 T
36786974 CACTCTTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (47 bp):
TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
Found at i:36796419 original size:20 final size:22
Alignment explanation
Indices: 36796367--36796434 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 22
36796357 TGTCACTCAG
*
36796367 TCACACTGGCGTGTGCCTCCTT
1 TCACACAGGCGTGTGCCTCCTT
* *
36796389 TTACACAGGCGTGTG-CTTC-T
1 TCACACAGGCGTGTGCCTCCTT
* *
36796409 TCACACGGGCGTGTTCCT-CTT
1 TCACACAGGCGTGTGCCTCCTT
36796430 TCACA
1 TCACA
36796435 TGGGTGTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 14 0.37
21 11 0.29
22 13 0.34
ACGTcount: A:0.13, C:0.32, G:0.22, T:0.32
Consensus pattern (22 bp):
TCACACAGGCGTGTGCCTCCTT
Found at i:36806181 original size:70 final size:70
Alignment explanation
Indices: 36806063--36806202 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
36806053 TAAGCCATGA
36806063 AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
1 AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
36806128 AATTT
66 AATTT
* *
36806133 AAATGGCTTGAGTATTTGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
1 AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
36806198 AATTT
66 AATTT
36806203 TTTATGTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (70 bp):
AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
AATTT
Found at i:36810680 original size:21 final size:20
Alignment explanation
Indices: 36810654--36810700 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
36810644 CATGAGGGAA
36810654 ATGTATCGA-TACATCCCTTAG
1 ATGTATC-ACTACAT-CCTTAG
*
36810675 ATGTATCACTACATCTTTAG
1 ATGTATCACTACATCCTTAG
36810695 ATGTAT
1 ATGTAT
36810701 TGGTACAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCACTACATCCTTAG
Found at i:36811415 original size:13 final size:13
Alignment explanation
Indices: 36811397--36811421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36811387 TATTTTATTT
36811397 TAGAAAATTTTTG
1 TAGAAAATTTTTG
36811410 TAGAAAATTTTT
1 TAGAAAATTTTT
36811422 AAAATACCAT
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TAGAAAATTTTTG
Found at i:36812985 original size:23 final size:22
Alignment explanation
Indices: 36812958--36813017 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
36812948 CGACATTACC
*
36812958 TTTAAACTTATTATTATTATAAT
1 TTTAAA-TTATTATTACTATAAT
* *
36812981 TTTAAAATGTACTA-TACTATTAT
1 TTT-AAAT-TATTATTACTATAAT
36813004 TTTAAATTATTATT
1 TTTAAATTATTATT
36813018 GACATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 14 0.47
24 7 0.23
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAATTATTATTACTATAAT
Found at i:36813048 original size:21 final size:21
Alignment explanation
Indices: 36813024--36813067 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
36813014 TATTGACATG
*
36813024 TTTTAAATTTATCATACATTT
1 TTTTAAATCTATCATACATTT
* * *
36813045 TTTTATATCTATTATATATTT
1 TTTTAAATCTATCATACATTT
36813066 TT
1 TT
36813068 ATCTTCAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAAATCTATCATACATTT
Found at i:36815359 original size:24 final size:24
Alignment explanation
Indices: 36815332--36815407 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 24
36815322 ATTTTGATAG
*
36815332 AATCTAAATTAAAAGATTAAAATA
1 AATCTAAATTTAAAGATTAAAATA
36815356 AATCTAATTACTAATTTAAAGATTAAAATA
1 AATC----TA--AATTTAAAGATTAAAATA
36815386 AATCTAAATTTAAAGATTAAAA
1 AATCTAAATTTAAAGATTAAAA
36815408 AATATAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
24 20 0.44
26 2 0.04
28 2 0.04
30 21 0.47
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (24 bp):
AATCTAAATTTAAAGATTAAAATA
Found at i:36815375 original size:31 final size:30
Alignment explanation
Indices: 36815335--36815392 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
36815325 TTGATAGAAT
36815335 CTAAATTAAAAGATTAAAATAAATCTAATTA
1 CTAAATT-AAAGATTAAAATAAATCTAATTA
*
36815366 CTAATTTAAAGATTAAAATAAATCTAA
1 CTAAATTAAAGATTAAAATAAATCTAA
36815393 ATTTAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (30 bp):
CTAAATTAAAGATTAAAATAAATCTAATTA
Found at i:36816435 original size:18 final size:19
Alignment explanation
Indices: 36816393--36816436 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
36816383 AATTTTAAAC
36816393 TATTTTAGGAAAATTTTTA
1 TATTTTAGGAAAATTTTTA
*
36816412 TATTTTA-GAAAGTTTATTA
1 TATTTTAGGAAAATTT-TTA
36816431 T-TTTTA
1 TATTTTA
36816437 AAATTTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
TATTTTAGGAAAATTTTTA
Found at i:36816996 original size:19 final size:20
Alignment explanation
Indices: 36816936--36816988 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
36816926 CAAAGATTAC
*
36816936 AAAATAATTCAAAATAATTT-T
1 AAAA-AATTCAAAAT-GTTTAT
36816957 AAAAAATTCAAAATGTTTAT
1 AAAAAATTCAAAATGTTTAT
36816977 AAAAAATTCAAA
1 AAAAAATTCAAA
36816989 TTTTTATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAATTCAAAATGTTTAT
Found at i:36826864 original size:9 final size:10
Alignment explanation
Indices: 36826844--36826872 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
36826834 ATTGCGTGTT
36826844 TGAATAGAAA
1 TGAATAGAAA
36826854 TGAAT-GAAA
1 TGAATAGAAA
36826863 TGAATAGAAA
1 TGAATAGAAA
36826873 AGAGAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:36827163 original size:26 final size:26
Alignment explanation
Indices: 36827129--36827192 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
36827119 TGAATGAATT
36827129 TTGTCAAAATTTTAGCAGGGGCAAAA
1 TTGTCAAAATTTTAGCAGGGGCAAAA
* * *
36827155 TTGTCAAAATTTTATCGGGGGTAAAA
1 TTGTCAAAATTTTAGCAGGGGCAAAA
*
36827181 TTGTTAAAATTT
1 TTGTCAAAATTT
36827193 ACTGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (26 bp):
TTGTCAAAATTTTAGCAGGGGCAAAA
Found at i:36831424 original size:18 final size:18
Alignment explanation
Indices: 36831398--36831432 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36831388 TTATGCATGC
*
36831398 TCACATATCATTTTCATT
1 TCACATATCACTTTCATT
*
36831416 TCACTTATCACTTTCAT
1 TCACATATCACTTTCAT
36831433 ATAATTCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACATATCACTTTCATT
Found at i:36845155 original size:17 final size:19
Alignment explanation
Indices: 36845121--36845158 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
36845111 TCAAAAGTAT
*
36845121 AAAAATTTAGAAATTATAA
1 AAAAATATAGAAATTATAA
36845140 AAAAATATA-AAATATATAA
1 AAAAATATAGAAAT-TATAA
36845159 TAAATTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAATATAGAAATTATAA
Found at i:36845312 original size:14 final size:14
Alignment explanation
Indices: 36845293--36845333 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
36845283 CATATAGAAA
36845293 TTATTATAAAAAAT
1 TTATTATAAAAAAT
*
36845307 TTATTA-ATAAAAT
1 TTATTATAAAAAAT
*
36845320 TTA-TATACAAAAT
1 TTATTATAAAAAAT
36845333 T
1 T
36845334 ACAATCTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 16 0.67
14 6 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
TTATTATAAAAAAT
Found at i:36846732 original size:10 final size:10
Alignment explanation
Indices: 36846683--36846730 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
36846673 TAAACTCCCA
36846683 AAAGATAAAT
1 AAAGATAAAT
** *
36846693 AAATTTAATT
1 AAAGATAAAT
*
36846703 CAAGATAAAT
1 AAAGATAAAT
36846713 AAAGATAAAT
1 AAAGATAAAT
36846723 AAA-ATAAA
1 AAAGATAAA
36846731 ATCCTAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:36848717 original size:5 final size:5
Alignment explanation
Indices: 36848707--36848757 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
36848697 ATTAATATCC
*
36848707 AAATA AAATA AAGTA ATAA-A TAAATA AAATA AAATAA AAATAA AAATA
1 AAATA AAATA AAATA A-AATA -AAATA AAATA AAAT-A AAAT-A AAATA
36848755 AAA
1 AAA
36848758 ATTAGGTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 26 0.65
6 14 0.35
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:36848723 original size:21 final size:21
Alignment explanation
Indices: 36848706--36848757 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
36848696 TATTAATATC
36848706 CAAATAAAATAAAGTAATAAA
1 CAAATAAAATAAAGTAATAAA
* * *
36848727 TAAATAAAATAAAATAAAAATA
1 CAAATAAAATAAAGTAATAA-A
*
36848749 AAAATAAAA
1 CAAATAAAA
36848758 ATTAGGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
CAAATAAAATAAAGTAATAAA
Found at i:36848748 original size:6 final size:6
Alignment explanation
Indices: 36848728--36848759 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
36848718 AGTAATAAAT
36848728 AAAT-A AAAT-A AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
36848760 TAGGTTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:36848753 original size:26 final size:26
Alignment explanation
Indices: 36848707--36848756 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
36848697 ATTAATATCC
*
36848707 AAATAAAATAAAGTAATAAATAAATA
1 AAATAAAATAAAATAATAAATAAATA
36848733 AAATAAAATAAAAATAA-AAATAAA
1 AAATAAAAT-AAAATAATAAATAAA
36848757 AATTAGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (26 bp):
AAATAAAATAAAATAATAAATAAATA
Found at i:36848754 original size:12 final size:11
Alignment explanation
Indices: 36848707--36848759 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
36848697 ATTAATATCC
36848707 AAAT-AAAATA
1 AAATAAAAATA
*
36848717 AAGTAATAAAT-
1 AAATAA-AAATA
36848728 AAAT-AAAATA
1 AAATAAAAATA
36848738 AAATAAAAATAA
1 AAATAAAAAT-A
36848750 AAATAAAAAT
1 AAATAAAAAT
36848760 TAGGTTACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 8 0.22
11 9 0.25
12 15 0.42
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:36852221 original size:15 final size:14
Alignment explanation
Indices: 36852200--36852235 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
36852190 ATAATCCTTA
*
36852200 ATAATTATCTTAAT
1 ATAATTATCCTAAT
36852214 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
36852229 ATAATTA
1 ATAATTA
36852236 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:36854492 original size:9 final size:9
Alignment explanation
Indices: 36854480--36854547 Score: 109
Period size: 9 Copynumber: 7.6 Consensus size: 9
36854470 TCAATTCAGT
36854480 TAATTCGGG
1 TAATTCGGG
36854489 TAATTCGGG
1 TAATTCGGG
*
36854498 TAATTCGGT
1 TAATTCGGG
*
36854507 TAATTCGGT
1 TAATTCGGG
36854516 TAATTCGGG
1 TAATTCGGG
36854525 TAATTCGGG
1 TAATTCGGG
*
36854534 TAATTCGGT
1 TAATTCGGG
36854543 TAATT
1 TAATT
36854548 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:36854503 original size:27 final size:27
Alignment explanation
Indices: 36854472--36854547 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
36854462 GTAGTGATTC
* *
36854472 AATTCAGTTAATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
36854499 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
*
36854526 AATTCGGGTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
36854548 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:36865991 original size:13 final size:13
Alignment explanation
Indices: 36865973--36866005 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
36865963 AATATTGTAT
*
36865973 ATAATTTTTATTA
1 ATAATTTTTAATA
36865986 ATAATTTTTAATA
1 ATAATTTTTAATA
36865999 ATAATTT
1 ATAATTT
36866006 ATATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATAATTTTTAATA
Found at i:36866028 original size:26 final size:25
Alignment explanation
Indices: 36865971--36866028 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
36865961 GTAATATTGT
* * * *
36865971 ATATAATTTTTATTAATAATTTTTA
1 ATATAATTTATATTAAAAAATTTGA
36865996 ATAATAATTTATATATAAAAAATTTGA
1 AT-ATAATTTATAT-TAAAAAATTTGA
36866023 ATATAA
1 ATATAA
36866029 AAATTATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.07
26 14 0.52
27 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATAATTTATATTAAAAAATTTGA
Found at i:36866311 original size:20 final size:18
Alignment explanation
Indices: 36866282--36866318 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
36866272 TTAATTACTT
36866282 TTTATATTTTTAAAAAATA
1 TTTATA-TTTTAAAAAATA
36866301 TTTATTATTTTAAAAAAT
1 TTTA-TATTTTAAAAAAT
36866319 TGAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATATTTTAAAAAATA
Found at i:36867510 original size:16 final size:16
Alignment explanation
Indices: 36867489--36867521 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36867479 TTCCCAGTAC
*
36867489 TGGAATAGAGCTGTAA
1 TGGAATAGAACTGTAA
36867505 TGGAATAGAACTGTAA
1 TGGAATAGAACTGTAA
36867521 T
1 T
36867522 AAGTAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.27
Consensus pattern (16 bp):
TGGAATAGAACTGTAA
Found at i:36867815 original size:20 final size:20
Alignment explanation
Indices: 36867790--36867831 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36867780 ATAACATTCT
36867790 TAATATAATTTTTATTAAAA
1 TAATATAATTTTTATTAAAA
36867810 TAATATAATTTTTATTAAAA
1 TAATATAATTTTTATTAAAA
36867830 TA
1 TA
36867832 TGAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATATAATTTTTATTAAAA
Found at i:36870094 original size:16 final size:16
Alignment explanation
Indices: 36870073--36870105 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36870063 CAAAACAATG
36870073 AATATTTGAGATGATA
1 AATATTTGAGATGATA
*
36870089 AATATTTTAGATGATA
1 AATATTTGAGATGATA
36870105 A
1 A
36870106 GCTAGACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
AATATTTGAGATGATA
Found at i:36870820 original size:20 final size:20
Alignment explanation
Indices: 36870795--36870855 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
36870785 GCAGCAGATG
36870795 GGGAAATAAGAAGGAAAAAA
1 GGGAAATAAGAAGGAAAAAA
* *
36870815 GGGAAATAA-TATG----AA
1 GGGAAATAAGAAGGAAAAAA
36870830 GGGAAATAAGAAGGAAAAAA
1 GGGAAATAAGAAGGAAAAAA
36870850 GGGAAA
1 GGGAAA
36870856 CGCAGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.61, C:0.00, G:0.31, T:0.08
Consensus pattern (20 bp):
GGGAAATAAGAAGGAAAAAA
Found at i:36876367 original size:16 final size:16
Alignment explanation
Indices: 36876346--36876379 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
36876336 TATACATACA
36876346 ATTTTTATT-TATATAT
1 ATTTTT-TTCTATATAT
36876362 ATTTTTTTCTATATAT
1 ATTTTTTTCTATATAT
36876378 AT
1 AT
36876380 ACTTATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTTCTATATAT
Found at i:36888108 original size:19 final size:20
Alignment explanation
Indices: 36888086--36888123 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36888076 GATTTATTTT
36888086 TATTAA-TAA-ATAAAGTAAA
1 TATTAAGTAATAT-AAGTAAA
36888105 TATTAAGTAATATAAGTAA
1 TATTAAGTAATATAAGTAA
36888124 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 9 0.53
21 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
TATTAAGTAATATAAGTAAA
Found at i:36888125 original size:19 final size:19
Alignment explanation
Indices: 36888086--36888123 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
36888076 GATTTATTTT
36888086 TATTAATAAATAAAGTAAA
1 TATTAATAAATAAAGTAAA
36888105 TATTAAGT-AATATAAGTAA
1 TATTAA-TAAATA-AAGTAA
36888124 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (19 bp):
TATTAATAAATAAAGTAAA
Found at i:36889450 original size:20 final size:19
Alignment explanation
Indices: 36889335--36889457 Score: 81
Period size: 20 Copynumber: 6.3 Consensus size: 19
36889325 TGTACGGGAC
36889335 TACACTTCGGTGCCTCTGTT
1 TACACTTCGGTGCCTCTG-T
* **
36889355 TGCACTTTAGTGCCTCTGT
1 TACACTTCGGTGCCTCTGT
*
36889374 TACACTTCGGTGTTCCTAT-T
1 TACACTTCGGTG--CCTCTGT
** *
36889394 CGCACTTCGATGCCTCTGAT
1 TACACTTCGGTGCCTCTG-T
* *
36889414 TGCACAATT--GTGTCTCTGT
1 T--ACACTTCGGTGCCTCTGT
36889433 CTACACTTCGGTGCCTCTGT
1 -TACACTTCGGTGCCTCTGT
36889453 TACAC
1 TACAC
36889458 ATCTACGATG
Statistics
Matches: 76, Mismatches: 18, Indels: 19
0.67 0.16 0.17
Matches are distributed among these distances:
18 9 0.12
19 16 0.21
20 43 0.57
21 4 0.05
22 4 0.05
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (19 bp):
TACACTTCGGTGCCTCTGT
Found at i:36899070 original size:26 final size:27
Alignment explanation
Indices: 36899002--36899072 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
36898992 AATTTTCTTG
* *
36899002 AAATTTTATCGAGGGT-AAAATAGTTA
1 AAATTTTATCAAGGGTAAAAATAGTCA
*
36899028 AAATTTTATCAAAGGTAAAAAT-GTCA
1 AAATTTTATCAAGGGTAAAAATAGTCA
* *
36899054 AAATTTTATTAGGGGTAAA
1 AAATTTTATCAAGGGTAAA
36899073 TTTGGGGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 33 0.87
27 5 0.13
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (27 bp):
AAATTTTATCAAGGGTAAAAATAGTCA
Found at i:36903406 original size:95 final size:95
Alignment explanation
Indices: 36903306--36903484 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 95
36903296 AACATAACCT
* *
36903306 CATGTTTAACGTCTT-ATCGGACTACCCCGTGTTTATTGTCCCGGTGGACTCTC-TATGTTGCCA
1 CATGTTTAACGTCTTGAT-GGACTACCCCGTGTTTATTATCCCAGTGGACTC-CATATGTTGCCA
*
36903369 TAGTCAAGCTATGGTCTTACATAATATAACTC
64 TAGTCAAGCTATCGTCTTACATAATATAACTC
* * * * * *
36903401 CATGTTTAATGTCTTGGTGGATTACCCTGTGTTTATTATCCTAGTGGACTCCATATGTTGTCATA
1 CATGTTTAACGTCTTGATGGACTACCCCGTGTTTATTATCCCAGTGGACTCCATATGTTGCCATA
*
36903466 GTCGAGCTATCGTCTTACA
66 GTCAAGCTATCGTCTTACA
36903485 CGTCATACCC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 1 0.01
95 70 0.97
96 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (95 bp):
CATGTTTAACGTCTTGATGGACTACCCCGTGTTTATTATCCCAGTGGACTCCATATGTTGCCATA
GTCAAGCTATCGTCTTACATAATATAACTC
Found at i:36906742 original size:16 final size:16
Alignment explanation
Indices: 36906721--36906768 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
36906711 TGGATTGTTT
36906721 TTAAGTATATTATATG
1 TTAAGTATATTATATG
36906737 TTAAGTTATATT-TAT-
1 TTAAG-TATATTATATG
36906752 TTAA-TA-A-TATATG
1 TTAAGTATATTATATG
36906765 TTAA
1 TTAA
36906769 AATAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 1 0.03
12 4 0.14
13 6 0.21
15 4 0.14
16 8 0.28
17 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (16 bp):
TTAAGTATATTATATG
Found at i:36911861 original size:17 final size:16
Alignment explanation
Indices: 36911841--36911878 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
36911831 ATTTAATCAA
36911841 TTAATTAAATTAATTTC
1 TTAATTAAA-TAATTTC
*
36911858 TTAATTAAATAATTTT
1 TTAATTAAATAATTTC
36911874 TTAAT
1 TTAAT
36911879 CTAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTAAATAATTTC
Found at i:36913784 original size:18 final size:18
Alignment explanation
Indices: 36913762--36913795 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36913752 TTTCTCACTT
36913762 TTTTTTAAT-TTTTATTA
1 TTTTTTAATATTTTATTA
36913779 TTTTTTAATATTTTATT
1 TTTTTTAATATTTTATT
36913796 TTATTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTAATATTTTATTA
Found at i:36913915 original size:23 final size:22
Alignment explanation
Indices: 36913860--36913916 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
36913850 ATTCTCATTT
*
36913860 AGTTAAAAATATATTTTTTGAA
1 AGTTAAAAATATATTATTTGAA
* *
36913882 ATTGTACAAATATATTATTTGATA
1 AGT-TAAAAATATATTATTTGA-A
36913906 AGTTAAAAATA
1 AGTTAAAAATA
36913917 AACAAGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.07
23 23 0.82
24 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (22 bp):
AGTTAAAAATATATTATTTGAA
Found at i:36916016 original size:20 final size:20
Alignment explanation
Indices: 36915991--36916031 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
36915981 CTCATCGAGT
36915991 CAGAGTCAAAGCCACCCAAA
1 CAGAGTCAAAGCCACCCAAA
36916011 CAGAGTCAAAGCCACCCAAA
1 CAGAGTCAAAGCCACCCAAA
36916031 C
1 C
36916032 CCCCCAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.37, G:0.15, T:0.05
Consensus pattern (20 bp):
CAGAGTCAAAGCCACCCAAA
Found at i:36916699 original size:47 final size:47
Alignment explanation
Indices: 36916630--36916724 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
36916620 AAAGAATATA
* *
36916630 CAATTTAATCATGGTCATATTTTAAAAAGTATAACTT-TCTGCCTTCT
1 CAATTTAATCATGGCCATATTTTAAAAAATATAACTTCT-TGCCTTCT
*
36916677 CAATTTAATCATGGCCATATTTTAAAAAATATATCTTCTTGCCTTCT
1 CAATTTAATCATGGCCATATTTTAAAAAATATAACTTCTTGCCTTCT
36916724 C
1 C
36916725 GTGAATTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (47 bp):
CAATTTAATCATGGCCATATTTTAAAAAATATAACTTCTTGCCTTCT
Found at i:36920849 original size:13 final size:14
Alignment explanation
Indices: 36920831--36920859 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36920821 GTAGGATACT
36920831 AACTAAAAT-ATGA
1 AACTAAAATCATGA
36920844 AACTAAAATCATGA
1 AACTAAAATCATGA
36920858 AA
1 AA
36920860 GGTAGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (14 bp):
AACTAAAATCATGA
Found at i:36921372 original size:28 final size:27
Alignment explanation
Indices: 36921319--36921400 Score: 110
Period size: 28 Copynumber: 3.0 Consensus size: 27
36921309 TAAACACGCC
* **
36921319 ATGAAAGAAAAACCTTTTTGACGAATT
1 ATGAAAGAAAAACCTTTGTGGTGAATT
36921346 ATGAAAGAAAAAGCCTTTGTGGTGAATT
1 ATGAAAGAAAAA-CCTTTGTGGTGAATT
*
36921374 ATGAAAGAAAAATCCGTTGTGGTGAAT
1 ATGAAAGAAAAA-CCTTTGTGGTGAAT
36921401 CATCAAAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 12 0.24
28 37 0.76
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
ATGAAAGAAAAACCTTTGTGGTGAATT
Found at i:36921408 original size:28 final size:28
Alignment explanation
Indices: 36921349--36921408 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
36921339 ACGAATTATG
* * *
36921349 AAAGAAAAAGCCTTTGTGGTGAATTATG
1 AAAGAAAAAGCCGTTGTGGTGAATCATC
*
36921377 AAAGAAAAATCCGTTGTGGTGAATCATC
1 AAAGAAAAAGCCGTTGTGGTGAATCATC
36921405 AAAG
1 AAAG
36921409 GATCGCCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (28 bp):
AAAGAAAAAGCCGTTGTGGTGAATCATC
Found at i:36922362 original size:68 final size:68
Alignment explanation
Indices: 36922284--36922419 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
36922274 CTAACTTTTC
36922284 CCATGTTGGAATTTTTAGAATAGTATAAATTATGGAAGTTGCCATCATATAGAAATTTAAGTTTT
1 CCATGTTGGAATTTTTAGAATAGTATAAATTATGGAAGTTGCCATCATATAGAAATTTAAGTTTT
36922349 TGG
66 TGG
36922352 CCATGTTGGAATTTTTAGAATAGTATAAATTATGGAAGTTGCCATCATATAGAAATTTAAGTTTT
1 CCATGTTGGAATTTTTAGAATAGTATAAATTATGGAAGTTGCCATCATATAGAAATTTAAGTTTT
36922417 TGG
66 TGG
36922420 TGTTGTTTTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (68 bp):
CCATGTTGGAATTTTTAGAATAGTATAAATTATGGAAGTTGCCATCATATAGAAATTTAAGTTTT
TGG
Found at i:36931715 original size:26 final size:26
Alignment explanation
Indices: 36931683--36931859 Score: 185
Period size: 26 Copynumber: 6.8 Consensus size: 26
36931673 TTTAAGTTTT
36931683 CGCCACAAAGGCTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* *
36931709 TGCCACAAAGCCTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* **
36931735 TGCCACAAAGATTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* * *
36931761 CGCTACAAAGGCCTCCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* * * *
36931787 CACCAGAAAGACTTTTTTTTTCATATTA
1 CGCCACAAAGGC--TTTCTTTCATATTA
* *
36931815 CGTCATAAAGGCTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* *
36931841 TGCCATAAAGGCTTT-TTTC
1 CGCCACAAAGGCTTTCTTTC
36931860 CTAATGTGTT
Statistics
Matches: 125, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
25 4 0.03
26 102 0.82
28 19 0.15
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (26 bp):
CGCCACAAAGGCTTTCTTTCATATTA
Found at i:36931825 original size:54 final size:54
Alignment explanation
Indices: 36931699--36931858 Score: 166
Period size: 54 Copynumber: 3.0 Consensus size: 54
36931689 AAAGGCTTTC
* * * *
36931699 TTTCATATTATGCCACAAA-GCCTTTCTTTCATATTATGCCACAAAGA--TTTTC
1 TTTCATATTACGCTACAAAGGCC-TCCTTTCATATTATGCCACAAAGACTTTTTT
** *
36931751 TTTCATATTACGCTACAAAGGCCTCCTTTCATATTACACCAGAAAGACTTTTTT
1 TTTCATATTACGCTACAAAGGCCTCCTTTCATATTATGCCACAAAGACTTTTTT
* * * * *
36931805 TTTCATATTACG-TCATAAAGGCTTTCTTTCATATTATGCCATAAAGGCTTTTTT
1 TTTCATATTACGCT-ACAAAGGCCTCCTTTCATATTATGCCACAAAGACTTTTTT
36931859 CCTAATGTGT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
52 37 0.41
53 4 0.04
54 49 0.54
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
TTTCATATTACGCTACAAAGGCCTCCTTTCATATTATGCCACAAAGACTTTTTT
Found at i:36937195 original size:17 final size:16
Alignment explanation
Indices: 36937152--36937204 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
36937142 AAAACATTTA
*
36937152 GAAAATTGTCATTTTTGG
1 GAAAATT-TTATTTTT-G
* *
36937170 GAAACTTTTCTTCTTTG
1 GAAAATTTTATT-TTTG
36937187 GAAAATTTTATTTTTG
1 GAAAATTTTATTTTTG
36937203 GA
1 GA
36937205 CTTTTTAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 6 0.21
17 14 0.48
18 9 0.31
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (16 bp):
GAAAATTTTATTTTTG
Found at i:36970233 original size:88 final size:88
Alignment explanation
Indices: 36970084--36970261 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 88
36970074 TCAAAGGCTA
*
36970084 TTTTGCAAGCCAAATAATCAGTCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
1 TTTTGCAAGCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
*
36970149 CCCAGTGCTCGGTTGGATCGATT
66 CCCAGTGCTCGATTGGATCGATT
*
36970172 TTTTGCAATCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
1 TTTTGCAAGCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
*
36970237 CCCAGTGCTCGATTGGATCGGTT
66 CCCAGTGCTCGATTGGATCGATT
36970260 TT
1 TT
36970262 CTCGGTTCAG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (88 bp):
TTTTGCAAGCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
CCCAGTGCTCGATTGGATCGATT
Found at i:36972524 original size:3 final size:3
Alignment explanation
Indices: 36972516--36972581 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
36972506 CTGTGAGATA
36972516 TTC TTC TTC TTC 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 TTC TTC TTC TTC
*
36972564 TAC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC
36972582 GGGATCCTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:36974354 original size:30 final size:30
Alignment explanation
Indices: 36974297--36974355 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
36974287 GACTTTAGAA
* * *
36974297 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAAACACCAAATTTTT
36974327 AATATTTACAAAAA-AAACAACCAAATTTT
1 AATATTTACAAAAAGAAAC-ACCAAATTTT
36974356 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAAACACCAAATTTTT
Found at i:36992557 original size:25 final size:25
Alignment explanation
Indices: 36992530--36992710 Score: 128
Period size: 25 Copynumber: 7.6 Consensus size: 25
36992520 CTAGACAAAG
* *
36992530 ATACACCACAAAGGCATCATATGGG
1 ATACGCCACAAAGGCATCATATGGA
* **
36992555 ATACGCCATAAAGGC-T-A-ACAGA
1 ATACGCCACAAAGGCATCATATGGA
* *
36992577 ATATGCCACAAAAGCATCATATGGA
1 ATACGCCACAAAGGCATCATATGGA
* * * *
36992602 ATACACCATAAAGGC-T-A-ACGAA
1 ATACGCCACAAAGGCATCATATGGA
* * *
36992624 ATATGCCACAAAGGCATCTTATAGA
1 ATACGCCACAAAGGCATCATATGGA
* *
36992649 ATACGCCATAAAGGC-T-A-ATAGA
1 ATACGCCACAAAGGCATCATATGGA
* *
36992671 ATATGCCAAAAAGGCATCATATGGA
1 ATACGCCACAAAGGCATCATATGGA
*
36992696 ATACACCACAAAGGC
1 ATACGCCACAAAGGC
36992711 TAACAGAATA
Statistics
Matches: 115, Mismatches: 32, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
22 47 0.41
23 5 0.04
24 5 0.04
25 58 0.50
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (25 bp):
ATACGCCACAAAGGCATCATATGGA
Found at i:36992672 original size:22 final size:22
Alignment explanation
Indices: 36992555--36992735 Score: 112
Period size: 22 Copynumber: 7.8 Consensus size: 22
36992545 ATCATATGGG
* *
36992555 ATACGCCATAAAGGCTAACAGA
1 ATACGCCACAAAGGCTAATAGA
* * *
36992577 ATATGCCACAAAAGCATCATATGGA
1 ATACGCCACAAAGGC-T-A-ATAGA
* * *
36992602 ATACACCATAAAGGCTAA-CGAA
1 ATACGCCACAAAGGCTAATAG-A
* *
36992624 ATATGCCACAAAGGCATCTTATAGA
1 ATACGCCACAAAGG---CTAATAGA
*
36992649 ATACGCCATAAAGGCTAATAGA
1 ATACGCCACAAAGGCTAATAGA
* * *
36992671 ATATGCCAAAAAGGCATCATATGGA
1 ATACGCCACAAAGGC-T-A-ATAGA
* *
36992696 ATACACCACAAAGGCTAACAGA
1 ATACGCCACAAAGGCTAATAGA
*
36992718 ATACGCAACAAAGGCTAA
1 ATACGCCACAAAGGCTAA
36992736 ACAGAAAACC
Statistics
Matches: 120, Mismatches: 28, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
21 1 0.01
22 64 0.53
23 4 0.03
24 4 0.03
25 46 0.38
26 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.17
Consensus pattern (22 bp):
ATACGCCACAAAGGCTAATAGA
Found at i:36992672 original size:94 final size:94
Alignment explanation
Indices: 36992504--36992732 Score: 318
Period size: 94 Copynumber: 2.4 Consensus size: 94
36992494 AGATTTGTCA
* * * * *
36992504 GAATACACCACAAGGGCTAGACAAAGATACACCACAAAGGCATCATATGGGATACGCCATAAAGG
1 GAATACACCACAAAGGCTA-ACAGA-ATACGCCACAAAGGCATCATATAGAATACGCCATAAAGG
36992569 CTAACAGAATATGCCACAAAA-GCATCATATG
64 CTAACAGAATATGCCA-AAAAGGCATCATATG
* * *
36992600 GAATACACCATAAAGGCTAAC-GAAATATGCCACAAAGGCATCTTATAGAATACGCCATAAAGGC
1 GAATACACCACAAAGGCTAACAG-AATACGCCACAAAGGCATCATATAGAATACGCCATAAAGGC
*
36992664 TAATAGAATATGCCAAAAAGGCATCATATG
65 TAACAGAATATGCCAAAAAGGCATCATATG
*
36992694 GAATACACCACAAAGGCTAACAGAATACGCAACAAAGGC
1 GAATACACCACAAAGGCTAACAGAATACGCCACAAAGGC
36992733 TAAACAGAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
93 4 0.03
94 93 0.79
95 4 0.03
96 17 0.14
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.15
Consensus pattern (94 bp):
GAATACACCACAAAGGCTAACAGAATACGCCACAAAGGCATCATATAGAATACGCCATAAAGGCT
AACAGAATATGCCAAAAAGGCATCATATG
Found at i:36992731 original size:47 final size:47
Alignment explanation
Indices: 36992535--36992732 Score: 281
Period size: 47 Copynumber: 4.2 Consensus size: 47
36992525 CAAAGATACA
* *
36992535 CCACAAAGGCATCATATGGGATACGCCATAAAGGCTAACAGAATATG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
*
36992582 CCACAAAAGCATCATATGGAATACACCATAAAGGCTAAC-GAAATATG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAG-AATATG
* * * *
36992629 CCACAAAGGCATCTTATAGAATACGCCATAAAGGCTAATAGAATATG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
* * *
36992676 CCAAAAAGGCATCATATGGAATACACCACAAAGGCTAACAGAATACG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
*
36992723 CAACAAAGGC
1 CCACAAAGGC
36992733 TAAACAGAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
46 1 0.01
47 130 0.98
48 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (47 bp):
CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
Found at i:36995155 original size:27 final size:27
Alignment explanation
Indices: 36995117--36995170 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
36995107 TAATTGAGTA
36995117 TAAATCATATTGGGTTCAAGTTTAAGG
1 TAAATCATATTGGGTTCAAGTTTAAGG
36995144 TAAATCATATTGGGTTCAAGTTTAAGG
1 TAAATCATATTGGGTTCAAGTTTAAGG
36995171 CTTAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (27 bp):
TAAATCATATTGGGTTCAAGTTTAAGG
Found at i:36997798 original size:29 final size:29
Alignment explanation
Indices: 36997741--36997802 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
36997731 GGATGGGAGG
*
36997741 GAAGTAAAAGTTTTGAGAAAAAGTGAAAA
1 GAAGTAAAAGTTTAGAGAAAAAGTGAAAA
*
36997770 GAAGTAAAAGTATTAGGGAAAAAGT-AAAA
1 GAAGTAAAAGT-TTAGAGAAAAAGTGAAAA
36997799 -AAGT
1 GAAGT
36997803 TTAGAGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 4 0.13
29 15 0.50
30 11 0.37
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.19
Consensus pattern (29 bp):
GAAGTAAAAGTTTAGAGAAAAAGTGAAAA
Found at i:36998608 original size:21 final size:21
Alignment explanation
Indices: 36998583--36998651 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
36998573 TCAAATTATG
36998583 TATTGTAGTTAATATTCATAA
1 TATTGTAGTTAATATTCATAA
* *
36998604 TATTGTAGCTCAA-ATT-AT-G
1 TATTGTAG-TTAATATTCATAA
36998623 TATTGTAGTTAATATTCATAA
1 TATTGTAGTTAATATTCATAA
36998644 TATTGTAG
1 TATTGTAG
36998652 CTCAAATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.28
20 4 0.10
21 19 0.47
22 3 0.08
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (21 bp):
TATTGTAGTTAATATTCATAA
Found at i:36998612 original size:40 final size:40
Alignment explanation
Indices: 36998562--36998659 Score: 189
Period size: 40 Copynumber: 2.5 Consensus size: 40
36998552 TGTATTACTG
36998562 TAATA-TGTAGCTCAAATTATGTATTGTAGTTAATATTCA
1 TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
36998601 TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
1 TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
36998641 TAATATTGTAGCTCAAATT
1 TAATATTGTAGCTCAAATT
36998660 GTCAATCCGT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.09
40 53 0.91
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (40 bp):
TAATATTGTAGCTCAAATTATGTATTGTAGTTAATATTCA
Found at i:37001730 original size:15 final size:15
Alignment explanation
Indices: 37001706--37001751 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
37001696 TATTCGAAGC
*
37001706 AAACATAAAAAGAAA
1 AAACAAAAAAAGAAA
37001721 AAACAAAAAAA-ACAA
1 AAACAAAAAAAGA-AA
37001736 AAACAAAAAAAGAAA
1 AAACAAAAAAAGAAA
37001751 A
1 A
37001752 GGTTTTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (15 bp):
AAACAAAAAAAGAAA
Found at i:37014492 original size:94 final size:95
Alignment explanation
Indices: 37014346--37014699 Score: 344
Period size: 94 Copynumber: 3.8 Consensus size: 95
37014336 TATACCCCTA
* * * * * *
37014346 AAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCTGAAGTTGCAGTGGAGC
1 AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
*
37014411 AAGATAAAGCTACAAATCT-TATATCACAT-
66 AAGATGAAGCTACAAATCTCTATA-CACATG
* * * * *
37014440 AAGTTGTAGTAGGTCGGATTGAAGTTACAATATCGAATCTTATCTTCCTGAAGTTATAGTGGAGC
1 AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
* *
37014505 AAGATGAAGCTACAAAT-TCTATACCCCTG
66 AAGATGAAGCTACAAATCTCTATACACATG
* * *
37014534 AA-TTGTAGTGGGTCGGATTGAAGCTACGATAGCGAATCTTATCTCCCTGAAGTTGTAGCGGAAC
1 AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
* * * *
37014598 AAGATGAGGCTACAAATC-CTAGATC-CTTA
66 AAGATGAAGCTACAAATCTCTATA-CACATG
* * * * * * * * * *
37014627 AAATTGCAATGGAAT-GGATTGAAACTACAATAGCAAATCTTATCTTCTTGAAGTTGCAATGGAG
1 AAGTTGTAGTGG-GTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAG
*
37014691 TAAGATGAA
65 CAAGATGAA
37014700 ACTGTAACAC
Statistics
Matches: 214, Mismatches: 40, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
93 82 0.38
94 131 0.61
95 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (95 bp):
AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
AAGATGAAGCTACAAATCTCTATACACATG
Found at i:37014668 original size:187 final size:188
Alignment explanation
Indices: 37014330--37014699 Score: 433
Period size: 187 Copynumber: 2.0 Consensus size: 188
37014320 ATGAAACCAT
37014330 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
1 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
* * * * * * *
37014395 GAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCTTATATCACATAAGTTGTAGTAGGTCGGATT
66 GAAGTTGCAGCGGAACAAGATAAAGCTACAAATCCTAGATCACATAAATTGCAATAGGTCGGATT
** * * * *
37014460 GAAGTTACAATATCGAATCTTATCTTCCTGAAGTTATAGTGGAGCAAGATGAAGCTAC
131 GAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAAGCTAC
* * * * * * * *
37014518 AAATTCTATACCCCTGAA-TTGTAGTGGGTCGGATTGAAGCTACGATAGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
* * * *
37014582 GAAGTTGTAGCGGAACAAGATGAGGCTACAAATCCTAGATC-CTTAAAATTGCAAT-GGAAT-GG
66 GAAGTTGCAGCGGAACAAGATAAAGCTACAAATCCTAGATCACAT-AAATTGCAATAGG--TCGG
* * *
37014644 ATTGAAACTACAATAGCAAATCTTATCTTCTTGAAGTTGCAATGGAGTAAGATGAA
128 ATTGAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAA
37014700 ACTGTAACAC
Statistics
Matches: 151, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
186 4 0.03
187 130 0.86
188 17 0.11
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (188 bp):
AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
GAAGTTGCAGCGGAACAAGATAAAGCTACAAATCCTAGATCACATAAATTGCAATAGGTCGGATT
GAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAAGCTAC
Found at i:37018526 original size:31 final size:31
Alignment explanation
Indices: 37018483--37018544 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
37018473 CATATTCACT
*
37018483 TATACCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAAAGCATACATATA
*
37018514 TATATCCACCTATGCCGAAAGCATACATATA
1 TATACCCACCTATGCCGAAAGCATACATATA
37018545 CACACTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.26
Consensus pattern (31 bp):
TATACCCACCTATGCCGAAAGCATACATATA
Found at i:37018797 original size:41 final size:41
Alignment explanation
Indices: 37018739--37018931 Score: 210
Period size: 41 Copynumber: 4.7 Consensus size: 41
37018729 AGATTCACTC
* * * *
37018739 GCACTTCA-CCTGATAGGCTTATAGTCTAATTCTGTTCACCG
1 GCACTT-AGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
* * * * *
37018780 GCACTTAGCTTGCTAGGCCTATAGCCTGATTTAGTTCATCG
1 GCACTTAGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
* * *
37018821 GCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
* *
37018862 GCACTTAGCCTGCT-GGACGTATAGTCCGATTCAATTCACCG
1 GCACTTAGCCTGCTAGG-CGTATAGTCTGATTCAGTTCACCG
* *
37018903 GCACATAGCCTGCTAGACGTATAGTCTGA
1 GCACTTAGCCTGCTAGGCGTATAGTCTGA
37018932 ACAATTTCAC
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
40 3 0.02
41 124 0.97
42 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCGTATAGTCTGATTCAGTTCACCG
Found at i:37026311 original size:33 final size:29
Alignment explanation
Indices: 37026273--37026343 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 29
37026263 CAACTATAAG
37026273 TGCCGAATGCACATATTCACTTATACCCACCTA
1 TGCCGAATGCACATA-T-A--TATACCCACCTA
*
37026306 TGCCGAATG--CATATATATATCCACCTA
1 TGCCGAATGCACATATATATACCCACCTA
37026333 TGCCGAATGCA
1 TGCCGAATGCA
37026344 TACATATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 20 0.57
29 1 0.03
30 1 0.03
31 4 0.11
33 9 0.26
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (29 bp):
TGCCGAATGCACATATATATACCCACCTA
Found at i:37026324 original size:27 final size:27
Alignment explanation
Indices: 37026294--37026352 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
37026284 CATATTCACT
*
37026294 TATACCCACCTATGCCGAATGCATATA
1 TATACCCACCTATGCCGAATGCATACA
*
37026321 TATATCCACCTATGCCGAATGCATACA
1 TATACCCACCTATGCCGAATGCATACA
37026348 TATAC
1 TATAC
37026353 ACACTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (27 bp):
TATACCCACCTATGCCGAATGCATACA
Found at i:37026604 original size:41 final size:41
Alignment explanation
Indices: 37026539--37026738 Score: 242
Period size: 41 Copynumber: 4.9 Consensus size: 41
37026529 TTTAAACAGA
* * * * *
37026539 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCGTATAGTCTGATTCAG
* * *
37026580 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTTAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* * *
37026621 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
* *
37026662 TTCACCGGCACTTAGCCTGCT-GGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CGTATAGTCTGATTCAG
*
37026703 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGA
37026739 ACAACTTCAC
Statistics
Matches: 139, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 3 0.02
41 135 0.97
42 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCAG
Found at i:37033396 original size:37 final size:37
Alignment explanation
Indices: 37033346--37033424 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
37033336 TTATTACGAA
* *
37033346 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
37033383 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
37033420 GTCTT
1 GTCTT
37033425 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:37033621 original size:47 final size:47
Alignment explanation
Indices: 37033543--37034114 Score: 910
Period size: 47 Copynumber: 12.1 Consensus size: 47
37033533 CCCTTCGGGA
** * * * * * *
37033543 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
37033590 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37033637 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37033684 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37033731 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37033780 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
37033827 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37033874 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37033921 CTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
37033968 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
37034015 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37034062 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
37034111 CTTA
1 CTTA
37034115 CTATCATTTC
Statistics
Matches: 500, Mismatches: 21, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 411 0.82
49 89 0.18
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37035799 original size:26 final size:28
Alignment explanation
Indices: 37035745--37035805 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
37035735 TATTATCAAG
* *
37035745 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
37035773 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
37035799 AATTATA
1 AATTATA
37035806 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:37035869 original size:17 final size:17
Alignment explanation
Indices: 37035847--37035880 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
37035837 ATTATTTTAA
37035847 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAAT-ATAT
37035864 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
37035881 TTAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:37036035 original size:121 final size:120
Alignment explanation
Indices: 37035846--37036258 Score: 713
Period size: 120 Copynumber: 3.4 Consensus size: 120
37035836 AATTATTTTA
* * * *
37035846 AATTTTATTAAATCATATATTTTAATTA-AATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
*
37035909 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
37035965 AATTTTTATTAAATTATATATTTTAATTATAATGTATTTAATAATAATTATGTTAATTTATATTT
1 AA-TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
*
37036030 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
37036086 AATTTTATTAAATTATATATTTTATTTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
37036151 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTTTTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
37036206 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
37036259 TAAATATGAT
Statistics
Matches: 279, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
119 2 0.01
120 191 0.68
121 84 0.30
122 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:37036043 original size:59 final size:59
Alignment explanation
Indices: 37035980--37036165 Score: 184
Period size: 59 Copynumber: 3.1 Consensus size: 59
37035970 TTATTAAATT
37035980 ATATATTTTAATTATAATGTATTTAATAATAATTATGTTAATTTATATTTTATAGTATC
1 ATATATTTTAATTATAATGTATTTAATAATAATTATGTTAATTTATATTTTATAGTATC
* * * * * * *
37036039 ATATATTATGATT-TGA-GTAAATTCATATAAGAA-TATTGATT-ATTAATAATTTTATTA-AAT
1 ATATATTTTAATTATAATGT--ATTTA-ATAATAATTA-TG-TTAATTTAT-ATTTTA-TAGTAT
*
37036099 T
59 C
* *
37036100 ATATATTTTATTTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATC
1 ATATATTTTAATTATAATGTATTTAATAATAATTATGTTAATTTATATTTTATAGTATC
37036159 ATATATT
1 ATATATT
37036166 ATGATTTGAG
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 2 0.02
58 4 0.04
59 34 0.35
60 26 0.27
61 26 0.27
62 4 0.04
63 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (59 bp):
ATATATTTTAATTATAATGTATTTAATAATAATTATGTTAATTTATATTTTATAGTATC
Found at i:37036121 original size:16 final size:17
Alignment explanation
Indices: 37036082--37036123 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
37036072 TATTGATTAT
37036082 TAATA-ATTTTATTAAA
1 TAATATATTTTATTAAA
* *
37036098 TTATATATTTTATT-TA
1 TAATATATTTTATTAAA
37036114 TAATATATTT
1 TAATATATTT
37036124 AATAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATATTTTATTAAA
Found at i:37036241 original size:16 final size:16
Alignment explanation
Indices: 37036220--37036261 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37036210 TTATTAAATT
*
37036220 ATATATTTTAATTATA
1 ATATATTTTAATAATA
37036236 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
37036251 AT-TATGTTTAA
1 ATATAT-TTTAA
37036262 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:37036246 original size:15 final size:15
Alignment explanation
Indices: 37036211--37036252 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37036201 TTAAGAATTT
*
37036211 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37036225 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37036239 TATTTAATAATAAT
1 TATTTAATTATAAT
37036253 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:37036440 original size:39 final size:40
Alignment explanation
Indices: 37036392--37036493 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 40
37036382 CATTATGCTG
*
37036392 TTACACCTCTATTCCATTCAACCAAACACA-AGA-TTACTA
1 TTACGCCTCTATTCCATTCAACCAAACA-ATAGATTTACTA
* *
37036431 TTACGCCTCTATTCCATTACATTCAACCAAACAATTGATTTGCTA
1 TTACGCCTCTATT-C----CATTCAACCAAACAATAGATTTACTA
37036476 TTACGCCTCTATTCCATT
1 TTACGCCTCTATTCCATT
37036494 ACGCCTCTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
39 12 0.23
40 5 0.09
43 1 0.02
44 17 0.32
45 18 0.34
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.34
Consensus pattern (40 bp):
TTACGCCTCTATTCCATTCAACCAAACAATAGATTTACTA
Found at i:37036486 original size:45 final size:44
Alignment explanation
Indices: 37036406--37036495 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
37036396 ACCTCTATTC
37036406 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
37036450 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
37036495 C
1 C
37036496 GCCTCTAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:37036496 original size:16 final size:16
Alignment explanation
Indices: 37036475--37036523 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
37036465 TTGATTTGCT
37036475 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
37036491 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
*
37036507 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
37036523 A
1 A
37036524 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:37036681 original size:26 final size:27
Alignment explanation
Indices: 37036643--37036695 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
37036633 TGTCTCGACT
*
37036643 TTTAACTGACGAA-CCTTAGTTCGCAA
1 TTTAACTGACGAACCCCTAGTTCGCAA
37036669 TTTAACT-AGCGAACCCCTAGTTCGCAA
1 TTTAACTGA-CGAACCCCTAGTTCGCAA
37036696 CTTGATTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 11 0.46
27 12 0.50
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
TTTAACTGACGAACCCCTAGTTCGCAA
Done.